Citrus Sinensis ID: 048142

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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--
Protein Sequence
YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHcccccccEEHHHHHHHHHHHcHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHcccccHHHHHHHHHHHcHHccccccccccHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccccHHccccHHHHHHHHHHccHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHcccEEEEEccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHcccccccEcccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEEEccEEEEEEEccccccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEccccccccccccEcccccc
Coil and Loop (DISEMBL)
YVEDSACEEALLLFREVQhkgltgdkVTMVSLLLACTHLgalevgmwlhpyiMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQirgvkpdaITFVGVLVACShaglvderISHFNlmsekygirpsiehyGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLEllpdnggsyVILSNRYSSSRKWKKVKRIRELMAErnikkppgcilieVDGVVHEFVkagfvpnksevlfdMDEEEKETALNLHTEKLAITfglvspmpGVLIRIIKNLRVCNDCHTATNIISkvynretvvmdrnrfhhfkngscsckdfw
Flexible Loop (DISEMBL)
YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLEllpdnggsyvilsnrysssrkwkkvKRIRELmaernikkppgciLIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTatniiskvynrETVVMDRnrfhhfkngscsckdfw
Low Complexity Region (SEG)
YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNleaaeraaqqllellPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW
Disordered region (IsUnstruct)
******CEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDE**KETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSC****
Disordered Region (DISOPRED)
YV**SACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW
Disordered Region (DISEMBL)
YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY********VKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW
Disordered Region (DISPRO)
**EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW
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	352	2.2.26 [Sep-21-2011]
O82380	738	Pentatricopeptide repeat-	yes	no	1.0	0.476	0.437	6e-90
Q9FG16	622	Pentatricopeptide repeat-	no	no	1.0	0.565	0.401	7e-89
Q683I9	573	Pentatricopeptide repeat-	no	no	1.0	0.614	0.429	4e-88
Q9FI80	646	Pentatricopeptide repeat-	no	no	0.980	0.534	0.414	2e-87
Q9FJY7	620	Pentatricopeptide repeat-	no	no	1.0	0.567	0.411	1e-86
Q9FND7	612	Putative pentatricopeptid	no	no	1.0	0.575	0.429	4e-86
Q9LN01	741	Pentatricopeptide repeat-	no	no	1.0	0.475	0.422	4e-85
Q9SZT8	632	Pentatricopeptide repeat-	no	no	1.0	0.556	0.415	4e-85
A8MQA3	595	Pentatricopeptide repeat-	no	no	1.0	0.591	0.431	5e-85
Q9LW32	659	Pentatricopeptide repeat-	no	no	1.0	0.534	0.413	9e-85

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

 Score =  331 bits (848), Expect = 6e-90,   Method: Compositional matrix adjust.
 Identities = 175/400 (43%), Positives = 240/400 (60%), Gaps = 48/400 (12%)

Query: 1   YVEDSACEEALLLFREVQ-HKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEV 59
           Y ++    EAL++F E+Q  K +  +++T+VS L AC  +GALE+G W+H YI K  I +
Sbjct: 339 YEQNGKPNEALIVFHELQLQKNMKLNQITLVSTLSACAQVGALELGRWIHSYIKKHGIRM 398

Query: 60  DVGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQ 97
           +  +  AL                      +DV   +A+I  LAM G GN+A++ FY+MQ
Sbjct: 399 NFHVTSALIHMYSKCGDLEKSREVFNSVEKRDVFVWSAMIGGLAMHGCGNEAVDMFYKMQ 458

Query: 98  IRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRI 157
              VKP+ +TF  V  ACSH GLVDE  S F+ M   YGI P  +HY C+V +LGR+G +
Sbjct: 459 EANVKPNGVTFTNVFCACSHTGLVDEAESLFHQMESNYGIVPEEKHYACIVDVLGRSGYL 518

Query: 158 AKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY 217
            KA + I+ MP+     V G LLGAC+IH NL  AE A  +LLEL P N G++V+LSN Y
Sbjct: 519 EKAVKFIEAMPIPPSTSVWGALLGACKIHANLNLAEMACTRLLELEPRNDGAHVLLSNIY 578

Query: 218 SSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKA------------------ 259
           +   KW+ V  +R+ M    +KK PGC  IE+DG++HEF+                    
Sbjct: 579 AKLGKWENVSELRKHMRVTGLKKEPGCSSIEIDGMIHEFLSGDNAHPMSEKVYGKLHEVM 638

Query: 260 ------GFVPNKSEVLFDMDEEE-KETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVC 312
                 G+ P  S+VL  ++EEE KE +LNLH+EKLAI +GL+S     +IR+IKNLRVC
Sbjct: 639 EKLKSNGYEPEISQVLQIIEEEEMKEQSLNLHSEKLAICYGLISTEAPKVIRVIKNLRVC 698

Query: 313 NDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
            DCH+   +IS++Y+RE +V DR RFHHF+NG CSC DFW
Sbjct: 699 GDCHSVAKLISQLYDREIIVRDRYRFHHFRNGQCSCNDFW 738

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG16|PP367_ARATH Pentatricopeptide repeat-containing protein At5g06540 OS=Arabidopsis thaliana GN=PCMP-H88 PE=2 SV=1

 Score =  327 bits (839), Expect = 7e-89,   Method: Compositional matrix adjust.
 Identities = 160/399 (40%), Positives = 248/399 (62%), Gaps = 47/399 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           Y +++  E+A+ LF  ++ +G+  ++  MVS++ +C HLGALE G   + Y++K ++ V+
Sbjct: 224 YAKNNCFEKAIDLFEFMKREGVVANETVMVSVISSCAHLGALEFGERAYEYVVKSHMTVN 283

Query: 61  VGLGMALKDV----------------------MTLTALIVVLAMCGQGNKALEYFYEMQI 98
           + LG AL D+                      ++ +++I  LA+ G  +KA+ YF +M  
Sbjct: 284 LILGTALVDMFWRCGDIEKAIHVFEGLPETDSLSWSSIIKGLAVHGHAHKAMHYFSQMIS 343

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
            G  P  +TF  VL ACSH GLV++ +  +  M + +GI P +EHYGC+V +LGRAG++A
Sbjct: 344 LGFIPRDVTFTAVLSACSHGGLVEKGLEIYENMKKDHGIEPRLEHYGCIVDMLGRAGKLA 403

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +AE  I  M +  +  +LG LLGAC+I+ N E AER    L+++ P++ G YV+LSN Y+
Sbjct: 404 EAENFILKMHVKPNAPILGALLGACKIYKNTEVAERVGNMLIKVKPEHSGYYVLLSNIYA 463

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKA------------------- 259
            + +W K++ +R++M E+ +KKPPG  LIE+DG +++F                      
Sbjct: 464 CAGQWDKIESLRDMMKEKLVKKPPGWSLIEIDGKINKFTMGDDQKHPEMGKIRRKWEEIL 523

Query: 260 ------GFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCN 313
                 G+  N  +  FD+DEEEKE+++++H+EKLAI +G++   PG  IRI+KNLRVC 
Sbjct: 524 GKIRLIGYKGNTGDAFFDVDEEEKESSIHMHSEKLAIAYGMMKTKPGTTIRIVKNLRVCE 583

Query: 314 DCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           DCHT T +IS+VY RE +V DRNRFHHF+NG CSC+D+W
Sbjct: 584 DCHTVTKLISEVYGRELIVRDRNRFHHFRNGVCSCRDYW 622

Arabidopsis thaliana (taxid: 3702)

>sp|Q683I9|PP295_ARATH Pentatricopeptide repeat-containing protein At3g62890 OS=Arabidopsis thaliana GN=PCMP-H82 PE=2 SV=1

 Score =  325 bits (832), Expect = 4e-88,   Method: Compositional matrix adjust.
 Identities = 174/405 (42%), Positives = 244/405 (60%), Gaps = 53/405 (13%)

Query: 1   YVEDSACEEALLLFREVQ-----HKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKK 55
           YV     +EAL LFRE+Q        +  ++ TM ++L AC  LGALE G W+H YI K 
Sbjct: 169 YVMCGKYKEALDLFREMQLPKPNEAFVRPNEFTMSTVLSACGRLGALEQGKWVHAYIDKY 228

Query: 56  NIEVDVGLGMAL-----------------------KDVMTLTALIVVLAMCGQGNKALEY 92
           ++E+D+ LG AL                       KDV   +A+I  LAM G  ++  + 
Sbjct: 229 HVEIDIVLGTALIDMYAKCGSLERAKRVFNALGSKKDVKAYSAMICCLAMYGLTDECFQL 288

Query: 93  FYEMQIR-GVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYIL 151
           F EM     + P+++TFVG+L AC H GL++E  S+F +M E++GI PSI+HYGC+V + 
Sbjct: 289 FSEMTTSDNINPNSVTFVGILGACVHRGLINEGKSYFKMMIEEFGITPSIQHYGCMVDLY 348

Query: 152 GRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYV 211
           GR+G I +AE  I +MPM  D  + G LL   R+  +++  E A ++L+EL P N G+YV
Sbjct: 349 GRSGLIKEAESFIASMPMEPDVLIWGSLLSGSRMLGDIKTCEGALKRLIELDPMNSGAYV 408

Query: 212 ILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV-------------- 257
           +LSN Y+ + +W +VK IR  M  + I K PGC  +EV+GVVHEFV              
Sbjct: 409 LLSNVYAKTGRWMEVKCIRHEMEVKGINKVPGCSYVEVEGVVHEFVVGDESQQESERIYA 468

Query: 258 ----------KAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIK 307
                     +AG+V +  EVL D++E++KE AL+ H+EKLAI F L+   PG  +RIIK
Sbjct: 469 MLDEIMQRLREAGYVTDTKEVLLDLNEKDKEIALSYHSEKLAIAFCLMKTRPGTPVRIIK 528

Query: 308 NLRVCNDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           NLR+C DCH    +ISK+++RE VV D NRFHHF++GSCSC+DFW
Sbjct: 529 NLRICGDCHLVMKMISKLFSREIVVRDCNRFHHFRDGSCSCRDFW 573

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FI80|PP425_ARATH Pentatricopeptide repeat-containing protein At5g48910 OS=Arabidopsis thaliana GN=PCMP-H38 PE=2 SV=1

 Score =  322 bits (826), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 162/391 (41%), Positives = 238/391 (60%), Gaps = 46/391 (11%)

Query: 8   EEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL 67
           ++A+ +FRE++   +  + VT+VS+L A + LG+LE+G WLH Y     I +D  LG AL
Sbjct: 256 KDAVEVFREMKKGDIRPNYVTLVSVLPAISRLGSLELGEWLHLYAEDSGIRIDDVLGSAL 315

Query: 68  KD----------------------VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA 105
            D                      V+T +A+I   A+ GQ   A++ F +M+  GV+P  
Sbjct: 316 IDMYSKCGIIEKAIHVFERLPRENVITWSAMINGFAIHGQAGDAIDCFCKMRQAGVRPSD 375

Query: 106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIK 165
           + ++ +L ACSH GLV+E   +F+ M    G+ P IEHYGC+V +LGR+G + +AEE I 
Sbjct: 376 VAYINLLTACSHGGLVEEGRRYFSQMVSVDGLEPRIEHYGCMVDLLGRSGLLDEAEEFIL 435

Query: 166 NMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKK 225
           NMP+  D  +   LLGACR+  N+E  +R A  L++++P + G+YV LSN Y+S   W +
Sbjct: 436 NMPIKPDDVIWKALLGACRMQGNVEMGKRVANILMDMVPHDSGAYVALSNMYASQGNWSE 495

Query: 226 VKRIRELMAERNIKKPPGCILIEVDGVVHEFVK------------------------AGF 261
           V  +R  M E++I+K PGC LI++DGV+HEFV                         AG+
Sbjct: 496 VSEMRLRMKEKDIRKDPGCSLIDIDGVLHEFVVEDDSHPKAKEINSMLVEISDKLRLAGY 555

Query: 262 VPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNI 321
            P  ++VL +++EE+KE  L+ H+EK+A  FGL+S  PG  IRI+KNLR+C DCH++  +
Sbjct: 556 RPITTQVLLNLEEEDKENVLHYHSEKIATAFGLISTSPGKPIRIVKNLRICEDCHSSIKL 615

Query: 322 ISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           ISKVY R+  V DR RFHHF++GSCSC D+W
Sbjct: 616 ISKVYKRKITVRDRKRFHHFQDGSCSCMDYW 646

Arabidopsis thaliana (taxid: 3702)

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

 Score =  320 bits (819), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 164/399 (41%), Positives = 227/399 (56%), Gaps = 47/399 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           YV+    +EAL LF E+Q+  +  D V++ + L AC  LGALE G W+H Y+ K  I +D
Sbjct: 222 YVQADMNKEALQLFHEMQNSDVEPDNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMD 281

Query: 61  VGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
             LG  L                      K V   TALI   A  G G +A+  F EMQ 
Sbjct: 282 SVLGCVLIDMYAKCGEMEEALEVFKNIKKKSVQAWTALISGYAYHGHGREAISKFMEMQK 341

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
            G+KP+ ITF  VL ACS+ GLV+E    F  M   Y ++P+IEHYGC+V +LGRAG + 
Sbjct: 342 MGIKPNVITFTAVLTACSYTGLVEEGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLD 401

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +A+  I+ MP+  +  + G LL ACRIH N+E  E   + L+ + P +GG YV  +N ++
Sbjct: 402 EAKRFIQEMPLKPNAVIWGALLKACRIHKNIELGEEIGEILIAIDPYHGGRYVHKANIHA 461

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKA------------------- 259
             +KW K    R LM E+ + K PGC  I ++G  HEF+                     
Sbjct: 462 MDKKWDKAAETRRLMKEQGVAKVPGCSTISLEGTTHEFLAGDRSHPEIEKIQSKWRIMRR 521

Query: 260 -----GFVPNKSEVLFDM-DEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCN 313
                G+VP   E+L D+ D++E+E  ++ H+EKLAIT+GL+   PG +IRI+KNLRVC 
Sbjct: 522 KLEENGYVPELEEMLLDLVDDDEREAIVHQHSEKLAITYGLIKTKPGTIIRIMKNLRVCK 581

Query: 314 DCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           DCH  T +ISK+Y R+ V+ DR RFHHF++G CSC D+W
Sbjct: 582 DCHKVTKLISKIYKRDIVMRDRTRFHHFRDGKCSCGDYW 620

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FND7|PP410_ARATH Putative pentatricopeptide repeat-containing protein At5g40405 OS=Arabidopsis thaliana GN=PCMP-H14 PE=3 SV=1

 Score =  318 bits (814), Expect = 4e-86,   Method: Compositional matrix adjust.
 Identities = 171/398 (42%), Positives = 230/398 (57%), Gaps = 46/398 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           Y +     EAL +F  +Q +G+  + V M+S+L ACT LGAL+ G W H YI +  I++ 
Sbjct: 215 YAQVGESREALNVFHLMQLEGVKVNGVAMISVLSACTQLGALDQGRWAHSYIERNKIKIT 274

Query: 61  VGL----------------------GMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
           V L                      GM  K+V T ++ +  LAM G G K LE F  M+ 
Sbjct: 275 VRLATTLVDLYAKCGDMEKAMEVFWGMEEKNVYTWSSALNGLAMNGFGEKCLELFSLMKQ 334

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
            GV P+A+TFV VL  CS  G VDE   HF+ M  ++GI P +EHYGCLV +  RAGR+ 
Sbjct: 335 DGVTPNAVTFVSVLRGCSVVGFVDEGQRHFDSMRNEFGIEPQLEHYGCLVDLYARAGRLE 394

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
            A  +I+ MPM     V   LL A R++ NLE    A++++LEL   N G+YV+LSN Y+
Sbjct: 395 DAVSIIQQMPMKPHAAVWSSLLHASRMYKNLELGVLASKKMLELETANHGAYVLLSNIYA 454

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVK-------------------- 258
            S  W  V  +R+ M  + ++K PGC ++EV+G VHEF                      
Sbjct: 455 DSNDWDNVSHVRQSMKSKGVRKQPGCSVMEVNGEVHEFFVGDKSHPKYTQIDAVWKDISR 514

Query: 259 ----AGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND 314
               AG+  + + V+FD+DEEEKE AL LH+EK AI FG++S    V IRI+KNLRVC D
Sbjct: 515 RLRLAGYKADTTPVMFDIDEEEKEDALCLHSEKAAIAFGIMSLKEDVPIRIVKNLRVCGD 574

Query: 315 CHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           CH  + +ISK++NRE +V DRNRFHHFK+G CSC  FW
Sbjct: 575 CHQVSMMISKIFNREIIVRDRNRFHHFKDGHCSCNGFW 612

Arabidopsis thaliana (taxid: 3702)

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

 Score =  315 bits (806), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 169/400 (42%), Positives = 242/400 (60%), Gaps = 48/400 (12%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKK----- 55
           Y   +  +EALLLF+E+   G T + VTM+S+L AC HLGA+++G W+H YI K+     
Sbjct: 342 YTHMNLYKEALLLFQEMLRSGETPNDVTMLSILPACAHLGAIDIGRWIHVYIDKRLKGVT 401

Query: 56  -----------------NIEV--DVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEM 96
                            +IE    V   +  K + +  A+I   AM G+ + + + F  M
Sbjct: 402 NASSLRTSLIDMYAKCGDIEAAHQVFNSILHKSLSSWNAMIFGFAMHGRADASFDLFSRM 461

Query: 97  QIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGR 156
           +  G++PD ITFVG+L ACSH+G++D     F  M++ Y + P +EHYGC++ +LG +G 
Sbjct: 462 RKIGIQPDDITFVGLLSACSHSGMLDLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSGL 521

Query: 157 IAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNR 216
             +AEE+I  M M  D  +   LL AC++H N+E  E  A+ L+++ P+N GSYV+LSN 
Sbjct: 522 FKEAEEMINMMEMEPDGVIWCSLLKACKMHGNVELGESFAENLIKIEPENPGSYVLLSNI 581

Query: 217 YSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV------------------- 257
           Y+S+ +W +V + R L+ ++ +KK PGC  IE+D VVHEF+                   
Sbjct: 582 YASAGRWNEVAKTRALLNDKGMKKVPGCSSIEIDSVVHEFIIGDKFHPRNREIYGMLEEM 641

Query: 258 -----KAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVC 312
                KAGFVP+ SEVL +M+EE KE AL  H+EKLAI FGL+S  PG  + I+KNLRVC
Sbjct: 642 EVLLEKAGFVPDTSEVLQEMEEEWKEGALRHHSEKLAIAFGLISTKPGTKLTIVKNLRVC 701

Query: 313 NDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
            +CH AT +ISK+Y RE +  DR RFHHF++G CSC D+W
Sbjct: 702 RNCHEATKLISKIYKREIIARDRTRFHHFRDGVCSCNDYW 741

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZT8|PP354_ARATH Pentatricopeptide repeat-containing protein At4g37380, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H48 PE=3 SV=1

 Score =  315 bits (806), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 166/400 (41%), Positives = 238/400 (59%), Gaps = 48/400 (12%)

Query: 1   YVEDSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEV 59
           Y +     +AL+LF+++  +G    D++T+V+ L AC+ +GALE G W+H ++    I +
Sbjct: 233 YAQHGFPNDALMLFQKLLAEGKPKPDEITVVAALSACSQIGALETGRWIHVFVKSSRIRL 292

Query: 60  DVGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQ 97
           +V +   L                      KD++   A+I   AM G    AL  F EMQ
Sbjct: 293 NVKVCTGLIDMYSKCGSLEEAVLVFNDTPRKDIVAWNAMIAGYAMHGYSQDALRLFNEMQ 352

Query: 98  -IRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGR 156
            I G++P  ITF+G L AC+HAGLV+E I  F  M ++YGI+P IEHYGCLV +LGRAG+
Sbjct: 353 GITGLQPTDITFIGTLQACAHAGLVNEGIRIFESMGQEYGIKPKIEHYGCLVSLLGRAGQ 412

Query: 157 IAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNR 216
           + +A E IKNM M  D  +   +LG+C++H +    +  A+ L+ L   N G YV+LSN 
Sbjct: 413 LKRAYETIKNMNMDADSVLWSSVLGSCKLHGDFVLGKEIAEYLIGLNIKNSGIYVLLSNI 472

Query: 217 YSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEF-------------------- 256
           Y+S   ++ V ++R LM E+ I K PG   IE++  VHEF                    
Sbjct: 473 YASVGDYEGVAKVRNLMKEKGIVKEPGISTIEIENKVHEFRAGDREHSKSKEIYTMLRKI 532

Query: 257 ---VKA-GFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVC 312
              +K+ G+VPN + VL D++E EKE +L +H+E+LAI +GL+S  PG  ++I KNLRVC
Sbjct: 533 SERIKSHGYVPNTNTVLQDLEETEKEQSLQVHSERLAIAYGLISTKPGSPLKIFKNLRVC 592

Query: 313 NDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           +DCHT T +ISK+  R+ V+ DRNRFHHF +GSCSC DFW
Sbjct: 593 SDCHTVTKLISKITGRKIVMRDRNRFHHFTDGSCSCGDFW 632

Arabidopsis thaliana (taxid: 3702)

>sp|A8MQA3|PP330_ARATH Pentatricopeptide repeat-containing protein At4g21065 OS=Arabidopsis thaliana GN=PCMP-H28 PE=2 SV=2

 Score =  314 bits (805), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 172/399 (43%), Positives = 238/399 (59%), Gaps = 47/399 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMK------ 54
           + E+   EEAL L+ E+  KG+  D  T+VSLL AC  +GAL +G  +H Y++K      
Sbjct: 197 FAENGKPEEALALYTEMNSKGIKPDGFTIVSLLSACAKIGALTLGKRVHVYMIKVGLTRN 256

Query: 55  ---KNIEVDVGL-------------GMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQ- 97
               N+ +D+                M  K+ ++ T+LIV LA+ G G +A+E F  M+ 
Sbjct: 257 LHSSNVLLDLYARCGRVEEAKTLFDEMVDKNSVSWTSLIVGLAVNGFGKEAIELFKYMES 316

Query: 98  IRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRI 157
             G+ P  ITFVG+L ACSH G+V E   +F  M E+Y I P IEH+GC+V +L RAG++
Sbjct: 317 TEGLLPCEITFVGILYACSHCGMVKEGFEYFRRMREEYKIEPRIEHFGCMVDLLARAGQV 376

Query: 158 AKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY 217
            KA E IK+MPM  +  +   LLGAC +H + + AE A  Q+L+L P++ G YV+LSN Y
Sbjct: 377 KKAYEYIKSMPMQPNVVIWRTLLGACTVHGDSDLAEFARIQILQLEPNHSGDYVLLSNMY 436

Query: 218 SSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV-------------------- 257
           +S ++W  V++IR+ M    +KK PG  L+EV   VHEF+                    
Sbjct: 437 ASEQRWSDVQKIRKQMLRDGVKKVPGHSLVEVGNRVHEFLMGDKSHPQSDAIYAKLKEMT 496

Query: 258 ----KAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCN 313
                 G+VP  S V  D++EEEKE A+  H+EK+AI F L+S      I ++KNLRVC 
Sbjct: 497 GRLRSEGYVPQISNVYVDVEEEEKENAVVYHSEKIAIAFMLISTPERSPITVVKNLRVCA 556

Query: 314 DCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           DCH A  ++SKVYNRE VV DR+RFHHFKNGSCSC+D+W
Sbjct: 557 DCHLAIKLVSKVYNREIVVRDRSRFHHFKNGSCSCQDYW 595

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LW32|PP258_ARATH Pentatricopeptide repeat-containing protein At3g26782, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H34 PE=2 SV=1

 Score =  313 bits (803), Expect = 9e-85,   Method: Compositional matrix adjust.
 Identities = 165/399 (41%), Positives = 235/399 (58%), Gaps = 47/399 (11%)

Query: 1   YVEDSACEEALLLFRE-VQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEV 59
           Y +     EA  +FR  V++K +T + +T+ ++LLA +H GAL +G  +H  +++  +E 
Sbjct: 261 YAQSGMSNEAFEVFRRLVKNKVVTFNAITLSTVLLAVSHSGALRIGKCIHDQVIRMGLED 320

Query: 60  DVGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQ 97
           DV +G ++                      K+V + TA+I    M G   KALE F  M 
Sbjct: 321 DVIVGTSIIDMYCKCGRVETARKAFDRMKNKNVRSWTAMIAGYGMHGHAAKALELFPAMI 380

Query: 98  IRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRI 157
             GV+P+ ITFV VL ACSHAGL  E    FN M  ++G+ P +EHYGC+V +LGRAG +
Sbjct: 381 DSGVRPNYITFVSVLAACSHAGLHVEGWRWFNAMKGRFGVEPGLEHYGCMVDLLGRAGFL 440

Query: 158 AKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY 217
            KA +LI+ M M  D  +   LL ACRIH N+E AE +  +L EL   N G Y++LS+ Y
Sbjct: 441 QKAYDLIQRMKMKPDSIIWSSLLAACRIHKNVELAEISVARLFELDSSNCGYYMLLSHIY 500

Query: 218 SSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEF--------------------- 256
           + + +WK V+R+R +M  R + KPPG  L+E++G VH F                     
Sbjct: 501 ADAGRWKDVERVRMIMKNRGLVKPPGFSLLELNGEVHVFLIGDEEHPQREKIYEFLAELN 560

Query: 257 ---VKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCN 313
              ++AG+V N S V  D+DEEEKE  L +H+EKLAI FG+++ +PG  + ++KNLRVC+
Sbjct: 561 RKLLEAGYVSNTSSVCHDVDEEEKEMTLRVHSEKLAIAFGIMNTVPGSTVNVVKNLRVCS 620

Query: 314 DCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           DCH    +ISK+ +RE VV D  RFHHFK+G CSC D+W
Sbjct: 621 DCHNVIKLISKIVDREFVVRDAKRFHHFKDGGCSCGDYW 659

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	352
224114351	660	predicted protein [Populus trichocarpa]	1.0	0.533	0.655	1e-145
297738895	580	unnamed protein product [Vitis vinifera]	1.0	0.606	0.645	1e-141
225445386	711	PREDICTED: pentatricopeptide repeat-cont	1.0	0.495	0.645	1e-141
224134923	635	predicted protein [Populus trichocarpa]	1.0	0.554	0.469	1e-101
225442904	724	PREDICTED: putative pentatricopeptide re	1.0	0.486	0.467	1e-101
225456890	698	PREDICTED: pentatricopeptide repeat-cont	1.0	0.504	0.472	1e-100
356528966	712	PREDICTED: putative pentatricopeptide re	0.977	0.483	0.469	2e-99
225423499	738	PREDICTED: pentatricopeptide repeat-cont	1.0	0.476	0.481	4e-99
449464596	734	PREDICTED: pentatricopeptide repeat-cont	1.0	0.479	0.467	4e-97
359497398	640	PREDICTED: pentatricopeptide repeat-cont	1.0	0.55	0.477	1e-95

>gi|224114351|ref|XP_002332376.1| predicted protein [Populus trichocarpa] gi|222832200|gb|EEE70677.1| predicted protein [Populus trichocarpa]

 Score =  521 bits (1341), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 261/398 (65%), Positives = 301/398 (75%), Gaps = 46/398 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           +VEDS  EEALLLFRE+Q KG+ GDKVTM SLLLACTHLGALE+G WLH YI K+ I+VD
Sbjct: 263 HVEDSNYEEALLLFREMQTKGIKGDKVTMASLLLACTHLGALELGKWLHAYIKKQRIDVD 322

Query: 61  VGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
           V LG AL                      KDVMT TALI+ LAMCGQ   AL+YF EM I
Sbjct: 323 VALGTALVDMYAKCGSIETAIQVFHEMPEKDVMTWTALILGLAMCGQAENALQYFDEMHI 382

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
           +GVKPDAITFVGVL ACSHAG VDE ISHFN MS+ YGI+P+IEHYG LV ILGRAGRIA
Sbjct: 383 KGVKPDAITFVGVLAACSHAGFVDEGISHFNSMSDTYGIQPTIEHYGGLVDILGRAGRIA 442

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +AEELIK+MPMA D FVLGGLLGACRIH NLEAAERAA+QLLE+ P + G+YV+LSN Y 
Sbjct: 443 EAEELIKSMPMAPDQFVLGGLLGACRIHGNLEAAERAAKQLLEIDPYHSGTYVLLSNIYK 502

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVK-------------------- 258
           SS+KW++ KR RELMAER ++KPPGC  IEV GVVHEFVK                    
Sbjct: 503 SSKKWEEAKRTRELMAERGMRKPPGCSQIEVHGVVHEFVKGDSSHRQSSEINEMLEDMIS 562

Query: 259 ----AGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND 314
               AG+VP+KSEVLFDM EEEKET L+LH+EKLAI FGL+S   G  IR++KNLR+C+D
Sbjct: 563 KLKNAGYVPDKSEVLFDMAEEEKETELSLHSEKLAIAFGLLSTSVGTPIRVVKNLRICSD 622

Query: 315 CHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           CH+AT +ISK+YNRE +V DRNRFHHFK+G+CSC+ FW
Sbjct: 623 CHSATKLISKLYNREIIVRDRNRFHHFKDGTCSCRGFW 660

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297738895|emb|CBI28140.3| unnamed protein product [Vitis vinifera]

 Score =  508 bits (1307), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 257/398 (64%), Positives = 295/398 (74%), Gaps = 46/398 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           +VEDS  EEAL LF E+Q  G+ GDKVTM SLL+ACTHLGALE+G WLH YI K+ IEVD
Sbjct: 183 HVEDSDYEEALSLFNEMQLSGVKGDKVTMASLLIACTHLGALELGKWLHVYIEKEKIEVD 242

Query: 61  VGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
           V LG AL                      KDVMT TALIV LAMCGQG KALE F+EMQ+
Sbjct: 243 VALGTALVDMYAKCGSIESAMRVFQEMPEKDVMTWTALIVGLAMCGQGLKALELFHEMQM 302

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
             VKPDAITFVGVL ACSHAGLV+E I++FN M  KYGI+PSIEHYGC+V +LGRAGRIA
Sbjct: 303 SEVKPDAITFVGVLAACSHAGLVNEGIAYFNSMPNKYGIQPSIEHYGCMVDMLGRAGRIA 362

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +AE+LI+NMPMA D+FVL GLL ACRIH NL  AERAAQQL+EL P NGG+YV+LSN YS
Sbjct: 363 EAEDLIQNMPMAPDYFVLVGLLSACRIHGNLVVAERAAQQLIELDPKNGGTYVLLSNIYS 422

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVK-------------------- 258
           S + W+  K++RELM ERNIKKPPGC  IEV GVVHEFVK                    
Sbjct: 423 SMKNWEAAKKMRELMVERNIKKPPGCSAIEVGGVVHEFVKGDVSHPQSSEIYETLDDMMR 482

Query: 259 ----AGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND 314
               AG+VP+KSEVLFDMDE+EKE  L+LH+EKLAI FGL+S  PG  IR++KNLRVC+D
Sbjct: 483 RLKSAGYVPDKSEVLFDMDEKEKENELSLHSEKLAIAFGLLSTTPGTPIRVVKNLRVCSD 542

Query: 315 CHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           CH+A   IS+VYNRE +V DRNRFHHF  GSCSC+DFW
Sbjct: 543 CHSAMKFISEVYNREIIVRDRNRFHHFTKGSCSCRDFW 580

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225445386|ref|XP_002281711.1| PREDICTED: pentatricopeptide repeat-containing protein At2g29760, chloroplastic [Vitis vinifera]

 Score =  508 bits (1307), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 257/398 (64%), Positives = 295/398 (74%), Gaps = 46/398 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           +VEDS  EEAL LF E+Q  G+ GDKVTM SLL+ACTHLGALE+G WLH YI K+ IEVD
Sbjct: 314 HVEDSDYEEALSLFNEMQLSGVKGDKVTMASLLIACTHLGALELGKWLHVYIEKEKIEVD 373

Query: 61  VGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
           V LG AL                      KDVMT TALIV LAMCGQG KALE F+EMQ+
Sbjct: 374 VALGTALVDMYAKCGSIESAMRVFQEMPEKDVMTWTALIVGLAMCGQGLKALELFHEMQM 433

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
             VKPDAITFVGVL ACSHAGLV+E I++FN M  KYGI+PSIEHYGC+V +LGRAGRIA
Sbjct: 434 SEVKPDAITFVGVLAACSHAGLVNEGIAYFNSMPNKYGIQPSIEHYGCMVDMLGRAGRIA 493

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +AE+LI+NMPMA D+FVL GLL ACRIH NL  AERAAQQL+EL P NGG+YV+LSN YS
Sbjct: 494 EAEDLIQNMPMAPDYFVLVGLLSACRIHGNLVVAERAAQQLIELDPKNGGTYVLLSNIYS 553

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVK-------------------- 258
           S + W+  K++RELM ERNIKKPPGC  IEV GVVHEFVK                    
Sbjct: 554 SMKNWEAAKKMRELMVERNIKKPPGCSAIEVGGVVHEFVKGDVSHPQSSEIYETLDDMMR 613

Query: 259 ----AGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND 314
               AG+VP+KSEVLFDMDE+EKE  L+LH+EKLAI FGL+S  PG  IR++KNLRVC+D
Sbjct: 614 RLKSAGYVPDKSEVLFDMDEKEKENELSLHSEKLAIAFGLLSTTPGTPIRVVKNLRVCSD 673

Query: 315 CHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           CH+A   IS+VYNRE +V DRNRFHHF  GSCSC+DFW
Sbjct: 674 CHSAMKFISEVYNREIIVRDRNRFHHFTKGSCSCRDFW 711

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134923|ref|XP_002327523.1| predicted protein [Populus trichocarpa] gi|222836077|gb|EEE74498.1| predicted protein [Populus trichocarpa]

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 187/398 (46%), Positives = 253/398 (63%), Gaps = 46/398 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           Y+  +  +EAL+LFRE+Q   +  D+ TMVS+L AC  LGALE+G W+  YI K  ++ D
Sbjct: 238 YLRLNCYKEALMLFREMQTSKIKPDEFTMVSVLTACAQLGALELGEWIRTYIDKNKVKND 297

Query: 61  VGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
             +G AL                      +D  T TA++V LA+ G G +AL  F +M  
Sbjct: 298 TFVGNALIDMYFKCGNVEMALSIFNTLPQRDKFTWTAMVVGLAINGCGEEALNMFSQMLK 357

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
             V PD +T+VGVL AC+H G+VDE    F  M+ ++GI P+I HYGC+V +LG+AG + 
Sbjct: 358 ASVTPDEVTYVGVLSACTHTGMVDEGKKFFASMTARHGIEPNIAHYGCMVDLLGKAGHLK 417

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +A E+IKNMPM  +  V G LLGACRIH + E AERA +Q+LEL P+NG  YV+  N Y+
Sbjct: 418 EAHEIIKNMPMKPNSIVWGALLGACRIHKDAEMAERAIEQILELEPNNGAVYVLQCNIYA 477

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVK-------------------- 258
           +  KW K++ +R++M +R IKK PGC LIE++G+VHEFV                     
Sbjct: 478 ACNKWDKLRELRQVMMDRGIKKTPGCSLIEMNGIVHEFVAGDQSHPQTKEIYGKLNKMTS 537

Query: 259 ----AGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND 314
               AG+ PN SEV  D+ EE+KE A+  H+EKLAI FGL++  PGV IRI+KNLR+C D
Sbjct: 538 DLKIAGYSPNTSEVFLDIAEEDKENAVYRHSEKLAIAFGLINSGPGVTIRIVKNLRMCID 597

Query: 315 CHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           CH    ++SKVY+RE +V DR RFHHF++GSCSCKD+W
Sbjct: 598 CHHVAKLVSKVYDREVIVRDRTRFHHFRHGSCSCKDYW 635

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442904|ref|XP_002264123.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g15930 [Vitis vinifera]

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 186/398 (46%), Positives = 256/398 (64%), Gaps = 46/398 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           Y++ +  +E L LFRE+Q   +  D+ TMVS+L AC HLGALE+G W+  YI K  I++D
Sbjct: 327 YLQVNRFKEVLSLFREMQAANIKPDEFTMVSILTACAHLGALELGEWIKAYIDKNEIKID 386

Query: 61  VGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
             +G AL                      +D ++ TA+I  LA+ G G +AL+ F +M  
Sbjct: 387 SFVGNALIDMYFNCGNVEKAIRIFNAMPHRDKISWTAVIFGLAINGYGEEALDMFSQMLK 446

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
             + PD +T +GVL AC+H+G+VD+    F  M+ ++GI P++ HYGC+V +LGRAG + 
Sbjct: 447 ASITPDEVTCIGVLCACTHSGMVDKGKKFFARMTTQHGIEPNVAHYGCMVDLLGRAGHLK 506

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +A E+IKNMP+  +  V G LLGACR+H + E AE AAQQ+LEL P+NG  YV+L N Y+
Sbjct: 507 EAHEVIKNMPVKPNSIVWGSLLGACRVHRDEEMAEMAAQQILELEPENGAVYVLLCNIYA 566

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVK-------------------- 258
           +  +W+K+  +R+LM +R IKK PGC LIE++G VHEFV                     
Sbjct: 567 ACNRWEKLHEVRKLMMDRGIKKTPGCSLIEMNGSVHEFVAGDQVHPQSKEIYSKLDEMSV 626

Query: 259 ----AGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND 314
               AG+ P+ SEV  D+ EEEKE+A+  H+EKLAI FGL+S  PGV IRI+KNLR+C D
Sbjct: 627 DLKFAGYSPDTSEVFLDIGEEEKESAVYRHSEKLAIAFGLISSGPGVTIRIVKNLRMCVD 686

Query: 315 CHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           CH    ++SKVYNRE +V DR RFHHF++GSCSCKD+W
Sbjct: 687 CHYVAKLVSKVYNREVIVRDRTRFHHFRHGSCSCKDYW 724

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225456890|ref|XP_002277458.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070 [Vitis vinifera]

 Score =  372 bits (954), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 188/398 (47%), Positives = 249/398 (62%), Gaps = 46/398 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           Y + S C EAL LF E+Q   +  +++TMVS+L +C  LGALE G W+H +I KK +++ 
Sbjct: 301 YSQASRCREALDLFHEMQKANIDPNEITMVSILSSCAVLGALETGKWVHFFIKKKRMKLT 360

Query: 61  VGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
           V LG AL                      K+V++ T LI  LA  GQG KALEYFY M  
Sbjct: 361 VTLGTALMDFYAKCGSVESSIEVFGKMPVKNVLSWTVLIQGLASNGQGKKALEYFYLMLE 420

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
           + V+P+ +TF+GVL ACSHAGLVDE    F  MS  +GI P IEHYGC+V ILGRAG I 
Sbjct: 421 KNVEPNDVTFIGVLSACSHAGLVDEGRDLFVSMSRDFGIEPRIEHYGCMVDILGRAGLIE 480

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +A + IKNMP+  +  +   LL +C++H N+E  E + +QL+ L P + G Y++LSN Y+
Sbjct: 481 EAFQFIKNMPIQPNAVIWRTLLASCKVHKNVEIGEESLKQLIILEPTHSGDYILLSNIYA 540

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV--------------------- 257
           S  +W+   ++R  M E+ IKK PGC LIE+DGV+HEF                      
Sbjct: 541 SVGRWEDALKVRGEMKEKGIKKTPGCSLIELDGVIHEFFAEDNVHSQSEEIYNAIEDMMK 600

Query: 258 ---KAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND 314
               AG+VPN +E   D +E++KE++++ H+EKLAI FGL+   PG  IRI KNLRVC D
Sbjct: 601 QIKSAGYVPNTAEARLDAEEDDKESSVSHHSEKLAIAFGLIKSPPGTTIRITKNLRVCTD 660

Query: 315 CHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           CH AT ++SKV+NRE VV DR RFHHFK GSCSC D+W
Sbjct: 661 CHNATKLVSKVFNREIVVRDRTRFHHFKEGSCSCNDYW 698

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356528966|ref|XP_003533068.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g15930-like [Glycine max]

 Score =  368 bits (945), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 183/390 (46%), Positives = 254/390 (65%), Gaps = 46/390 (11%)

Query: 9   EALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL- 67
           EAL LFRE+Q   +  D+ TMVS+L AC HLGALE+G W+  YI K +I+ D  +G AL 
Sbjct: 323 EALALFREMQMSNVKPDEFTMVSILTACAHLGALELGEWVKTYIDKNSIKNDTFVGNALI 382

Query: 68  ---------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAI 106
                                KD  T TA+IV LA+ G G +AL  F  M    + PD I
Sbjct: 383 DMYFKCGNVGKAKKVFKEMHHKDKFTWTAMIVGLAINGHGEEALAMFSNMIEASITPDEI 442

Query: 107 TFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKN 166
           T++GVL AC+HAG+V++  S F  M+ ++GI+P++ HYGC+V +LGRAGR+ +A E+I N
Sbjct: 443 TYIGVLCACTHAGMVEKGQSFFISMTMQHGIKPNVTHYGCMVDLLGRAGRLEEAHEVIVN 502

Query: 167 MPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKV 226
           MP+  +  V G LLGACR+H N++ AE AA+Q+LEL P+NG  YV+L N Y++ ++W+ +
Sbjct: 503 MPVKPNSIVWGSLLGACRVHKNVQLAEMAAKQILELEPENGAVYVLLCNIYAACKRWENL 562

Query: 227 KRIRELMAERNIKKPPGCILIEVDGVVHEFV------------------------KAGFV 262
           +++R+LM ER IKK PGC L+E++G V+EFV                        KAG+ 
Sbjct: 563 RQVRKLMMERGIKKTPGCSLMELNGNVYEFVAGDQSHPQSKEIYAKLENMMQDLIKAGYS 622

Query: 263 PNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNII 322
           P+ SEV  D+ EE+KETAL  H+EKLAI + L+S  PG+ IRI+KNLR+C DCH    ++
Sbjct: 623 PDTSEVFLDLGEEDKETALYRHSEKLAIAYALISSGPGITIRIVKNLRMCVDCHHMAKLV 682

Query: 323 SKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           S+ YNRE +V D+ RFHHF++GSCSC +FW
Sbjct: 683 SEAYNRELIVRDKTRFHHFRHGSCSCNNFW 712

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225423499|ref|XP_002274432.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Vitis vinifera]

 Score =  367 bits (943), Expect = 4e-99,   Method: Compositional matrix adjust.
 Identities = 192/399 (48%), Positives = 250/399 (62%), Gaps = 47/399 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKK----- 55
           Y   ++ +EAL LFR++Q   +  + VT VS+L AC +LGAL++G W+H YI KK     
Sbjct: 340 YSHMNSYKEALALFRKMQQSNVEPNDVTFVSILPACAYLGALDLGKWIHAYIDKKFLGLT 399

Query: 56  ----------------NIEV--DVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQ 97
                           NIE    V  GM  K + +  A+I  LAM G  N ALE F +M+
Sbjct: 400 NTSLWTSLIDMYAKCGNIEAAKQVFAGMKPKSLGSWNAMISGLAMHGHANMALELFRQMR 459

Query: 98  IRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRI 157
             G +PD ITFVGVL ACSHAGLV+     F+ M E Y I P ++HYGC++ +LGRAG  
Sbjct: 460 DEGFEPDDITFVGVLSACSHAGLVELGRQCFSSMVEDYDISPKLQHYGCMIDLLGRAGLF 519

Query: 158 AKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY 217
            +AE L+KNM M  D  + G LLGACR+H N+E  E AA+ L EL P+N G+YV+LSN Y
Sbjct: 520 DEAEALMKNMEMKPDGAIWGSLLGACRVHGNVELGEFAAKHLFELEPENPGAYVLLSNIY 579

Query: 218 SSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV-------------------- 257
           +++ +W  V RIR  + ++ +KK PGC  IEVD VVHEF+                    
Sbjct: 580 ATAGRWDDVARIRTKLNDKGMKKVPGCSSIEVDSVVHEFLVGDKVHEQSQDIYKMLDEID 639

Query: 258 ----KAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCN 313
               KAG VP+ SEVL+DMDEE KE +L+ H+EKLAI FGL+S  P   IRI+KNLRVC 
Sbjct: 640 QLLEKAGHVPDTSEVLYDMDEEWKEGSLSHHSEKLAIAFGLISTKPETTIRIVKNLRVCG 699

Query: 314 DCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           +CH+A  +ISK++NRE +  DRNRFHHFK+GSCSC D+W
Sbjct: 700 NCHSAIKLISKIFNREIIARDRNRFHHFKDGSCSCMDYW 738

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464596|ref|XP_004150015.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Cucumis sativus] gi|449529868|ref|XP_004171920.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Cucumis sativus]

 Score =  360 bits (925), Expect = 4e-97,   Method: Compositional matrix adjust.
 Identities = 186/398 (46%), Positives = 244/398 (61%), Gaps = 46/398 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKK----- 55
           Y    + +EAL LFRE+   G+   ++T +S+L +C HLGA+++G W+H YI K      
Sbjct: 337 YTHMCSYKEALALFREMLASGVEPTEITFLSILPSCAHLGAIDLGKWIHAYINKNFNSVS 396

Query: 56  ---------------NIEV--DVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
                          NI     V  GM +K + +  A+I  LAM GQ +KA E F +M  
Sbjct: 397 TSLSTSLIDLYAKCGNIVAARQVFDGMKIKSLASWNAMICGLAMHGQADKAFELFSKMSS 456

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
            G++P+ ITFVG+L AC HAGLVD     F+ M + Y I P  +HYGC++ +LGRAG   
Sbjct: 457 DGIEPNEITFVGILSACKHAGLVDLGQQFFSSMVQDYKISPKSQHYGCMIDLLGRAGLFE 516

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +AE L++NM +  D  + G LLGACR H  +E  E  A++L EL PDN G+YV+LSN Y+
Sbjct: 517 EAESLLQNMEVKPDGAIWGSLLGACRDHGRVELGELVAERLFELEPDNPGAYVLLSNIYA 576

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKA------------------- 259
            + KW  V RIR  + +R +KK PGC  IEVD VVHEF+                     
Sbjct: 577 GAGKWDDVARIRTRLNDRGMKKVPGCTTIEVDNVVHEFLVGDKVHPQSEDIYRMLEEVDE 636

Query: 260 -----GFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND 314
                GFV + SEVL+DMDEE KE AL+ H+EKLAI FGL+S  PG  IRIIKNLRVC +
Sbjct: 637 QLKVFGFVADTSEVLYDMDEEWKEGALSHHSEKLAIAFGLISTKPGTPIRIIKNLRVCRN 696

Query: 315 CHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           CH+AT +ISK++NRE +  DRNRFHHFK+GSCSC D+W
Sbjct: 697 CHSATKLISKIFNREIIARDRNRFHHFKDGSCSCNDYW 734

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359497398|ref|XP_002270940.2| PREDICTED: pentatricopeptide repeat-containing protein At5g66520 [Vitis vinifera]

 Score =  355 bits (912), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 190/398 (47%), Positives = 241/398 (60%), Gaps = 46/398 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           Y +     EAL LF E+Q   +  DKVTMVS+L AC  +GAL +G  +H  I +  IE+D
Sbjct: 243 YAKARQSNEALRLFHEMQLANVLPDKVTMVSVLSACGDVGALGMGKMIHECIERNRIEID 302

Query: 61  VGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
           + LG +L                      +DV   +A+I+ LA  G G  AL++F +M  
Sbjct: 303 LKLGTSLVDMYAKCGDIDNSLRVFNGMNNRDVFAWSAMIMGLANHGFGELALDHFSKMIS 362

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
             +KP+ +TF+GVL ACSH GLVDE  ++F  MS+ Y + P IEHYGC+V ILGRAGR+ 
Sbjct: 363 EDIKPNDVTFIGVLSACSHIGLVDEGWTYFTSMSKVYDVSPKIEHYGCVVDILGRAGRLQ 422

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +A ELIK+MP A D  V   LLGACRI+ N+E AE A   LLEL P   G+YV+LSN YS
Sbjct: 423 EAMELIKSMPFAPDAIVWRALLGACRIYKNVEIAEEATVNLLELEPHVDGNYVLLSNIYS 482

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKA------------------- 259
            +++W KV  +R +M   NI+K PG   IEVD  VHEFV                     
Sbjct: 483 QAKEWDKVVNVRRMMKNINIQKVPGSSSIEVDNAVHEFVAGDQSHPESKKILRMLSEITA 542

Query: 260 -----GFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND 314
                G+ P  + VL D DE+EKE AL  H+EKLAI FGL+S  PG  IRI+KNLRVC+D
Sbjct: 543 RLKANGYAPLTASVLQDFDEKEKENALAHHSEKLAIAFGLLSTAPGSTIRIVKNLRVCDD 602

Query: 315 CHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           CH A  +IS+ Y R  +V DRNRFHHF NGSCSCKD+W
Sbjct: 603 CHIAIKLISRTYKRRIIVRDRNRFHHFVNGSCSCKDYW 640

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	352
TAIR|locus:2126352	632	AT4G37380 [Arabidopsis thalian	0.582	0.324	0.427	3e-75
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.573	0.226	0.389	6.1e-72
TAIR|locus:2144143	622	AT5G06540 [Arabidopsis thalian	0.613	0.347	0.389	2.1e-71
TAIR|locus:2081635	573	AT3G62890 [Arabidopsis thalian	0.670	0.411	0.386	3.3e-71
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.593	0.282	0.385	8.3e-70
TAIR|locus:2154389	646	LPA66 "LOW PSII ACCUMULATION 6	0.616	0.335	0.401	1.6e-69
TAIR|locus:4010713895	595	AT4G21065 "AT4G21065" [Arabido	0.585	0.346	0.410	6.3e-69
TAIR|locus:4010713776	659	AT3G26782 [Arabidopsis thalian	0.548	0.292	0.440	1.6e-68
TAIR|locus:2154855	620	AT5G66520 "AT5G66520" [Arabido	0.622	0.353	0.396	4.5e-68
TAIR|locus:1009023396	612	AT5G40405 "AT5G40405" [Arabido	0.590	0.339	0.420	1.6e-67

TAIR|locus:2126352 AT4G37380 [Arabidopsis thaliana (taxid:3702)]

 Score = 415 (151.1 bits), Expect = 3.0e-75, Sum P(3) = 3.0e-75
 Identities = 88/206 (42%), Positives = 122/206 (59%)

Query:    68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQ-IRGVKPDAITFVGVLVACSHAGLVDERIS 126
             KD++   A+I   AM G    AL  F EMQ I G++P  ITF+G L AC+HAGLV+E I 
Sbjct:   323 KDIVAWNAMIAGYAMHGYSQDALRLFNEMQGITGLQPTDITFIGTLQACAHAGLVNEGIR 382

Query:   127 HFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIH 186
              F  M ++YGI+P IEHYGCLV +LGRAG++ +A E IKNM M  D  +   +LG+C++H
Sbjct:   383 IFESMGQEYGIKPKIEHYGCLVSLLGRAGQLKRAYETIKNMNMDADSVLWSSVLGSCKLH 442

Query:   187 DNXXXXXXXXXXXXXXXPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCIL 246
              +                 N G YV+LSN Y+S   ++ V ++R LM E+ I K PG   
Sbjct:   443 GDFVLGKEIAEYLIGLNIKNSGIYVLLSNIYASVGDYEGVAKVRNLMKEKGIVKEPGIST 502

Query:   247 IEVDGVVHEFVKAGFVPNKSEVLFDM 272
             IE++  VHEF       +KS+ ++ M
Sbjct:   503 IEIENKVHEFRAGDREHSKSKEIYTM 528

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009062 "fatty acid catabolic process" evidence=RCA

TAIR|locus:2103483 OTP84 "ORGANELLE TRANSCRIPT PROCESSING 84" [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 6.1e-72, Sum P(3) = 6.1e-72
 Identities = 79/203 (38%), Positives = 114/203 (56%)

Query:    68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISH 127
             K+V+T   +I+   M G G +A++    M ++GVKP+ +TF+ V  ACSH+G+VDE +  
Sbjct:   581 KNVITWNVIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGLRI 640

Query:   128 FNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHF-VLGGLLGACRIH 186
             F +M   YG+ PS +HY C+V +LGRAGRI +A +L+  MP   +       LLGA RIH
Sbjct:   641 FYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGASRIH 700

Query:   187 DNXXXXXXXXXXXXXXXPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCIL 246
             +N               P+    YV+L+N YSS+  W K   +R  M E+ ++K PGC  
Sbjct:   701 NNLEIGEIAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGCSW 760

Query:   247 IEVDGVVHEFVKAGFVPNKSEVL 269
             IE    VH+FV       +SE L
Sbjct:   761 IEHGDEVHKFVAGDSSHPQSEKL 783

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2144143 AT5G06540 [Arabidopsis thaliana (taxid:3702)]

 Score = 406 (148.0 bits), Expect = 2.1e-71, Sum P(2) = 2.1e-71
 Identities = 85/218 (38%), Positives = 132/218 (60%)

Query:    39 LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
             LG   V M+     ++K I V  GL     D ++ +++I  LA+ G  +KA+ YF +M  
Sbjct:   286 LGTALVDMFWRCGDIEKAIHVFEGLPET--DSLSWSSIIKGLAVHGHAHKAMHYFSQMIS 343

Query:    99 RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
              G  P  +TF  VL ACSH GLV++ +  +  M + +GI P +EHYGC+V +LGRAG++A
Sbjct:   344 LGFIPRDVTFTAVLSACSHGGLVEKGLEIYENMKKDHGIEPRLEHYGCIVDMLGRAGKLA 403

Query:   159 KAEELIKNMPMALDHFVLGGLLGACRIHDNXXXXXXXXXXXXXXXPDNGGSYVILSNRYS 218
             +AE  I  M +  +  +LG LLGAC+I+ N               P++ G YV+LSN Y+
Sbjct:   404 EAENFILKMHVKPNAPILGALLGACKIYKNTEVAERVGNMLIKVKPEHSGYYVLLSNIYA 463

Query:   219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEF 256
              + +W K++ +R++M E+ +KKPPG  LIE+DG +++F
Sbjct:   464 CAGQWDKIESLRDMMKEKLVKKPPGWSLIEIDGKINKF 501

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2081635 AT3G62890 [Arabidopsis thaliana (taxid:3702)]

 Score = 416 (151.5 bits), Expect = 3.3e-71, Sum P(2) = 3.3e-71
 Identities = 92/238 (38%), Positives = 136/238 (57%)

Query:    39 LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
             LG   + M+     +++   V   LG + KDV   +A+I  LAM G  ++  + F EM  
Sbjct:   236 LGTALIDMYAKCGSLERAKRVFNALG-SKKDVKAYSAMICCLAMYGLTDECFQLFSEMTT 294

Query:    99 R-GVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRI 157
                + P+++TFVG+L AC H GL++E  S+F +M E++GI PSI+HYGC+V + GR+G I
Sbjct:   295 SDNINPNSVTFVGILGACVHRGLINEGKSYFKMMIEEFGITPSIQHYGCMVDLYGRSGLI 354

Query:   158 AKAEELIKNMPMALDHFVLGGLLGACRIHDNXXXXXXXXXXXXXXXPDNGGSYVILSNRY 217
              +AE  I +MPM  D  + G LL   R+  +               P N G+YV+LSN Y
Sbjct:   355 KEAESFIASMPMEPDVLIWGSLLSGSRMLGDIKTCEGALKRLIELDPMNSGAYVLLSNVY 414

Query:   218 SSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEE 275
             + + +W +VK IR  M  + I K PGC  +EV+GVVHEFV       +SE ++ M +E
Sbjct:   415 AKTGRWMEVKCIRHEMEVKGINKVPGCSYVEVEGVVHEFVVGDESQQESERIYAMLDE 472

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 405 (147.6 bits), Expect = 8.3e-70, Sum P(2) = 8.3e-70
 Identities = 81/210 (38%), Positives = 124/210 (59%)

Query:    68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISH 127
             K + +  A+I   AM G+ + + + F  M+  G++PD ITFVG+L ACSH+G++D     
Sbjct:   433 KSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGMLDLGRHI 492

Query:   128 FNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHD 187
             F  M++ Y + P +EHYGC++ +LG +G   +AEE+I  M M  D  +   LL AC++H 
Sbjct:   493 FRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLKACKMHG 552

Query:   188 NXXXXXXXXXXXXXXXPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILI 247
             N               P+N GSYV+LSN Y+S+ +W +V + R L+ ++ +KK PGC  I
Sbjct:   553 NVELGESFAENLIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMKKVPGCSSI 612

Query:   248 EVDGVVHEFVKAG-FVPNKSEVLFDMDEEE 276
             E+D VVHEF+    F P   E+   ++E E
Sbjct:   613 EIDSVVHEFIIGDKFHPRNREIYGMLEEME 642

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2154389 LPA66 "LOW PSII ACCUMULATION 66" [Arabidopsis thaliana (taxid:3702)]

 Score = 419 (152.6 bits), Expect = 1.6e-69, Sum P(2) = 1.6e-69
 Identities = 88/219 (40%), Positives = 131/219 (59%)

Query:    39 LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
             LG+  + M+    I++K I V   L    ++V+T +A+I   A+ GQ   A++ F +M+ 
Sbjct:   311 LGSALIDMYSKCGIIEKAIHVFERLPR--ENVITWSAMINGFAIHGQAGDAIDCFCKMRQ 368

Query:    99 RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
              GV+P  + ++ +L ACSH GLV+E   +F+ M    G+ P IEHYGC+V +LGR+G + 
Sbjct:   369 AGVRPSDVAYINLLTACSHGGLVEEGRRYFSQMVSVDGLEPRIEHYGCMVDLLGRSGLLD 428

Query:   159 KAEELIKNMPMALDHFVLGGLLGACRIHDNXXXXXXXXXXXXXXXPDNGGSYVILSNRYS 218
             +AEE I NMP+  D  +   LLGACR+  N               P + G+YV LSN Y+
Sbjct:   429 EAEEFILNMPIKPDDVIWKALLGACRMQGNVEMGKRVANILMDMVPHDSGAYVALSNMYA 488

Query:   219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV 257
             S   W +V  +R  M E++I+K PGC LI++DGV+HEFV
Sbjct:   489 SQGNWSEVSEMRLRMKEKDIRKDPGCSLIDIDGVLHEFV 527

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0007020 "microtubule nucleation" evidence=RCA

TAIR|locus:4010713895 AT4G21065 "AT4G21065" [Arabidopsis thaliana (taxid:3702)]

 Score = 408 (148.7 bits), Expect = 6.3e-69, Sum P(2) = 6.3e-69
 Identities = 85/207 (41%), Positives = 124/207 (59%)

Query:    65 MALKDVMTLTALIVVLAMCGQGNKALEYFYEMQ-IRGVKPDAITFVGVLVACSHAGLVDE 123
             M  K+ ++ T+LIV LA+ G G +A+E F  M+   G+ P  ITFVG+L ACSH G+V E
Sbjct:   283 MVDKNSVSWTSLIVGLAVNGFGKEAIELFKYMESTEGLLPCEITFVGILYACSHCGMVKE 342

Query:   124 RISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGAC 183
                +F  M E+Y I P IEH+GC+V +L RAG++ KA E IK+MPM  +  +   LLGAC
Sbjct:   343 GFEYFRRMREEYKIEPRIEHFGCMVDLLARAGQVKKAYEYIKSMPMQPNVVIWRTLLGAC 402

Query:   184 RIHDNXXXXXXXXXXXXXXXPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPG 243
              +H +               P++ G YV+LSN Y+S ++W  V++IR+ M    +KK PG
Sbjct:   403 TVHGDSDLAEFARIQILQLEPNHSGDYVLLSNMYASEQRWSDVQKIRKQMLRDGVKKVPG 462

Query:   244 CILIEVDGVVHEFVKAGFVPNKSEVLF 270
               L+EV   VHEF+       +S+ ++
Sbjct:   463 HSLVEVGNRVHEFLMGDKSHPQSDAIY 489

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:4010713776 AT3G26782 [Arabidopsis thaliana (taxid:3702)]

 Score = 406 (148.0 bits), Expect = 1.6e-68, Sum P(2) = 1.6e-68
 Identities = 85/193 (44%), Positives = 114/193 (59%)

Query:    65 MALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDER 124
             M  K+V + TA+I    M G   KALE F  M   GV+P+ ITFV VL ACSHAGL  E 
Sbjct:   348 MKNKNVRSWTAMIAGYGMHGHAAKALELFPAMIDSGVRPNYITFVSVLAACSHAGLHVEG 407

Query:   125 ISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACR 184
                FN M  ++G+ P +EHYGC+V +LGRAG + KA +LI+ M M  D  +   LL ACR
Sbjct:   408 WRWFNAMKGRFGVEPGLEHYGCMVDLLGRAGFLQKAYDLIQRMKMKPDSIIWSSLLAACR 467

Query:   185 IHDNXXXXXXXXXXXXXXXPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGC 244
             IH N                 N G Y++LS+ Y+ + +WK V+R+R +M  R + KPPG 
Sbjct:   468 IHKNVELAEISVARLFELDSSNCGYYMLLSHIYADAGRWKDVERVRMIMKNRGLVKPPGF 527

Query:   245 ILIEVDGVVHEFV 257
              L+E++G VH F+
Sbjct:   528 SLLELNGEVHVFL 540

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

 Score = 401 (146.2 bits), Expect = 4.5e-68, Sum P(2) = 4.5e-68
 Identities = 88/222 (39%), Positives = 123/222 (55%)

Query:    39 LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
             LG + + M+     M++ +EV   +    K V   TALI   A  G G +A+  F EMQ 
Sbjct:   284 LGCVLIDMYAKCGEMEEALEVFKNIKK--KSVQAWTALISGYAYHGHGREAISKFMEMQK 341

Query:    99 RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
              G+KP+ ITF  VL ACS+ GLV+E    F  M   Y ++P+IEHYGC+V +LGRAG + 
Sbjct:   342 MGIKPNVITFTAVLTACSYTGLVEEGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLD 401

Query:   159 KAEELIKNMPMALDHFVLGGLLGACRIHDNXXXXXXXXXXXXXXXPDNGGSYVILSNRYS 218
             +A+  I+ MP+  +  + G LL ACRIH N               P +GG YV  +N ++
Sbjct:   402 EAKRFIQEMPLKPNAVIWGALLKACRIHKNIELGEEIGEILIAIDPYHGGRYVHKANIHA 461

Query:   219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAG 260
               +KW K    R LM E+ + K PGC  I ++G  HEF+ AG
Sbjct:   462 MDKKWDKAAETRRLMKEQGVAKVPGCSTISLEGTTHEFL-AG 502

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:1009023396 AT5G40405 "AT5G40405" [Arabidopsis thaliana (taxid:3702)]

 Score = 393 (143.4 bits), Expect = 1.6e-67, Sum P(2) = 1.6e-67
 Identities = 90/214 (42%), Positives = 121/214 (56%)

Query:    53 MKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVL 112
             M+K +EV    GM  K+V T ++ +  LAM G G K LE F  M+  GV P+A+TFV VL
Sbjct:   291 MEKAMEVF--WGMEEKNVYTWSSALNGLAMNGFGEKCLELFSLMKQDGVTPNAVTFVSVL 348

Query:   113 VACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALD 172
               CS  G VDE   HF+ M  ++GI P +EHYGCLV +  RAGR+  A  +I+ MPM   
Sbjct:   349 RGCSVVGFVDEGQRHFDSMRNEFGIEPQLEHYGCLVDLYARAGRLEDAVSIIQQMPMKPH 408

Query:   173 HFVLGGLLGACRIHDNXXXXXXXXXXXXXXXPDNGGSYVILSNRYSSSRKWKKVKRIREL 232
               V   LL A R++ N                 N G+YV+LSN Y+ S  W  V  +R+ 
Sbjct:   409 AAVWSSLLHASRMYKNLELGVLASKKMLELETANHGAYVLLSNIYADSNDWDNVSHVRQS 468

Query:   233 MAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKS 266
             M  + ++K PGC ++EV+G VHEF    FV +KS
Sbjct:   469 MKSKGVRKQPGCSVMEVNGEVHEF----FVGDKS 498

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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_pm.C_scaffold_215000001 hypothetical protein (660 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	352
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-83
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-76
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-15
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	1e-12
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.004
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.004

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

 Score =  270 bits (692), Expect = 1e-83
 Identities = 142/388 (36%), Positives = 206/388 (53%), Gaps = 45/388 (11%)

Query: 7   CEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMA 66
           C EAL+ FR++    L  + VT+++ L AC  +GAL  G  +H ++++  I  D  L  A
Sbjct: 471 CFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNA 529

Query: 67  L---------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA 105
           L                     KDV++   L+      G+G+ A+E F  M   GV PD 
Sbjct: 530 LLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDE 589

Query: 106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIK 165
           +TF+ +L ACS +G+V + + +F+ M EKY I P+++HY C+V +LGRAG++ +A   I 
Sbjct: 590 VTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFIN 649

Query: 166 NMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKK 225
            MP+  D  V G LL ACRIH ++E  E AAQ + EL P++ G Y++L N Y+ + KW +
Sbjct: 650 KMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDE 709

Query: 226 VKRIRELMAERNIKKPPGCILIEVDGVVHEF---------------VKAGFVPNKSEVLF 270
           V R+R+ M E  +   PGC  +EV G VH F               V  GF         
Sbjct: 710 VARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGL 769

Query: 271 DMDEEE--------KETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNII 322
              E          K+     H+E+LAI FGL++ +PG+ I + KNL +C +CH     I
Sbjct: 770 AGSESSSMDEIEVSKDDIFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFI 829

Query: 323 SKVYNRETVVMDRNRFHHFKNGSCSCKD 350
           SK+  RE  V D  +FHHFK+G CSC D
Sbjct: 830 SKIVRREISVRDTEQFHHFKDGECSCGD 857

Length = 857

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

 Score =  248 bits (635), Expect = 1e-76
 Identities = 126/398 (31%), Positives = 198/398 (49%), Gaps = 46/398 (11%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           Y      EEAL L+ E++  G++ D+ T   ++   + L  LE     H  +++    +D
Sbjct: 300 YALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLD 359

Query: 61  VGLGMAL----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
           +    AL                      K++++  ALI      G+G KA+E F  M  
Sbjct: 360 IVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIA 419

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
            GV P+ +TF+ VL AC ++GL ++    F  MSE + I+P   HY C++ +LGR G + 
Sbjct: 420 EGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLD 479

Query: 159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS 218
           +A  +I+  P      +   LL ACRIH NLE    AA++L  + P+   +YV+L N Y+
Sbjct: 480 EAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYN 539

Query: 219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV--------------------- 257
           SS +  +  ++ E +  + +   P C  IEV    H F                      
Sbjct: 540 SSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMK 599

Query: 258 ---KAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND 314
              + G+V  ++E+L D+DE+E++ +   H+EKLAI FGL++      ++I ++ R+C D
Sbjct: 600 EISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKD 659

Query: 315 CHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW 352
           CH     I+ V  RE VV D +RFHHFK G CSC D+W
Sbjct: 660 CHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW 697

Length = 697

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

 Score = 75.7 bits (186), Expect = 7e-15
 Identities = 54/190 (28%), Positives = 85/190 (44%), Gaps = 23/190 (12%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVD 60
           Y E+  C E L LF  ++   +  D +T+ S++ AC  LG   +G  +H Y++K    VD
Sbjct: 263 YFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVD 322

Query: 61  VGL----------------------GMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
           V +                       M  KD ++ TA+I      G  +KALE +  M+ 
Sbjct: 323 VSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQ 382

Query: 99  RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA 158
             V PD IT   VL AC+  G +D  +    L +E+ G+   +     L+ +  +   I 
Sbjct: 383 DNVSPDEITIASVLSACACLGDLDVGVKLHEL-AERKGLISYVVVANALIEMYSKCKCID 441

Query: 159 KAEELIKNMP 168
           KA E+  N+P
Sbjct: 442 KALEVFHNIP 451

Length = 857

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

 Score = 63.6 bits (155), Expect = 1e-12
 Identities = 38/90 (42%), Positives = 48/90 (53%), Gaps = 13/90 (14%)

Query: 260 GFVPNKSEVLFDMDEEE------KETALNLHTEKLAITFGLVSPMPGVLIRIIKNL-RVC 312
           G VP   E+  D+D EE      K   L  H EK A+ +GL++       RIIK L R+C
Sbjct: 33  GVVPETKEIGHDVDAEEFRDNGIKGKLLASHAEKQALAYGLLTT------RIIKVLKRMC 86

Query: 313 NDCHTATNIISKVYNRETVVMDRNRFHHFK 342
            DCH     I+K   RE +V D +RFHHFK
Sbjct: 87  GDCHEFFRYIAKYTGREIIVRDPSRFHHFK 116

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

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

 Score = 61.4 bits (149), Expect = 2e-10
 Identities = 37/141 (26%), Positives = 72/141 (51%), Gaps = 23/141 (16%)

Query: 1   YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHP---------- 50
           Y ++   ++AL  +  ++   ++ D++T+ S+L AC  LG L+VG+ LH           
Sbjct: 364 YEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISY 423

Query: 51  ----------YIMKKNIE--VDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI 98
                     Y   K I+  ++V   +  KDV++ T++I  L +  +  +AL +F +M +
Sbjct: 424 VVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQM-L 482

Query: 99  RGVKPDAITFVGVLVACSHAG 119
             +KP+++T +  L AC+  G
Sbjct: 483 LTLKPNSVTLIAALSACARIG 503

Length = 857

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

 Score = 53.0 bits (127), Expect = 1e-07
 Identities = 33/120 (27%), Positives = 58/120 (48%), Gaps = 6/120 (5%)

Query: 69  DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHF 128
           D    T LI   A  G+ +   E F+EM   GV+ +  TF  ++  C+ AG V +    +
Sbjct: 471 DCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAY 530

Query: 129 NLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-----PMALDHFVLGGLLGAC 183
            +M  K  ++P    +  L+   G++G + +A +++  M     P+  DH  +G L+ AC
Sbjct: 531 GIMRSK-NVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC 589

Length = 1060

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

 Score = 49.9 bits (119), Expect = 1e-06
 Identities = 43/159 (27%), Positives = 70/159 (44%), Gaps = 10/159 (6%)

Query: 10  ALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKD 69
           AL + R VQ  GL  D     +L+  C   G ++    +   ++   +E          +
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVE---------AN 506

Query: 70  VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFN 129
           V T  ALI   A  GQ  KA   +  M+ + VKPD + F  ++ AC  +G VD       
Sbjct: 507 VHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLA 566

Query: 130 LM-SEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM 167
            M +E + I P     G L+     AG++ +A+E+ + +
Sbjct: 567 EMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI 605

Length = 1060

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

 Score = 47.9 bits (114), Expect = 6e-06
 Identities = 39/145 (26%), Positives = 70/145 (48%), Gaps = 18/145 (12%)

Query: 8   EEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGL-GMA 66
           ++A  + ++ + +G+    V+  SL+ AC++        W      KK +E+   +  + 
Sbjct: 666 DKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN-----W------KKALELYEDIKSIK 714

Query: 67  LK-DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERI 125
           L+  V T+ ALI  L    Q  KALE   EM+  G+ P+ IT+  +LVA       D   
Sbjct: 715 LRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDAD--- 771

Query: 126 SHFNLMSE--KYGIRPSIEHYGCLV 148
              +L+S+  + GI+P++    C+ 
Sbjct: 772 VGLDLLSQAKEDGIKPNLVMCRCIT 796

Length = 1060

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

 Score = 46.8 bits (111), Expect = 1e-05
 Identities = 46/184 (25%), Positives = 74/184 (40%), Gaps = 25/184 (13%)

Query: 8   EEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL 67
            EA  LFRE+   G   +  T V +L A   LG+   G  LH  ++K  +  D  +  AL
Sbjct: 206 REAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCAL 265

Query: 68  ----------------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA 105
                                 K  +   +++   A+ G   +AL  +YEM+  GV  D 
Sbjct: 266 IDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQ 325

Query: 106 ITFVGVLVACSHAGLVDE-RISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELI 164
            TF  ++   S   L++  + +H  L+  + G    I     LV +  + GR+  A  + 
Sbjct: 326 FTFSIMIRIFSRLALLEHAKQAHAGLI--RTGFPLDIVANTALVDLYSKWGRMEDARNVF 383

Query: 165 KNMP 168
             MP
Sbjct: 384 DRMP 387

Length = 697

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

 Score = 46.4 bits (110), Expect = 2e-05
 Identities = 47/191 (24%), Positives = 80/191 (41%), Gaps = 21/191 (10%)

Query: 72  TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLM 131
           T   L+ V A     + AL     +Q  G+K D   +  ++  C+ +G VD     F+ M
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

Query: 132 SEKYGIRPSIEHYGCLVYILGRAGRIAK---AEELIKNMPMALDHFVLGGLLGACRIHDN 188
               G+  ++  +G L+    RAG++AK   A  ++++  +  D  V   L+ AC     
Sbjct: 499 VNA-GVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISAC---GQ 554

Query: 189 LEAAERAAQQLLEL-------LPDNGGSYVILSNRYSSSRKWKKVKRIRE---LMAERNI 238
             A +RA   L E+        PD    ++ +     +     +V R +E   ++ E NI
Sbjct: 555 SGAVDRAFDVLAEMKAETHPIDPD----HITVGALMKACANAGQVDRAKEVYQMIHEYNI 610

Query: 239 KKPPGCILIEV 249
           K  P    I V
Sbjct: 611 KGTPEVYTIAV 621

Length = 1060

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

 Score = 40.5 bits (96), Expect = 4e-05
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 68  KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITF 108
            DV+T   LI      G+  +AL+ F EM+ RG+KP+  T+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTY 41

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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 44.1 bits (104), Expect = 9e-05
 Identities = 41/186 (22%), Positives = 73/186 (39%), Gaps = 29/186 (15%)

Query: 8   EEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLG--- 64
           E+AL L   +Q   +  D+   V+L   C    A+E G  +    +  +  + V LG   
Sbjct: 68  EQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAM 127

Query: 65  -------------------MALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA 105
                              M  +D+ +   L+   A  G  ++AL  ++ M   GV+PD 
Sbjct: 128 LSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDV 187

Query: 106 ITFVGVLVACSHAGLVDERIS---HFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEE 162
            TF  VL  C   G+ D       H +++  ++G    ++    L+ +  + G +  A  
Sbjct: 188 YTFPCVLRTC--GGIPDLARGREVHAHVV--RFGFELDVDVVNALITMYVKCGDVVSARL 243

Query: 163 LIKNMP 168
           +   MP
Sbjct: 244 VFDRMP 249

Length = 857

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

 Score = 44.1 bits (104), Expect = 1e-04
 Identities = 41/175 (23%), Positives = 72/175 (41%), Gaps = 39/175 (22%)

Query: 25  DKVTMVSLLLACTHLG----ALEVGMWLHPYIMKKNIEV------------DVGLGMALK 68
           D +T+ +L+ AC + G    A EV   +H Y +K   EV            D    +++ 
Sbjct: 578 DHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIY 637

Query: 69  DVMT----------LTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHA 118
           D M            +AL+ V    G  +KA E   + + +G+K   +++  ++ ACS+A
Sbjct: 638 DDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNA 697

Query: 119 G------LVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM 167
                   + E I    L       RP++     L+  L    ++ KA E++  M
Sbjct: 698 KNWKKALELYEDIKSIKL-------RPTVSTMNALITALCEGNQLPKALEVLSEM 745

Length = 1060

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

 Score = 38.7 bits (90), Expect = 0.004
 Identities = 44/192 (22%), Positives = 72/192 (37%), Gaps = 43/192 (22%)

Query: 8   EEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL 67
           +EAL L+  +   G+  D  T   +L  C  +  L  G  +H ++++   E+DV      
Sbjct: 169 DEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDV------ 222

Query: 68  KDVMTLTALIVVLAMCG-------------------------------QGNKALEYFYEM 96
            DV  + ALI +   CG                               +  + LE F+ M
Sbjct: 223 -DV--VNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTM 279

Query: 97  QIRGVKPDAITFVGVLVACSHAGLVDERIS-HFNLMSEKYGIRPSIEHYGCLVYILGRAG 155
           +   V PD +T   V+ AC   G  DER+    +    K G    +     L+ +    G
Sbjct: 280 RELSVDPDLMTITSVISACELLG--DERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLG 337

Query: 156 RIAKAEELIKNM 167
              +AE++   M
Sbjct: 338 SWGEAEKVFSRM 349

Length = 857

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

 Score = 39.1 bits (91), Expect = 0.004
 Identities = 34/155 (21%), Positives = 59/155 (38%), Gaps = 41/155 (26%)

Query: 69  DVMTLTALIVVLAMCGQGNKALEYFYEM--QIRGVKPDAITFVGVLVACSHAGLVDERIS 126
           D +   ALI      G  ++A +   EM  +   + PD IT   ++ AC++AG VD    
Sbjct: 541 DRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKE 600

Query: 127 HFNLMSEKYGIRPSIEHY---------------GCLVY--------------------IL 151
            + ++  +Y I+ + E Y                  +Y                    + 
Sbjct: 601 VYQMI-HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVA 659

Query: 152 GRAGRIAKAEELIKNMP---MALDHFVLGGLLGAC 183
           G AG + KA E++++     + L       L+GAC
Sbjct: 660 GHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694

Length = 1060

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	352
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.81
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.81
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.77
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	99.76
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.75
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.64
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.62
PF13041	50	PPR_2: PPR repeat family	99.56
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.56
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.55
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.53
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.5
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.5
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.48
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.48
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.45
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.43
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.43
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.43
PF13041	50	PPR_2: PPR repeat family	99.41
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.4
KOG1126	638	consensus DNA-binding cell division cycle control	99.39
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.38
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.37
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.37
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.34
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.29
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.29
PRK12370	553	invasion protein regulator; Provisional	99.29
PRK12370	553	invasion protein regulator; Provisional	99.27
KOG1126	638	consensus DNA-binding cell division cycle control	99.26
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.25
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.21
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.2
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.19
KOG2003	840	consensus TPR repeat-containing protein [General f	99.19
PRK11189	296	lipoprotein NlpI; Provisional	99.16
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.16
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.11
KOG1129	478	consensus TPR repeat-containing protein [General f	99.1
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.08
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.05
PRK11189	296	lipoprotein NlpI; Provisional	99.02
PRK14574	822	hmsH outer membrane protein; Provisional	99.02
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.94
PF12854	34	PPR_1: PPR repeat	98.92
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.9
PF12854	34	PPR_1: PPR repeat	98.9
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.88
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.87
PRK14574	822	hmsH outer membrane protein; Provisional	98.86
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.84
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.83
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.83
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.82
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.81
KOG1125	579	consensus TPR repeat-containing protein [General f	98.81
KOG2003	840	consensus TPR repeat-containing protein [General f	98.77
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.76
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.76
KOG2076	895	consensus RNA polymerase III transcription factor	98.75
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.73
KOG2076	895	consensus RNA polymerase III transcription factor	98.72
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.68
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.64
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.62
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.61
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.6
PLN02789	320	farnesyltranstransferase	98.59
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.5
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.5
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.48
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.48
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.47
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.45
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.42
KOG1129	478	consensus TPR repeat-containing protein [General f	98.41
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.4
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.4
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.38
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.38
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.37
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.37
PRK15359	144	type III secretion system chaperone protein SscB;	98.37
PRK15359	144	type III secretion system chaperone protein SscB;	98.37
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.36
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.33
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.33
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.28
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.28
PLN02789	320	farnesyltranstransferase	98.27
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.25
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.24
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.24
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.23
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.2
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.19
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.18
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.17
KOG1125	579	consensus TPR repeat-containing protein [General f	98.15
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.13
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.13
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.11
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.1
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.1
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.07
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.06
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.05
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.04
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.04
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.03
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.02
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.01
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.0
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.99
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.97
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.97
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.95
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.94
PRK04841	903	transcriptional regulator MalT; Provisional	97.93
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.92
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.89
PRK04841	903	transcriptional regulator MalT; Provisional	97.84
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.84
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.83
KOG4340	459	consensus Uncharacterized conserved protein [Funct	97.82
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.82
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.82
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.81
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.8
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.78
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.77
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.76
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.74
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.72
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.71
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.65
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.64
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.63
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.6
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.6
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.6
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.6
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.59
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.56
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.55
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.55
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.52
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.49
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.45
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.45
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.44
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.44
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.43
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.42
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.4
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.38
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.34
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.3
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.28
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.27
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.26
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.25
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.24
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.24
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.23
KOG0553	304	consensus TPR repeat-containing protein [General f	97.22
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.17
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.16
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.16
KOG0553	304	consensus TPR repeat-containing protein [General f	97.15
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.15
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.15
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.11
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.11
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.1
PF12688	120	TPR_5: Tetratrico peptide repeat	97.1
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.08
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.99
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.94
PF12688	120	TPR_5: Tetratrico peptide repeat	96.94
PF13371	73	TPR_9: Tetratricopeptide repeat	96.93
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.92
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	96.92
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.91
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.82
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.82
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.79
PRK10803	263	tol-pal system protein YbgF; Provisional	96.78
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.76
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.72
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.67
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.66
PRK10803	263	tol-pal system protein YbgF; Provisional	96.58
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.51
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.5
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.48
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.45
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.4
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.39
KOG3941	406	consensus Intermediate in Toll signal transduction	96.27
PF13371	73	TPR_9: Tetratricopeptide repeat	96.26
PRK15331	165	chaperone protein SicA; Provisional	96.24
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.17
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.14
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.04
PRK15331	165	chaperone protein SicA; Provisional	96.04
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.03
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.99
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.97
PF13428	44	TPR_14: Tetratricopeptide repeat	95.89
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.82
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.8
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.8
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.77
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.74
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.7
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.68
COG4700	251	Uncharacterized protein conserved in bacteria cont	95.67
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.51
PF13431	34	TPR_17: Tetratricopeptide repeat	95.37
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.35
KOG3941	406	consensus Intermediate in Toll signal transduction	95.22
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	95.2
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.1
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.09
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.97
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	94.9
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.73
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.43
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.41
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.29
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.26
KOG4555	175	consensus TPR repeat-containing protein [Function	94.24
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.11
PF13512	142	TPR_18: Tetratricopeptide repeat	94.11
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.0
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.0
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.95
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.93
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.87
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.84
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.33
KOG1585	308	consensus Protein required for fusion of vesicles	93.3
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.27
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.26
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.56
PF13512	142	TPR_18: Tetratricopeptide repeat	92.26
PRK11906	458	transcriptional regulator; Provisional	92.23
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.07
KOG2610	491	consensus Uncharacterized conserved protein [Funct	91.94
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	91.76
PF13428	44	TPR_14: Tetratricopeptide repeat	91.66
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.66
PRK11906	458	transcriptional regulator; Provisional	91.63
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	91.56
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.32
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.29
KOG2610	491	consensus Uncharacterized conserved protein [Funct	91.12
KOG4555	175	consensus TPR repeat-containing protein [Function	90.89
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.78
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	90.58
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	90.57
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	90.54
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	90.52
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.41
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	90.32
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.26
COG3947	361	Response regulator containing CheY-like receiver a	90.18
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.06
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.89
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.4
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	89.35
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	89.31
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	89.23
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	89.15
COG4105	254	ComL DNA uptake lipoprotein [General function pred	89.02
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	88.9
COG0457	291	NrfG FOG: TPR repeat [General function prediction	88.7
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	88.6
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.6
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	88.2
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.18
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	88.08
COG4105	254	ComL DNA uptake lipoprotein [General function pred	88.08
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.01
PF13762	145	MNE1: Mitochondrial splicing apparatus component	87.97
PF13431	34	TPR_17: Tetratricopeptide repeat	87.95
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	87.95
COG3898	531	Uncharacterized membrane-bound protein [Function u	87.56
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	87.2
COG1747	711	Uncharacterized N-terminal domain of the transcrip	87.18
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	86.72
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	86.68
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	86.63
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	86.12
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.12
PF13929	292	mRNA_stabil: mRNA stabilisation	85.86
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	85.35
COG4455	273	ImpE Protein of avirulence locus involved in tempe	84.74
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	84.51
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	83.86
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	83.79
KOG4234	271	consensus TPR repeat-containing protein [General f	83.51
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	82.76
PF13929	292	mRNA_stabil: mRNA stabilisation	82.48
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	81.32
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	81.17
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	80.47
KOG1550	552	consensus Extracellular protein SEL-1 and related	80.1
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	80.09

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

Probab=100.00  E-value=3e-75  Score=566.42  Aligned_cols=352  Identities=36%  Similarity=0.627  Sum_probs=342.2

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccC-------------
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL-------------   67 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l-------------   67 (352)
                      |++.|++++|+++|++|...|+.||..||++++.+|++.|++++|.+++.+|.+.|+.+|..+++++             
T Consensus       300 y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A  379 (697)
T PLN03081        300 YALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDA  379 (697)
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHH
Confidence            5789999999999999999999999999999999999999999999999999999999999999888             


Q ss_pred             ---------CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCC
Q 048142           68 ---------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIR  138 (352)
Q Consensus        68 ---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~  138 (352)
                               ||+++||+||.+|++.|+.++|+++|++|.+.|+.||..||+++|.+|++.|++++|.++|+.|.+++|+.
T Consensus       380 ~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~  459 (697)
T PLN03081        380 RNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIK  459 (697)
T ss_pred             HHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC
Confidence                     99999999999999999999999999999999999999999999999999999999999999999877999


Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHh
Q 048142          139 PSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS  218 (352)
Q Consensus       139 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~  218 (352)
                      |+..+|++|+++|++.|++++|.+++++|+..|+..+|++|+.+|..+|+++.|..+++++.+..|.+..+|+.|++.|+
T Consensus       460 p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~  539 (697)
T PLN03081        460 PRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYN  539 (697)
T ss_pred             CCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999989999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhh------------------------hcCcccCchhhhhcCCH
Q 048142          219 SSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV------------------------KAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       219 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~------------------------~~G~~~~~~~~~~~~~~  274 (352)
                      +.|++++|.++++.|+++|+++.++++|+.+.+.+|.|.                        +.|+.|+...++.++++
T Consensus       540 ~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~~~~~~  619 (697)
T PLN03081        540 SSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDE  619 (697)
T ss_pred             hCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhhccccH
Confidence            999999999999999999999999999999887666554                        78999999999999999


Q ss_pred             HHHhhhhhhhhHHHHHHHhhhCCCCCCcEEEEcccccccCccchhHHHhhhhcceEEeecCCccccccCCccCCCCCC
Q 048142          275 EEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKDFW  352 (352)
Q Consensus       275 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  352 (352)
                      +.++..+..|||+||++||+++++++.+|+|+||||+|+|||+|+|+||++.+|+|||||.+|||||++|+|||+|||
T Consensus       620 ~~~~~~~~~hsekla~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d~w  697 (697)
T PLN03081        620 DEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW  697 (697)
T ss_pred             HHHHHHHHhccHHHHHHhhCccCCCCCeEEEecCCEECCCchhhHHHHhhhcceEEEEecCCccccCCCCcccccccC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.9e-69  Score=534.97  Aligned_cols=348  Identities=41%  Similarity=0.748  Sum_probs=333.7

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccC-------------
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL-------------   67 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l-------------   67 (352)
                      |+++|+.++|+++|++|.. +++||..||+++|.+|++.|+++.+.+++..+.+.|+.++..+.+++             
T Consensus       465 ~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A  543 (857)
T PLN03077        465 LRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA  543 (857)
T ss_pred             HHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHH
Confidence            4678899999999999985 69999999999999999999999999999999999999999888887             


Q ss_pred             --------CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC
Q 048142           68 --------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP  139 (352)
Q Consensus        68 --------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p  139 (352)
                              ||+++||+||.+|++.|+.++|+++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+++|+.|
T Consensus       544 ~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P  623 (857)
T PLN03077        544 WNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITP  623 (857)
T ss_pred             HHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCC
Confidence                    899999999999999999999999999999999999999999999999999999999999999996679999


Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh
Q 048142          140 SIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS  219 (352)
Q Consensus       140 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~  219 (352)
                      +..+|++|+++|++.|++++|.+++++|+++||..+|++|+.+|..+|+.+.++...+++.+..|.+...|..|.+.|+.
T Consensus       624 ~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~  703 (857)
T PLN03077        624 NLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYAD  703 (857)
T ss_pred             chHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhh------------------------hcCcccCchhhhhcCCHH
Q 048142          220 SRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV------------------------KAGFVPNKSEVLFDMDEE  275 (352)
Q Consensus       220 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~------------------------~~G~~~~~~~~~~~~~~~  275 (352)
                      .|+|++|.++.+.|+++|++++++++|+.+++.+|.|.                        +.|+.|+...++ ..+++
T Consensus       704 ~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~-~~~~~  782 (857)
T PLN03077        704 AGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSM-DEIEV  782 (857)
T ss_pred             CCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhc-cccHH
Confidence            99999999999999999999999999999999887774                        789999888777 44778


Q ss_pred             HHhhhhhhhhHHHHHHHhhhCCCCCCcEEEEcccccccCccchhHHHhhhhcceEEeecCCccccccCCccCCCC
Q 048142          276 EKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRETVVMDRNRFHHFKNGSCSCKD  350 (352)
Q Consensus       276 ~~~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~  350 (352)
                      .++..+..|||+||++||+++++++++|+|+||||+|+|||+|+|+||++.+|+|||||.+|||||++|+|||+|
T Consensus       783 ~k~~~~~~hse~la~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d  857 (857)
T PLN03077        783 SKDDIFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD  857 (857)
T ss_pred             HHHHHHHhccHHHHHHHhhhcCCCCCeEEEeCCCEeCccHHHHHHHHHHHhCeEEEEecCCcceeCCCCcccCCC
Confidence            889999999999999999999999999999999999999999999999999999999999999999999999997

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.6e-47  Score=371.77  Aligned_cols=318  Identities=19%  Similarity=0.227  Sum_probs=239.9

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      |++.|++++|.++|++|.+.|+.||..+|++||++|++.|++++|.++|++|.+.|+.         ||..+||+||.+|
T Consensus       447 ~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~---------PdvvTynaLI~gy  517 (1060)
T PLN03218        447 CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVE---------ANVHTFGALIDGC  517 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCC---------CCHHHHHHHHHHH
Confidence            4678899999999999999999999999999999999999999999999999998888         7778888888888


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHh-cCCCCChhHHHHHHHHHHHcCCHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEK-YGIRPSIEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~-~g~~p~~~~~~~li~~~~~~g~~~~  159 (352)
                      ++.|++++|+++|++|.+.|+.||..||+.||.+|++.|++++|.++|++|... .|+.||..+|++||.+|++.|++++
T Consensus       518 ~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~lde  597 (1060)
T PLN03218        518 ARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDR  597 (1060)
T ss_pred             HHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHH
Confidence            888888888888888888888888888888888888888888888888888652 3678888888888888888888888


Q ss_pred             HHHHHHhC---CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-hCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          160 AEELIKNM---PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLE-LLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       160 A~~~~~~m---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      |.++|+.|   ++.|+..+|+++|.+|++.|++++|.++|++|.+ +..||..+|+.+|++|++.|++++|.+++++|.+
T Consensus       598 A~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k  677 (1060)
T PLN03218        598 AKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARK  677 (1060)
T ss_pred             HHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            88888887   6678888888888888888888888888888865 5677778888888888888888888888888888


Q ss_pred             cCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHHHHhhhhhhh---------hHHHHHHHhhhCCC------CC
Q 048142          236 RNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLH---------TEKLAITFGLVSPM------PG  300 (352)
Q Consensus       236 ~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~---------~~~l~~~~~~~~~~------~~  300 (352)
                      .|+.|+..+|..    ++..|++.|..++|..++.+|.+.+.......+         ...+..+..++..+      |.
T Consensus       678 ~G~~pd~~tyns----LI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd  753 (1060)
T PLN03218        678 QGIKLGTVSYSS----LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN  753 (1060)
T ss_pred             cCCCCCHHHHHH----HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            888888665554    444488888888888888777543222111111         11111111111100      00


Q ss_pred             --CcEEEEcccccccCccchhHHHhhhhcceEE
Q 048142          301 --VLIRIIKNLRVCNDCHTATNIISKVYNRETV  331 (352)
Q Consensus       301 --~~i~~~~~l~~~~~~~~a~~~~~~~~~~~~~  331 (352)
                        +-..++..+..+|+.++|.+++.+|...++-
T Consensus       754 ~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~  786 (1060)
T PLN03218        754 TITYSILLVASERKDDADVGLDLLSQAKEDGIK  786 (1060)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence              1113456677777777777777777766553

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.8e-46  Score=369.43  Aligned_cols=263  Identities=20%  Similarity=0.303  Sum_probs=235.6

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      |++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.         ||..+||+||.+|
T Consensus       482 y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~---------PD~vTYnsLI~a~  552 (1060)
T PLN03218        482 CAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVK---------PDRVVFNALISAC  552 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCC---------CCHHHHHHHHHHH
Confidence            5789999999999999999999999999999999999999999999999999999998         8888999999999


Q ss_pred             HhcCChHHHHHHHHHHHH--cCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHH
Q 048142           81 AMCGQGNKALEYFYEMQI--RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA  158 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~--~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~  158 (352)
                      ++.|++++|.++|++|..  .|+.||..||+++|.+|++.|++++|.++|++|.+. |+.|+..+|+++|.+|++.|+++
T Consensus       553 ~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~-gi~p~~~tynsLI~ay~k~G~~d  631 (1060)
T PLN03218        553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEY-NIKGTPEVYTIAVNSCSQKGDWD  631 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCChHHHHHHHHHHHhcCCHH
Confidence            999999999999999976  578999999999999999999999999999999886 99999999999999999999999


Q ss_pred             HHHHHHHhC---CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-hCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          159 KAEELIKNM---PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLE-LLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       159 ~A~~~~~~m---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      +|.++|++|   ++.||..+|+++|.+|++.|++++|.+++++|.+ +.+|+..+|++||.+|++.|++++|.++|++|.
T Consensus       632 eAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~  711 (1060)
T PLN03218        632 FALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK  711 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            999999998   7789999999999999999999999999999876 568888999999999999999999999999999


Q ss_pred             hcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHHHH
Q 048142          235 ERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEK  277 (352)
Q Consensus       235 ~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~  277 (352)
                      +.|+.|+..+++    .++..|++.|..++|.+++.+|...+.
T Consensus       712 ~~g~~PdvvtyN----~LI~gy~k~G~~eeAlelf~eM~~~Gi  750 (1060)
T PLN03218        712 SIKLRPTVSTMN----ALITALCEGNQLPKALEVLSEMKRLGL  750 (1060)
T ss_pred             HcCCCCCHHHHH----HHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            899999866654    455558899999999999988865543

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

Probab=100.00  E-value=1.2e-45  Score=359.17  Aligned_cols=339  Identities=19%  Similarity=0.238  Sum_probs=286.0

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccC-------------
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL-------------   67 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l-------------   67 (352)
                      |++.|++++|+++|++|...|+.||..||++++.+|++.|..+.+.+++..+.+.|+.+|..+++++             
T Consensus       199 ~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A  278 (697)
T PLN03081        199 LVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDA  278 (697)
T ss_pred             HHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHH
Confidence            4677888888888888888888888888888888888888888888888888888888888888887             


Q ss_pred             ---------CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCC
Q 048142           68 ---------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIR  138 (352)
Q Consensus        68 ---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~  138 (352)
                               +|+++||+||.+|++.|+.++|+++|++|.+.|+.||..||++++.+|++.|++++|.+++..|.+. |+.
T Consensus       279 ~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~-g~~  357 (697)
T PLN03081        279 RCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GFP  357 (697)
T ss_pred             HHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHh-CCC
Confidence                     8999999999999999999999999999999999999999999999999999999999999999997 999


Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-hCCCCcchHHHHHHHH
Q 048142          139 PSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLE-LLPDNGGSYVILSNRY  217 (352)
Q Consensus       139 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~li~~~  217 (352)
                      ||..+|++||++|+++|++++|.++|++|. +||..+||+||.+|+++|+.++|.++|++|.+ +..||..||+.++++|
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~  436 (697)
T PLN03081        358 LDIVANTALVDLYSKWGRMEDARNVFDRMP-RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC  436 (697)
T ss_pred             CCeeehHHHHHHHHHCCCHHHHHHHHHhCC-CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            999999999999999999999999999996 68999999999999999999999999999976 6889999999999999


Q ss_pred             hhcCChHHHHHHHHHHHh-cCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHHHHhhh----hhh---h-----
Q 048142          218 SSSRKWKKVKRIRELMAE-RNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETA----LNL---H-----  284 (352)
Q Consensus       218 ~~~g~~~~a~~~~~~m~~-~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~----~~~---~-----  284 (352)
                      ++.|++++|.++|+.|.+ .|+.|+..+|..++    ..|++.|..++|.+++.+|........    +..   +     
T Consensus       437 ~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li----~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~  512 (697)
T PLN03081        437 RYSGLSEQGWEIFQSMSENHRIKPRAMHYACMI----ELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLEL  512 (697)
T ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCCccchHhHH----HHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHH
Confidence            999999999999999975 69999977766544    459999999999999988753211111    100   0     


Q ss_pred             hHH-HHHHHhhhCCCCCCcEEEEcccccccCccchhHHHhhhhcceEEe-------ecCCccccccCCc
Q 048142          285 TEK-LAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRETVV-------MDRNRFHHFKNGS  345 (352)
Q Consensus       285 ~~~-l~~~~~~~~~~~~~~i~~~~~l~~~~~~~~a~~~~~~~~~~~~~~-------~~~~~~~~~~~g~  345 (352)
                      .+. ....+++-+.....-+.+++.+..+|+.++|.+++.+|.++++-.       --.+..|.|-.|-
T Consensus       513 a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d  581 (697)
T PLN03081        513 GRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGD  581 (697)
T ss_pred             HHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCC
Confidence            000 011122222222344567788999999999999999999997632       2224456666654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2e-46  Score=372.75  Aligned_cols=322  Identities=25%  Similarity=0.341  Sum_probs=277.9

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccC-------------
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL-------------   67 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l-------------   67 (352)
                      |+++|++++|+++|++|...|+.||..||+++|.+|++.|+++.|.+++..|.+.|+.||..+++++             
T Consensus       263 ~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A  342 (857)
T PLN03077        263 YFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEA  342 (857)
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHH
Confidence            5789999999999999999999999999999999999999999999999999999999999999988             


Q ss_pred             ---------CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCC
Q 048142           68 ---------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIR  138 (352)
Q Consensus        68 ---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~  138 (352)
                               ||.++||+||.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|++++|.++++.|.+. |+.
T Consensus       343 ~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~-g~~  421 (857)
T PLN03077        343 EKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERK-GLI  421 (857)
T ss_pred             HHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHh-CCC
Confidence                     8999999999999999999999999999999999999999999999999999999999999999997 999


Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-------------
Q 048142          139 PSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPD-------------  205 (352)
Q Consensus       139 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-------------  205 (352)
                      |+..+||+||++|+++|++++|.++|++|. +||.++|+++|.+|+++|+.++|..+|++|.+..+|             
T Consensus       422 ~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~-~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~  500 (857)
T PLN03077        422 SYVVVANALIEMYSKCKCIDKALEVFHNIP-EKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACA  500 (857)
T ss_pred             cchHHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHh
Confidence            999999999999999999999999999997 579999999999999999999999999998765444             


Q ss_pred             ----------------------------------------------------CcchHHHHHHHHhhcCChHHHHHHHHHH
Q 048142          206 ----------------------------------------------------NGGSYVILSNRYSSSRKWKKVKRIRELM  233 (352)
Q Consensus       206 ----------------------------------------------------~~~~~~~li~~~~~~g~~~~a~~~~~~m  233 (352)
                                                                          |..+|++||.+|++.|+.++|.++|++|
T Consensus       501 ~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M  580 (857)
T PLN03077        501 RIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRM  580 (857)
T ss_pred             hhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                                                                4455677777777788888888888888


Q ss_pred             HhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHHHHhhhhhhhhHHHHHHHhhhCCCCCCcEEEEccccccc
Q 048142          234 AERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCN  313 (352)
Q Consensus       234 ~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~l~~~~  313 (352)
                      .+.|+.||..|+..    ++..+.+.|.++++..+++.|.+.                +|+.+...... ++++.|.++|
T Consensus       581 ~~~g~~Pd~~T~~~----ll~a~~~~g~v~ea~~~f~~M~~~----------------~gi~P~~~~y~-~lv~~l~r~G  639 (857)
T PLN03077        581 VESGVNPDEVTFIS----LLCACSRSGMVTQGLEYFHSMEEK----------------YSITPNLKHYA-CVVDLLGRAG  639 (857)
T ss_pred             HHcCCCCCcccHHH----HHHHHhhcChHHHHHHHHHHHHHH----------------hCCCCchHHHH-HHHHHHHhCC
Confidence            88888888655544    444477888888888887777632                22222222222 6889999999


Q ss_pred             CccchhHHHhhhhcc------eEEeecCCccccccCCc
Q 048142          314 DCHTATNIISKVYNR------ETVVMDRNRFHHFKNGS  345 (352)
Q Consensus       314 ~~~~a~~~~~~~~~~------~~~~~~~~~~~~~~~g~  345 (352)
                      +.++|.+++.+|+-+      ..++..|+.+.+.+.|.
T Consensus       640 ~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e  677 (857)
T PLN03077        640 KLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGE  677 (857)
T ss_pred             CHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHH
Confidence            999999999999754      45566676666666554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.81  E-value=3.7e-18  Score=155.97  Aligned_cols=258  Identities=12%  Similarity=0.024  Sum_probs=208.3

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      ..|++++|+..|+++...+ +.+..++..+...+...|++++|..+++.+.+.+..++.      .....|..+...|.+
T Consensus        47 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~------~~~~~~~~La~~~~~  119 (389)
T PRK11788         47 LNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTRE------QRLLALQELGQDYLK  119 (389)
T ss_pred             hcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHH------HHHHHHHHHHHHHHH
Confidence            4689999999999999863 235668899999999999999999999999875422111      223578899999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC----hhHHHHHHHHHHHcCCHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS----IEHYGCLVYILGRAGRIA  158 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~~  158 (352)
                      .|++++|..+|+++.+. .+++..++..++..+.+.|++++|.+.++.+.+. +-.+.    ...+..+...+.+.|+++
T Consensus       120 ~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~la~~~~~~~~~~  197 (389)
T PRK11788        120 AGLLDRAEELFLQLVDE-GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKL-GGDSLRVEIAHFYCELAQQALARGDLD  197 (389)
T ss_pred             CCCHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHh-cCCcchHHHHHHHHHHHHHHHhCCCHH
Confidence            99999999999999875 3456778999999999999999999999999875 32222    224566778889999999


Q ss_pred             HHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC-cchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          159 KAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN-GGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       159 ~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      +|...|+++ ...|+ ...+..+...+...|++++|.+.++++.+..|.+ ..+++.++.+|...|++++|.+.++++.+
T Consensus       198 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  277 (389)
T PRK11788        198 AARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALE  277 (389)
T ss_pred             HHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999997 33454 6678888899999999999999999998876654 45688999999999999999999999987


Q ss_pred             cCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHH
Q 048142          236 RNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEE  275 (352)
Q Consensus       236 ~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~  275 (352)
                      ..  |+....    ..+...+.+.|..++|..++..+.+.
T Consensus       278 ~~--p~~~~~----~~la~~~~~~g~~~~A~~~l~~~l~~  311 (389)
T PRK11788        278 EY--PGADLL----LALAQLLEEQEGPEAAQALLREQLRR  311 (389)
T ss_pred             hC--CCchHH----HHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            64  543222    34556688999999999998766543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.81  E-value=9.7e-18  Score=153.19  Aligned_cols=261  Identities=11%  Similarity=0.031  Sum_probs=204.1

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGD---KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIV   78 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~---~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~   78 (352)
                      .+.|++++|+.+++.+...+..++   ..++..+...+.+.|++++|..+|+++.+...          ++..+++.++.
T Consensus        80 ~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~----------~~~~~~~~la~  149 (389)
T PRK11788         80 RRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEGD----------FAEGALQQLLE  149 (389)
T ss_pred             HHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCc----------chHHHHHHHHH
Confidence            467999999999999987543332   35678889999999999999999999987532          56778999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCH----hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHc
Q 048142           79 VLAMCGQGNKALEYFYEMQIRGVKPDA----ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRA  154 (352)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  154 (352)
                      .+.+.|++++|.+.++++.+.+..++.    ..+..+...+.+.|++++|...|+++.+. . +.+...+..+...|.+.
T Consensus       150 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~-~-p~~~~~~~~la~~~~~~  227 (389)
T PRK11788        150 IYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAA-D-PQCVRASILLGDLALAQ  227 (389)
T ss_pred             HHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH-C-cCCHHHHHHHHHHHHHC
Confidence            999999999999999999886544332    24566777888999999999999999864 2 23466788888999999


Q ss_pred             CCHHHHHHHHHhC-CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHH
Q 048142          155 GRIAKAEELIKNM-PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       155 g~~~~A~~~~~~m-~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      |++++|.++|+++ ...|+  ..+++.+..+|...|++++|...++++.+..|.. ..+..++..+.+.|++++|.++++
T Consensus       228 g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~-~~~~~la~~~~~~g~~~~A~~~l~  306 (389)
T PRK11788        228 GDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGA-DLLLALAQLLEEQEGPEAAQALLR  306 (389)
T ss_pred             CCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc-hHHHHHHHHHHHhCCHHHHHHHHH
Confidence            9999999999998 33444  4568889999999999999999999998876644 566889999999999999999999


Q ss_pred             HHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHHHHh
Q 048142          232 LMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKE  278 (352)
Q Consensus       232 ~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~  278 (352)
                      ++.+.  .|+...+..++...+ .....|...++..+++.+......
T Consensus       307 ~~l~~--~P~~~~~~~l~~~~~-~~~~~g~~~~a~~~~~~~~~~~~~  350 (389)
T PRK11788        307 EQLRR--HPSLRGFHRLLDYHL-AEAEEGRAKESLLLLRDLVGEQLK  350 (389)
T ss_pred             HHHHh--CcCHHHHHHHHHHhh-hccCCccchhHHHHHHHHHHHHHh
Confidence            88765  466443332222211 012378888999988887765433

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

Probab=99.77  E-value=7.4e-17  Score=162.20  Aligned_cols=251  Identities=11%  Similarity=0.040  Sum_probs=180.0

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|+.+++.+... .+.+..+|..+...+...|++++|...++.+.+...          .+...|..+...|.
T Consensus       578 ~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~  646 (899)
T TIGR02917       578 LGKGQLKKALAILNEAADA-APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQP----------DSALALLLLADAYA  646 (899)
T ss_pred             HHCCCHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CChHHHHHHHHHHH
Confidence            3456777777777776653 244566777777777777777777777777766432          34456777777777


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      +.|++++|...|+++.+. .+.+..++..+...+...|++++|..+++.+.+.  .+++...+..+...+.+.|++++|.
T Consensus       647 ~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~  723 (899)
T TIGR02917       647 VMKNYAKAITSLKRALEL-KPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQ--HPKAALGFELEGDLYLRQKDYPAAI  723 (899)
T ss_pred             HcCCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCChHHHHHHHHHHHHCCCHHHHH
Confidence            778888888888777764 2334667777777777888888888888877764  2446667777788888888888888


Q ss_pred             HHHHhC-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCC
Q 048142          162 ELIKNM-PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKK  240 (352)
Q Consensus       162 ~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  240 (352)
                      ..|+.+ ...|+..++..+...+...|++++|.+.++.+.+..|.+...+..+...|...|++++|.+.|+++.+..  |
T Consensus       724 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--p  801 (899)
T TIGR02917       724 QAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA--P  801 (899)
T ss_pred             HHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC--C
Confidence            888876 4456667777788888888888888888888888888888888888888888899999998888887654  2


Q ss_pred             CCceeEEEEcceeehhhhcCcccCchhhhhcC
Q 048142          241 PPGCILIEVDGVVHEFVKAGFVPNKSEVLFDM  272 (352)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~  272 (352)
                      +.   ...+..+...+.+.|. +.|..++...
T Consensus       802 ~~---~~~~~~l~~~~~~~~~-~~A~~~~~~~  829 (899)
T TIGR02917       802 DN---AVVLNNLAWLYLELKD-PRALEYAEKA  829 (899)
T ss_pred             CC---HHHHHHHHHHHHhcCc-HHHHHHHHHH
Confidence            21   1122334445566777 6677776654

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

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=99.76  E-value=3.1e-19  Score=131.45  Aligned_cols=59  Identities=59%  Similarity=1.038  Sum_probs=56.2

Q ss_pred             hhhhhhhhHHHHHHHhhhCCCCCCcEEEEccc-ccccCccchhHHHhhhhcceEEeecCCcccccc
Q 048142          278 ETALNLHTEKLAITFGLVSPMPGVLIRIIKNL-RVCNDCHTATNIISKVYNRETVVMDRNRFHHFK  342 (352)
Q Consensus       278 ~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~l-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  342 (352)
                      ...+..|+|++|++||++++      ++++|+ |+|+|||+++|++|++.+|+|+|||.+|||||+
T Consensus        57 ~~~~~~HSEKlAiafgli~~------~vvkn~~RvC~DCH~~~K~iS~~~~ReIiVRD~~rfHhFk  116 (116)
T PF14432_consen   57 EESLCYHSEKLAIAFGLINT------RVVKNLKRVCGDCHSFIKFISKITGREIIVRDSNRFHHFK  116 (116)
T ss_pred             hhhhhccHHHHHHHhcccce------eEEecCCccchHHHHHHHHHHHHHCeEEEEeCCCeeeeCC
Confidence            55789999999999999998      899999 999999999999999999999999999999997

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

Probab=99.75  E-value=3.4e-16  Score=157.41  Aligned_cols=218  Identities=12%  Similarity=0.056  Sum_probs=126.3

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|+..|+++.... +.+...+..+...+.+.|++++|...++++.+...          .+..+|..++..+.
T Consensus       612 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~  680 (899)
T TIGR02917       612 LAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKP----------DNTEAQIGLAQLLL  680 (899)
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC----------CCHHHHHHHHHHHH
Confidence            35677777777777776542 23556666777777777777777777777766432          34455666666666


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      ..|++++|.++++.+.+.+ +++...+..+...+...|++++|...|+.+...   .|+..++..+..++.+.|++++|.
T Consensus       681 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~  756 (899)
T TIGR02917       681 AAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR---APSSQNAIKLHRALLASGNTAEAV  756 (899)
T ss_pred             HcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHCCCHHHHH
Confidence            6666666666666665542 334455555555666666666666666665542   333344555555555556666655


Q ss_pred             HHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          162 ELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       162 ~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      +.++++  ....+...+..+...+...|+.++|...|+++.+..|+++.+++.+...+...|+ .+|...+++..+
T Consensus       757 ~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~  831 (899)
T TIGR02917       757 KTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALK  831 (899)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHh
Confidence            555554  1122344555555555555555555555555555555555555555555555555 445555555443

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

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.64  E-value=4.8e-14  Score=136.16  Aligned_cols=251  Identities=9%  Similarity=-0.037  Sum_probs=165.2

Q ss_pred             cCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      ..|++++|++.|+++...  .| +...+..+...+.+.|++++|...++++.+...          .+...|..+...+.
T Consensus        88 ~~g~~~~A~~~l~~~l~~--~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P----------~~~~a~~~la~~l~  155 (656)
T PRK15174         88 ASSQPDAVLQVVNKLLAV--NVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFS----------GNSQIFALHLRTLV  155 (656)
T ss_pred             hcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CcHHHHHHHHHHHH
Confidence            457777777777777764  34 455666677777777777777777777776432          34556777777778


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      ..|++++|...++++...... +...+..+ ..+...|++++|...++.+.+. .-.++...+..+...+.+.|++++|.
T Consensus       156 ~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~-~~~~~~~~~~~l~~~l~~~g~~~eA~  232 (656)
T PRK15174        156 LMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPF-FALERQESAGLAVDTLCAVGKYQEAI  232 (656)
T ss_pred             HCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhc-CCCcchhHHHHHHHHHHHCCCHHHHH
Confidence            888888888877777654222 22223222 3366677888888777776653 22223344445566777788888888


Q ss_pred             HHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHH----HHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          162 ELIKNM-PMAL-DHFVLGGLLGACRIHDNLEA----AERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       162 ~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..+++. ...| +...+..+...+...|++++    |...+++..+..|.+...+..+...+...|++++|...+++..+
T Consensus       233 ~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~  312 (656)
T PRK15174        233 QTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLA  312 (656)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            887776 3334 35666777777788888775    67778887777777777888888888888888888888887766


Q ss_pred             cCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCC
Q 048142          236 RNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMD  273 (352)
Q Consensus       236 ~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~  273 (352)
                      ..  |+....   ...+...+.+.|..++|...+..+.
T Consensus       313 l~--P~~~~a---~~~La~~l~~~G~~~eA~~~l~~al  345 (656)
T PRK15174        313 TH--PDLPYV---RAMYARALRQVGQYTAASDEFVQLA  345 (656)
T ss_pred             hC--CCCHHH---HHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            43  432211   1123344667777777777775544

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.62  E-value=3e-13  Score=130.67  Aligned_cols=254  Identities=9%  Similarity=-0.070  Sum_probs=202.9

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      .+.|++++|++.|++....  .| +...+..+...+...|++++|...++.+......          +...+..+ ..+
T Consensus       121 ~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~----------~~~a~~~~-~~l  187 (656)
T PRK15174        121 LKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP----------RGDMIATC-LSF  187 (656)
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC----------CHHHHHHH-HHH
Confidence            4679999999999999874  45 5677888999999999999999999988775543          22233333 347


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHH-
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAK-  159 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~-  159 (352)
                      ...|++++|...++++....-.++...+..+..++...|++++|...+++..+.  -+.+...+..+...|...|++++ 
T Consensus       188 ~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~--~p~~~~~~~~Lg~~l~~~G~~~eA  265 (656)
T PRK15174        188 LNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALAR--GLDGAALRRSLGLAYYQSGRSREA  265 (656)
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCchhh
Confidence            889999999999999887643344555666678889999999999999999864  23367788889999999999986 


Q ss_pred             ---HHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          160 ---AEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       160 ---A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                         |...|++. ...|+ ...+..+...+...|++++|...+++..+..|.+...+..+...|.+.|++++|.+.++.+.
T Consensus       266 ~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al  345 (656)
T PRK15174        266 KLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLA  345 (656)
T ss_pred             HHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence               78999887 44555 77889999999999999999999999999999999999999999999999999999999988


Q ss_pred             hcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHH
Q 048142          235 ERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEE  275 (352)
Q Consensus       235 ~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~  275 (352)
                      +.+  |+....   .......+...|..++|...+....+.
T Consensus       346 ~~~--P~~~~~---~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        346 REK--GVTSKW---NRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HhC--ccchHH---HHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            753  332111   111234577899999999998875443

>PF13041 PPR_2: PPR repeat family

Probab=99.56  E-value=1.1e-14  Score=91.10  Aligned_cols=50  Identities=34%  Similarity=0.495  Sum_probs=46.8

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSH  117 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  117 (352)
                      ||+++||+||.+|++.|++++|.++|++|.+.|++||..||+++|++|++
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            78899999999999999999999999999999999999999999999875

>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=99.56  E-value=3.2e-12  Score=123.48  Aligned_cols=253  Identities=12%  Similarity=-0.006  Sum_probs=198.8

Q ss_pred             CCChhHHHHHHHHHHHCC-CCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKG-LTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g-~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+++++|++.|+.....+ ..| +...|+.+...+...|++++|...+++..+...          .+...|..+...+.
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P----------~~~~~~~~la~~~~  376 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDP----------RVTQSYIKRASMNL  376 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC----------CcHHHHHHHHHHHH
Confidence            478999999999998764 334 456778888888899999999999999987542          34567888999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A  160 (352)
                      ..|++++|+..|++..+.. +.+...|..+...+...|++++|...|++..+   +.| +...+..+...+.+.|++++|
T Consensus       377 ~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~---l~P~~~~~~~~la~~~~~~g~~~eA  452 (615)
T TIGR00990       377 ELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSID---LDPDFIFSHIQLGVTQYKEGSIASS  452 (615)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCccCHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999988752 33567888899999999999999999999875   345 567788888899999999999


Q ss_pred             HHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcch-------HHHHHHHHhhcCChHHHHHHHH
Q 048142          161 EELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGS-------YVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       161 ~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      +..|++. ...|+ ...|+.+...+...|++++|++.|++..+..|.+..+       ++.....+...|++++|.++++
T Consensus       453 ~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~  532 (615)
T TIGR00990       453 MATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCE  532 (615)
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            9999987 44454 7788888999999999999999999988876543222       2223334455799999999999


Q ss_pred             HHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHH
Q 048142          232 LMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEE  275 (352)
Q Consensus       232 ~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~  275 (352)
                      +.....  |+...   ....+...+.+.|..++|..+++...+.
T Consensus       533 kAl~l~--p~~~~---a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       533 KALIID--PECDI---AVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHhcC--CCcHH---HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            877653  44322   3345677788999999999998775443

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

Probab=99.55  E-value=7.8e-15  Score=127.77  Aligned_cols=254  Identities=16%  Similarity=0.101  Sum_probs=109.5

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHH-HHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTM-VSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~-~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      .+.|++++|++++++-.....+|+...| ..+.......++.+.|.+.++++.+.+.          -+...+..++.. 
T Consensus        19 ~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~----------~~~~~~~~l~~l-   87 (280)
T PF13429_consen   19 YQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK----------ANPQDYERLIQL-   87 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccc----------cccccccccccc-
Confidence            4679999999999665544324544444 4455566778999999999999988654          233467777777 


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  160 (352)
                      ...+++++|.+++.+..+.  .++...+..++..+...++++++..+++.........++...|..+...+.+.|+.++|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A  165 (280)
T PF13429_consen   88 LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKA  165 (280)
T ss_dssp             --------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHH
T ss_pred             ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            6899999999999887654  35667778888899999999999999999876434456888899999999999999999


Q ss_pred             HHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          161 EELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       161 ~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      .+.+++. ...|+ ....+.++..+...|+.+++.++++...+..|.|+..+..+..+|...|+.++|...+++....+-
T Consensus       166 ~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p  245 (280)
T PF13429_consen  166 LRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP  245 (280)
T ss_dssp             HHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccc
Confidence            9999987 44564 777888999999999999999999999888788889999999999999999999999999876443


Q ss_pred             CCCCceeEEEEcceeehhhhcCcccCchhhhhcCC
Q 048142          239 KKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMD  273 (352)
Q Consensus       239 ~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~  273 (352)
                      . |+    .....+...+...|..+.|..+....-
T Consensus       246 ~-d~----~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  246 D-DP----LWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             T--H----HHHHHHHHHHT----------------
T ss_pred             c-cc----ccccccccccccccccccccccccccc
Confidence            2 21    122245566889999999998876543

>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=99.53  E-value=4.8e-12  Score=122.26  Aligned_cols=218  Identities=11%  Similarity=0.013  Sum_probs=137.6

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGD-KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      ..|++++|+..|++....  .|+ ..+|..+...+...|++++|...+++..+...          .+...|..+...|.
T Consensus       343 ~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p----------~~~~~~~~lg~~~~  410 (615)
T TIGR00990       343 LKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNS----------EDPDIYYHRAQLHF  410 (615)
T ss_pred             HcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHH
Confidence            456777777777776653  343 45666666667777777777777777766432          34456677777777


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      ..|++++|+..|++..+.. +.+...+..+...+.+.|++++|...|++..+.  .+.+...++.+...|...|++++|.
T Consensus       411 ~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~  487 (615)
T TIGR00990       411 IKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAI  487 (615)
T ss_pred             HcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHH
Confidence            7777777777777776641 223455666666677777777777777776642  2224566667777777777777777


Q ss_pred             HHHHhC-CCCCc-HHHHH------HHHHHHH-hcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHH
Q 048142          162 ELIKNM-PMALD-HFVLG------GLLGACR-IHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIREL  232 (352)
Q Consensus       162 ~~~~~m-~~~p~-~~~~~------~li~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  232 (352)
                      +.|++. ...|+ ..++.      .....+. ..|++++|.+++++..+..|.+...+..+...+...|++++|.+.|++
T Consensus       488 ~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~  567 (615)
T TIGR00990       488 EKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFER  567 (615)
T ss_pred             HHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            777764 33332 11111      1111222 246777777777777666666666677777777777777777777776


Q ss_pred             HHh
Q 048142          233 MAE  235 (352)
Q Consensus       233 m~~  235 (352)
                      ..+
T Consensus       568 A~~  570 (615)
T TIGR00990       568 AAE  570 (615)
T ss_pred             HHH
Confidence            654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.50  E-value=2.4e-12  Score=111.45  Aligned_cols=210  Identities=15%  Similarity=0.150  Sum_probs=167.8

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048142           23 TGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVK  102 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  102 (352)
                      +.+..||.++|.++|+-...+.|.+++.+-.....+         .+..+||.+|.+-+-..    -.+++.+|....+.
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~k---------v~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGK---------VYREAFNGLIGASSYSV----GKKLVAEMISQKMT  270 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhhe---------eeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcC
Confidence            347889999999999999999999999998887666         56689999986654222    27899999999999


Q ss_pred             CCHhHHHHHHHHHhccCCHHH----HHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHH-HHHHHHh----C------
Q 048142          103 PDAITFVGVLVACSHAGLVDE----RISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAK-AEELIKN----M------  167 (352)
Q Consensus       103 p~~~t~~~ll~~~~~~g~~~~----a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~----m------  167 (352)
                      ||..|||+++++.++.|+++.    |.+++.+|++- |+.|+..+|..+|..+++.++..+ |..++.+    +      
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKei-GVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fk  349 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEI-GVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFK  349 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHh-CCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCccc
Confidence            999999999999999998876    46788999986 999999999999999999887754 4444333    3      


Q ss_pred             CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----CCCC---cchHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          168 PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLEL-----LPDN---GGSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       168 ~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      +..|+ ..-|.+-++.|.+..+.+.|.++...+..+     .+++   ...|..+..+.+.....+.....|+.|.-+-+
T Consensus       350 p~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y  429 (625)
T KOG4422|consen  350 PITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAY  429 (625)
T ss_pred             CCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccee
Confidence            34454 566778888888999999999988877654     2332   34566788888899999999999999987777


Q ss_pred             CCCCceeE
Q 048142          239 KKPPGCIL  246 (352)
Q Consensus       239 ~p~~~~~~  246 (352)
                      -|++++..
T Consensus       430 ~p~~~~m~  437 (625)
T KOG4422|consen  430 FPHSQTMI  437 (625)
T ss_pred             cCCchhHH
Confidence            77755443

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

Probab=99.50  E-value=6.6e-13  Score=119.75  Aligned_cols=213  Identities=13%  Similarity=0.121  Sum_probs=93.6

Q ss_pred             CCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            4 DSACEEALLLFREVQHKGLTGD-KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      +|+..+|+..|++..+  +.|+ ...|..|-+.|...+.++.|..-+........          ...+.|..|...|-.
T Consensus       231 ~Gei~~aiq~y~eAvk--ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrp----------n~A~a~gNla~iYye  298 (966)
T KOG4626|consen  231 QGEIWLAIQHYEEAVK--LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRP----------NHAVAHGNLACIYYE  298 (966)
T ss_pred             cchHHHHHHHHHHhhc--CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCC----------cchhhccceEEEEec
Confidence            4555555555555554  3343 34555555555555555555555554443221          122233333334444


Q ss_pred             cCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A  160 (352)
                      .|.++-|++.+++..+  +.|+ ...|+.|..++-..|++.+|.+.+.....   +.| -...-+.|...|...|.+++|
T Consensus       299 qG~ldlAI~~Ykral~--~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~---l~p~hadam~NLgni~~E~~~~e~A  373 (966)
T KOG4626|consen  299 QGLLDLAIDTYKRALE--LQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR---LCPNHADAMNNLGNIYREQGKIEEA  373 (966)
T ss_pred             cccHHHHHHHHHHHHh--cCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH---hCCccHHHHHHHHHHHHHhccchHH
Confidence            4444444444444433  2333 23344444444444444444444444432   122 223333444444444444444


Q ss_pred             HHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHH
Q 048142          161 EELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELM  233 (352)
Q Consensus       161 ~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  233 (352)
                      ..+|... .+.|. ...++.|...|-+.|++++|+..+++.++..|.-...|+.+.+.|-..|+.+.|.+.+.+.
T Consensus       374 ~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rA  448 (966)
T KOG4626|consen  374 TRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSAAIQCYTRA  448 (966)
T ss_pred             HHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHHHHHHHHHH
Confidence            4444433 23333 3334444444444444444444444444444444444444444444444444444444433

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.48  E-value=5.9e-11  Score=99.81  Aligned_cols=200  Identities=14%  Similarity=0.053  Sum_probs=162.3

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      ....+..+...+...|++++|.+.+++..+...          .+...+..+...|...|++++|.+.+++..+.. +.+
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p----------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~   98 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDP----------DDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNN   98 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc----------ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCC
Confidence            356677888889999999999999999887542          455678888999999999999999999988753 335


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGA  182 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~  182 (352)
                      ...+..+...+...|++++|...+++.............+..+...+...|++++|...+++. ...| +...+..+...
T Consensus        99 ~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~  178 (234)
T TIGR02521        99 GDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAEL  178 (234)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHH
Confidence            567778888899999999999999998864122224556777888899999999999999887 3334 46678888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          183 CRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       183 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      +...|++++|...+++..+..+.+...+..+...+...|+.++|..+.+.+..
T Consensus       179 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       179 YYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999999999999998877777777888888889999999999998887754

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.

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

Probab=99.48  E-value=1.5e-11  Score=111.24  Aligned_cols=206  Identities=15%  Similarity=0.153  Sum_probs=144.7

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHH
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGD-KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVV   79 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~   79 (352)
                      |-.+|..+-|++.+++...  +.|+ ...|+.|..++-..|++.+|.+.+.+......          .-..+.|.|...
T Consensus       296 YyeqG~ldlAI~~Ykral~--~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p----------~hadam~NLgni  363 (966)
T KOG4626|consen  296 YYEQGLLDLAIDTYKRALE--LQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCP----------NHADAMNNLGNI  363 (966)
T ss_pred             EeccccHHHHHHHHHHHHh--cCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCC----------ccHHHHHHHHHH
Confidence            3456777777777777765  3554 56777777777777777777777777776543          223456777777


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHcCCH
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRAGRI  157 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~  157 (352)
                      |...|.+++|..+|....+  +.|. ...++.|...|-+.|++++|...+++..   .+.|+ ...|+.+...|-..|++
T Consensus       364 ~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  364 YREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhhH
Confidence            7777777777777777666  4555 4557777777777778887777777775   45664 46677777777777777


Q ss_pred             HHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCCh
Q 048142          158 AKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKW  223 (352)
Q Consensus       158 ~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  223 (352)
                      +.|...+.+. .++|. ...++.|.+.|...|++.+|++.++..++..|+-+..|-.++.+..--.+|
T Consensus       439 ~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw  506 (966)
T KOG4626|consen  439 SAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDW  506 (966)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcc
Confidence            7777777765 55666 566777777777788888888888777777777666776666665444443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.45  E-value=6.5e-11  Score=117.84  Aligned_cols=215  Identities=11%  Similarity=0.066  Sum_probs=164.0

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC
Q 048142            5 SACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG   84 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g   84 (352)
                      |++++|+..|.+....  .|+......+...+...|++++|...++++....           |+...+..+...+.+.|
T Consensus       490 ~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~-----------p~~~a~~~la~all~~G  556 (987)
T PRK09782        490 TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLHD-----------MSNEDLLAAANTAQAAG  556 (987)
T ss_pred             CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-----------CCcHHHHHHHHHHHHCC
Confidence            6777888877777654  4665544444555568899999999888875432           33345667777888889


Q ss_pred             ChHHHHHHHHHHHHcCCCCCH-hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHH
Q 048142           85 QGNKALEYFYEMQIRGVKPDA-ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEEL  163 (352)
Q Consensus        85 ~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  163 (352)
                      +.++|...|++..+..  |+. ..+..+.......|++++|...+++..+   ..|+...|..+...+.+.|++++|...
T Consensus       557 d~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~  631 (987)
T PRK09782        557 NGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSD  631 (987)
T ss_pred             CHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999998888753  433 3333344444566999999999988874   467788888888889999999999999


Q ss_pred             HHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          164 IKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       164 ~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      +++. ...|+ ...++.+...+...|+.++|+..+++..+..|.++..+..+..++...|++++|...+++..+..
T Consensus       632 l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        632 LRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            8887 45565 56677777788889999999999999988888888889999999999999999999888876543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.43  E-value=3.7e-11  Score=109.70  Aligned_cols=245  Identities=10%  Similarity=0.001  Sum_probs=147.0

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHH--HHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMV--SLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~--~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .|++++|.+.|.++.+.  .|+.....  .....+...|+++.|...++++.+...          .+......+...|.
T Consensus       131 ~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P----------~~~~al~ll~~~~~  198 (398)
T PRK10747        131 RGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAP----------RHPEVLRLAEQAYI  198 (398)
T ss_pred             CCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC----------CCHHHHHHHHHHHH
Confidence            45555555555555432  33332211  122334445555555555555544432          23344555555555


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCH-------hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHc
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDA-------ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRA  154 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~-------~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  154 (352)
                      +.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++++.+.+.  .+.++.....+...+...
T Consensus       199 ~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~--~~~~~~~~~~~A~~l~~~  276 (398)
T PRK10747        199 RTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK--TRHQVALQVAMAEHLIEC  276 (398)
T ss_pred             HHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH--HhCCHHHHHHHHHHHHHC
Confidence            555555555555555554433211       12222222222333334444444444332  233556666778888899


Q ss_pred             CCHHHHHHHHHhC-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHH
Q 048142          155 GRIAKAEELIKNM-PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELM  233 (352)
Q Consensus       155 g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  233 (352)
                      |+.++|.+++++. ...||....  ++.+....++.+++.+..+...+..|.|+..+..+...+.+.+++++|.+.|+..
T Consensus       277 g~~~~A~~~L~~~l~~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~a  354 (398)
T PRK10747        277 DDHDTAQQIILDGLKRQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAA  354 (398)
T ss_pred             CCHHHHHHHHHHHHhcCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999999887 444555322  3455556699999999999999999999999999999999999999999999999


Q ss_pred             HhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhh
Q 048142          234 AERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLF  270 (352)
Q Consensus       234 ~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~  270 (352)
                      .+..  |+...+.    .+...+.+.|..++|..++.
T Consensus       355 l~~~--P~~~~~~----~La~~~~~~g~~~~A~~~~~  385 (398)
T PRK10747        355 LKQR--PDAYDYA----WLADALDRLHKPEEAAAMRR  385 (398)
T ss_pred             HhcC--CCHHHHH----HHHHHHHHcCCHHHHHHHHH
Confidence            8754  5543322    23444667888777766654

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

Probab=99.43  E-value=8.5e-13  Score=114.96  Aligned_cols=216  Identities=15%  Similarity=0.148  Sum_probs=113.6

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      ..++.++|.+.++++...+.. +...+..++.. ...+++++|.+++....+..           ++...+..++..+.+
T Consensus        56 ~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~-----------~~~~~l~~~l~~~~~  122 (280)
T PF13429_consen   56 SLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPEEALKLAEKAYERD-----------GDPRYLLSALQLYYR  122 (280)
T ss_dssp             ---------------------------------------------------------------------------H-HHH
T ss_pred             ccccccccccccccccccccc-ccccccccccc-cccccccccccccccccccc-----------cccchhhHHHHHHHH
Confidence            357899999999999876533 56667777776 78999999999988766543           444567888899999


Q ss_pred             cCChHHHHHHHHHHHHcC-CCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHH
Q 048142           83 CGQGNKALEYFYEMQIRG-VKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A  160 (352)
                      .++++++.+++++..... .+++...|..+...+.+.|+.++|...+++..+.   .| |....+.++..+...|+.+++
T Consensus       123 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~---~P~~~~~~~~l~~~li~~~~~~~~  199 (280)
T PF13429_consen  123 LGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL---DPDDPDARNALAWLLIDMGDYDEA  199 (280)
T ss_dssp             TT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH----TT-HHHHHHHHHHHCTTCHHHHH
T ss_pred             HhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHCCChHHH
Confidence            999999999999987543 3567778888999999999999999999999865   66 578888999999999999998


Q ss_pred             HHHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          161 EELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       161 ~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      .++++..  ....|+..|..+..++...|+.++|...+++..+..|.|+.+...+.+++...|+.++|.+++.+..
T Consensus       200 ~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  200 REALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT----------------
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            8888776  1134556788899999999999999999999999999999999999999999999999999987654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.43  E-value=3.4e-11  Score=124.05  Aligned_cols=251  Identities=9%  Similarity=-0.018  Sum_probs=191.4

Q ss_pred             cCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHH-------
Q 048142            3 EDSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLT-------   74 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~-------   74 (352)
                      +.|++++|+..|++....  .| +...+..+...+.+.|++++|+..|++..+.....        +....|.       
T Consensus       281 ~~g~~~~A~~~l~~aL~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~--------~~~~~~~~ll~~~~  350 (1157)
T PRK11447        281 DSGQGGKAIPELQQAVRA--NPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHS--------SNRDKWESLLKVNR  350 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc--------cchhHHHHHHHhhh
Confidence            569999999999999885  45 78889999999999999999999999998765321        2222222       


Q ss_pred             -----HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHH
Q 048142           75 -----ALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLV  148 (352)
Q Consensus        75 -----~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li  148 (352)
                           .+...+.+.|++++|+..|++..+.. +.+...+..+...+...|++++|.+.|++..+.   .| +...+..+.
T Consensus       351 ~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~---~p~~~~a~~~L~  426 (1157)
T PRK11447        351 YWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRM---DPGNTNAVRGLA  426 (1157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence                 22446778999999999999999862 335667788899999999999999999999864   44 456667777


Q ss_pred             HHHHHcCCHHHHHHHHHhCCCC-Cc----------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHH
Q 048142          149 YILGRAGRIAKAEELIKNMPMA-LD----------HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY  217 (352)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~m~~~-p~----------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~  217 (352)
                      ..|. .++.++|..+++.++.. +.          ...+..+...+...|++++|++.+++..+..|.++..+..+...|
T Consensus       427 ~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~  505 (1157)
T PRK11447        427 NLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDL  505 (1157)
T ss_pred             HHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            7774 56789999999887311 11          123455667788999999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCC
Q 048142          218 SSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMD  273 (352)
Q Consensus       218 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~  273 (352)
                      .+.|++++|...++++.+..  |+.....   ......+.+.|..++|...+..+.
T Consensus       506 ~~~G~~~~A~~~l~~al~~~--P~~~~~~---~a~al~l~~~~~~~~Al~~l~~l~  556 (1157)
T PRK11447        506 RQAGQRSQADALMRRLAQQK--PNDPEQV---YAYGLYLSGSDRDRAALAHLNTLP  556 (1157)
T ss_pred             HHcCCHHHHHHHHHHHHHcC--CCCHHHH---HHHHHHHHhCCCHHHHHHHHHhCC
Confidence            99999999999999987643  3321110   111122346788888888877664

>PF13041 PPR_2: PPR repeat family

Probab=99.41  E-value=4.9e-13  Score=83.55  Aligned_cols=50  Identities=28%  Similarity=0.539  Sum_probs=46.9

Q ss_pred             CCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHH
Q 048142          103 PDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGR  153 (352)
Q Consensus       103 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~  153 (352)
                      ||.++||++|++|++.|++++|.++|++|.+. |+.||..||++||++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~-g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKR-GIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999987 999999999999999875

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.40  E-value=1.3e-10  Score=119.88  Aligned_cols=258  Identities=13%  Similarity=0.059  Sum_probs=183.6

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccC---------------
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL---------------   67 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l---------------   67 (352)
                      +.|++++|++.|++..... +.+...+..+...+...|++++|++.|+++.+....... ....+               
T Consensus       363 ~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~-a~~~L~~l~~~~~~~~A~~~  440 (1157)
T PRK11447        363 KANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTN-AVRGLANLYRQQSPEKALAF  440 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHhcCHHHHHHH
Confidence            5789999999999998853 335677888889999999999999999999875432100 00000               


Q ss_pred             ----C--------------cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHH
Q 048142           68 ----K--------------DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHF  128 (352)
Q Consensus        68 ----~--------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~  128 (352)
                          +              ....+..+...+...|++++|++.|++..+.  .|+ ...+..+...+.+.|++++|...+
T Consensus       441 l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G~~~~A~~~l  518 (1157)
T PRK11447        441 IASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAGQRSQADALM  518 (1157)
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence                0              0012233445566789999999999998874  454 556777888899999999999999


Q ss_pred             HHhhHhcCCCC-ChhHHHHH--------------------------------------------HHHHHHcCCHHHHHHH
Q 048142          129 NLMSEKYGIRP-SIEHYGCL--------------------------------------------VYILGRAGRIAKAEEL  163 (352)
Q Consensus       129 ~~m~~~~g~~p-~~~~~~~l--------------------------------------------i~~~~~~g~~~~A~~~  163 (352)
                      +++.+.   .| +...+..+                                            ...+...|+.++|..+
T Consensus       519 ~~al~~---~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~  595 (1157)
T PRK11447        519 RRLAQQ---KPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEAL  595 (1157)
T ss_pred             HHHHHc---CCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHH
Confidence            998753   23 33222222                                            2334455555666665


Q ss_pred             HHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCc
Q 048142          164 IKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPG  243 (352)
Q Consensus       164 ~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  243 (352)
                      ++.-+  ++...+..+...+...|+.++|+..|++..+..|.++..+..+...|...|++++|.+.++...+.  .|+..
T Consensus       596 l~~~p--~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~  671 (1157)
T PRK11447        596 LRQQP--PSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSL  671 (1157)
T ss_pred             HHhCC--CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCCh
Confidence            55332  234566677888899999999999999999999999999999999999999999999999987653  33321


Q ss_pred             eeEEEEcceeehhhhcCcccCchhhhhcCCH
Q 048142          244 CILIEVDGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       244 ~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                      .   ....+...+...|+.++|.++++.+..
T Consensus       672 ~---~~~~la~~~~~~g~~~eA~~~~~~al~  699 (1157)
T PRK11447        672 N---TQRRVALAWAALGDTAAAQRTFNRLIP  699 (1157)
T ss_pred             H---HHHHHHHHHHhCCCHHHHHHHHHHHhh
Confidence            1   112233456688999999998887654

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

Probab=99.39  E-value=2.3e-11  Score=110.85  Aligned_cols=223  Identities=13%  Similarity=0.081  Sum_probs=174.1

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC-C-CCccccccC----------------
Q 048142            6 ACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNI-E-VDVGLGMAL----------------   67 (352)
Q Consensus         6 ~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~-~~~~~~~~l----------------   67 (352)
                      +.++|+..|.....+ +.-+......+-.+|...+++++|+++|+.+.+... . .+..++.+.                
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            457889999885543 333445556788899999999999999999887431 1 112222222                


Q ss_pred             ------CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC
Q 048142           68 ------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS  140 (352)
Q Consensus        68 ------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~  140 (352)
                            -...+|.++.++|.-+++.+.|++.|++..+  +.| .+++|+.+-.-+.....+|.|...|+...     ..|
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al-----~~~  485 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL-----GVD  485 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh-----cCC
Confidence                  4557899999999999999999999999887  566 67888888888888899999999888765     336


Q ss_pred             hhHHHH---HHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHH
Q 048142          141 IEHYGC---LVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSN  215 (352)
Q Consensus       141 ~~~~~~---li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~  215 (352)
                      +.+||+   |.-.|.+.++++.|+-.|++. .+.|. .+....+...+-+.|+.|+|++++++....+|.|+-.--..+.
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~  565 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRAS  565 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHH
Confidence            666666   455688999999999999887 66665 5555666677888899999999999998888888888778888


Q ss_pred             HHhhcCChHHHHHHHHHHHhc
Q 048142          216 RYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       216 ~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      .+...+++++|.+.++++++.
T Consensus       566 il~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  566 ILFSLGRYVEALQELEELKEL  586 (638)
T ss_pred             HHHhhcchHHHHHHHHHHHHh
Confidence            888899999999999999764

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.38  E-value=3.8e-10  Score=112.44  Aligned_cols=219  Identities=13%  Similarity=0.096  Sum_probs=182.4

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      +.|++++|...|+++...  .|+...+..+..++.+.|++++|...+++..+...          ++...+..+.....+
T Consensus       521 ~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P----------~~~~l~~~La~~l~~  588 (987)
T PRK09782        521 QVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGL----------GDNALYWWLHAQRYI  588 (987)
T ss_pred             HCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC----------ccHHHHHHHHHHHHh
Confidence            579999999999998653  55566677778888999999999999999988653          233344444445556


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      .|++++|...|++..+  ..|+...|..+..++.+.|+.++|...+++...   ..| +...++.+...+...|++++|.
T Consensus       589 ~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~---l~Pd~~~a~~nLG~aL~~~G~~eeAi  663 (987)
T PRK09782        589 PGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAAVSDLRAALE---LEPNNSNYQAALGYALWDSGDIAQSR  663 (987)
T ss_pred             CCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            7999999999999987  567888899999999999999999999999985   356 6778888888999999999999


Q ss_pred             HHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          162 ELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       162 ~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      ..+++. ...|+ ...+..+..++...|++++|+..+++..+..|.+..+.-.......+..+++.+.+-++.-...++
T Consensus       664 ~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~  742 (987)
T PRK09782        664 EMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSF  742 (987)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCc
Confidence            999987 44554 778899999999999999999999999999998888888888888888888888888776655443

>TIGR00540 hemY_coli hemY protein

Probab=99.37  E-value=9.1e-11  Score=107.62  Aligned_cols=224  Identities=12%  Similarity=-0.063  Sum_probs=126.6

Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHH
Q 048142           33 LLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVL  112 (352)
Q Consensus        33 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  112 (352)
                      ...+...|+++.|.+.++.+.+...          .+...+..+...|.+.|++++|.+++..+.+.+..+.......-.
T Consensus       160 a~l~l~~~~~~~Al~~l~~l~~~~P----------~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~  229 (409)
T TIGR00540       160 TRILLAQNELHAARHGVDKLLEMAP----------RHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQ  229 (409)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            3333444555555555555444432          233345555555666666666666666665554332221111111


Q ss_pred             HHH---hccCCHHHHHHHHHHhhHhc--CCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHH---HHHHHHHH
Q 048142          113 VAC---SHAGLVDERISHFNLMSEKY--GIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMALDHFV---LGGLLGAC  183 (352)
Q Consensus       113 ~~~---~~~g~~~~a~~~~~~m~~~~--g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~---~~~li~~~  183 (352)
                      .++   ...+..+++...+..+.+..  ....++..+..+...+...|+.++|.+++++. ...||...   ........
T Consensus       230 ~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~  309 (409)
T TIGR00540       230 KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPR  309 (409)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhh
Confidence            111   11111122222333333210  01126667777777888888888888888887 44455432   12222233


Q ss_pred             HhcCCHHHHHHHHHHHHHhCCCCc--chHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCc
Q 048142          184 RIHDNLEAAERAAQQLLELLPDNG--GSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGF  261 (352)
Q Consensus       184 ~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~  261 (352)
                      ...++.+.+.+.++...+..|.|+  ....++...+.+.|++++|.+.|+........|++..+.    .+...+.+.|.
T Consensus       310 l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~----~La~ll~~~g~  385 (409)
T TIGR00540       310 LKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLA----MAADAFDQAGD  385 (409)
T ss_pred             cCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHH----HHHHHHHHcCC
Confidence            445778888888888888888888  777788888999999999999998655544556644322    34555667888


Q ss_pred             ccCchhhhh
Q 048142          262 VPNKSEVLF  270 (352)
Q Consensus       262 ~~~~~~~~~  270 (352)
                      .++|.+++.
T Consensus       386 ~~~A~~~~~  394 (409)
T TIGR00540       386 KAEAAAMRQ  394 (409)
T ss_pred             HHHHHHHHH
Confidence            777777765

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.37  E-value=2.2e-10  Score=99.56  Aligned_cols=227  Identities=12%  Similarity=0.110  Sum_probs=167.7

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH--hccCChHHH-HHHHHHHHHcCCCCCcc-----c----cccC-Cc
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLAC--THLGALEVG-MWLHPYIMKKNIEVDVG-----L----GMAL-KD   69 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~--~~~g~~~~a-~~~~~~m~~~g~~~~~~-----~----~~~l-~~   69 (352)
                      .+|.+.++.-+|+.|+..|+..+...-..|+..-  ....++--+ ++-|-.|.+.|-.....     +    ...+ .+
T Consensus       127 S~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAdL~~E~~PKT  206 (625)
T KOG4422|consen  127 SSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVADLLFETLPKT  206 (625)
T ss_pred             hhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHHHHHhhcCCC
Confidence            3567788888999999988877766655555432  233332222 23344444443221110     0    0000 56


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      ..+|..||.++|+--..+.|.+++++-.....+.+..+||.+|.+-+-    .....+..+|... .+.||..|+|++++
T Consensus       207 ~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisq-km~Pnl~TfNalL~  281 (625)
T KOG4422|consen  207 DETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQ-KMTPNLFTFNALLS  281 (625)
T ss_pred             chhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHh-hcCCchHhHHHHHH
Confidence            789999999999999999999999999998899999999999987543    3347889999996 99999999999999


Q ss_pred             HHHHcCCHHHHHH----HHHhC---CCCCcHHHHHHHHHHHHhcCCHH-HHHHHHHHHHH---h------CCCCcchHHH
Q 048142          150 ILGRAGRIAKAEE----LIKNM---PMALDHFVLGGLLGACRIHDNLE-AAERAAQQLLE---L------LPDNGGSYVI  212 (352)
Q Consensus       150 ~~~~~g~~~~A~~----~~~~m---~~~p~~~~~~~li~~~~~~g~~~-~a~~~~~~~~~---~------~~~~~~~~~~  212 (352)
                      +.++.|+++.|..    ++.+|   |++|+..+|..+|.-+++.++.. .+......+..   +      .|.+...|..
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~  361 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQS  361 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHH
Confidence            9999999887544    44444   99999999999999999888864 35555555432   1      4556677888


Q ss_pred             HHHHHhhcCChHHHHHHHHHHH
Q 048142          213 LSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       213 li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      .++.|.+..+.+-|.++..-+.
T Consensus       362 AM~Ic~~l~d~~LA~~v~~ll~  383 (625)
T KOG4422|consen  362 AMSICSSLRDLELAYQVHGLLK  383 (625)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHH
Confidence            9999999999999999887765

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.34  E-value=8.6e-10  Score=92.65  Aligned_cols=188  Identities=18%  Similarity=0.090  Sum_probs=153.2

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|.+.|++..... +.+...+..+...+...|++++|.+.+++..+...          .+...+..+...+.
T Consensus        42 ~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~----------~~~~~~~~~~~~~~  110 (234)
T TIGR02521        42 LEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP----------NNGDVLNNYGTFLC  110 (234)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC----------CCHHHHHHHHHHHH
Confidence            46799999999999998753 33577888889999999999999999999988653          44567888999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  160 (352)
                      ..|++++|.+.|++.......| ....+..+...+...|++++|...+.+..+.  .+.+...+..+...+...|++++|
T Consensus       111 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       111 QQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQI--DPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCChHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999998753222 3456777888899999999999999998864  223567788899999999999999


Q ss_pred             HHHHHhC-CC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 048142          161 EELIKNM-PM-ALDHFVLGGLLGACRIHDNLEAAERAAQQLLEL  202 (352)
Q Consensus       161 ~~~~~~m-~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  202 (352)
                      ...+++. .. ..+...+..+...+...|+.+.|..+.+.+...
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999986 22 234666777788888999999999998887654

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

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

Probab=99.29  E-value=1.3e-10  Score=108.96  Aligned_cols=227  Identities=15%  Similarity=0.117  Sum_probs=117.9

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccC---------------CcHHHHHHH
Q 048142           12 LLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL---------------KDVMTLTAL   76 (352)
Q Consensus        12 ~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l---------------~~~~~~~~l   76 (352)
                      .++..|...|+.|+.+||.++|..||..|+.+.|- +|..|.-........+++++               |...+|++|
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~L   89 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNL   89 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHH
Confidence            45677889999999999999999999999999998 99988876665444333333               555666666


Q ss_pred             HHHHHhcCChHHHHHHHHH-HH-------HcCCCCCHhHHHHHHHHH--------------hccCCHHHHHHHHHHhhHh
Q 048142           77 IVVLAMCGQGNKALEYFYE-MQ-------IRGVKPDAITFVGVLVAC--------------SHAGLVDERISHFNLMSEK  134 (352)
Q Consensus        77 i~~~~~~g~~~~A~~~~~~-m~-------~~g~~p~~~t~~~ll~~~--------------~~~g~~~~a~~~~~~m~~~  134 (352)
                      ..+|...||..- ++..++ |.       ..|+..-..-|-..+.++              ...|.++.+.+++..+...
T Consensus        90 l~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvs  168 (1088)
T KOG4318|consen   90 LKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVS  168 (1088)
T ss_pred             HHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcc
Confidence            666666666543 222222 11       112111111111111111              1112222222222222111


Q ss_pred             cCCCCChhHHHHHHHHHHH-cCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-hCCCCcchHHH
Q 048142          135 YGIRPSIEHYGCLVYILGR-AGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLE-LLPDNGGSYVI  212 (352)
Q Consensus       135 ~g~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~  212 (352)
                      ....|..+    .++-... ...+++-..+-+.....|+..+|..++..-..+|+.+.|..++.+|++ +.|-+...|-.
T Consensus       169 a~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwp  244 (1088)
T KOG4318|consen  169 AWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWP  244 (1088)
T ss_pred             cccchHHH----HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchh
Confidence            00001100    0111111 122333333333332246666666666666666666666666666654 45555554555


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEE
Q 048142          213 LSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILI  247 (352)
Q Consensus       213 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  247 (352)
                      |+-+   .++..-+..+++-|.+.|+.|+..|+..
T Consensus       245 Ll~g---~~~~q~~e~vlrgmqe~gv~p~seT~ad  276 (1088)
T KOG4318|consen  245 LLLG---INAAQVFEFVLRGMQEKGVQPGSETQAD  276 (1088)
T ss_pred             hhhc---CccchHHHHHHHHHHHhcCCCCcchhHH
Confidence            5444   5666666666666666666666555543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.29  E-value=5.5e-10  Score=102.46  Aligned_cols=229  Identities=19%  Similarity=0.167  Sum_probs=173.4

Q ss_pred             CccCCChhHHHHHHHHHHHC-----C-CCCCHHH-HHHHHHHHhccCChHHHHHHHHHHHHc---CCCCCccccccCCcH
Q 048142            1 YVEDSACEEALLLFREVQHK-----G-LTGDKVT-MVSLLLACTHLGALEVGMWLHPYIMKK---NIEVDVGLGMALKDV   70 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~-----g-~~p~~~t-~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~~~~~~~~~l~~~   70 (352)
                      |...|+++.|..+|++....     | ..|...+ .+.+...|...+++++|..+|+++...   ...++..     .-.
T Consensus       209 y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~-----~va  283 (508)
T KOG1840|consen  209 YAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP-----AVA  283 (508)
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH-----HHH
Confidence            56789999999999988764     2 1344333 344777889999999999999998753   1111110     234


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHH-----cCC-CCCHh-HHHHHHHHHhccCCHHHHHHHHHHhhHhcC--CCCC-
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQI-----RGV-KPDAI-TFVGVLVACSHAGLVDERISHFNLMSEKYG--IRPS-  140 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~-~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g--~~p~-  140 (352)
                      .+++.|-.+|.+.|++++|...+++..+     .|. .|... -++.+...|+..+++++|..+++...+.+.  ..++ 
T Consensus       284 ~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~  363 (508)
T KOG1840|consen  284 ATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDN  363 (508)
T ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccc
Confidence            5688899999999999999988887653     122 23333 367788889999999999999988776543  2222 


Q ss_pred             ---hhHHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----
Q 048142          141 ---IEHYGCLVYILGRAGRIAKAEELIKNM---------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLEL-----  202 (352)
Q Consensus       141 ---~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----  202 (352)
                         ..+++.|-..|-..|++++|.+++++.         +..+. ....+.|...|.+.+.+.+|.++|.+....     
T Consensus       364 ~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g  443 (508)
T KOG1840|consen  364 VNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCG  443 (508)
T ss_pred             hHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhC
Confidence               467899999999999999999999887         22233 456788888999999999999999986542     


Q ss_pred             --CCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          203 --LPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       203 --~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                        .|....+|..|...|...|++++|.++.+...
T Consensus       444 ~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  444 PDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             CCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              34445788999999999999999999988775

>PRK12370 invasion protein regulator; Provisional

Probab=99.29  E-value=1.5e-09  Score=103.32  Aligned_cols=212  Identities=12%  Similarity=0.012  Sum_probs=159.7

Q ss_pred             CChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHh---------ccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHH
Q 048142            5 SACEEALLLFREVQHKGLTGD-KVTMVSLLLACT---------HLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLT   74 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~g~~p~-~~t~~~li~~~~---------~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~   74 (352)
                      +..++|+++|++....  .|+ ...|..+..++.         ..+++++|...+++..+.+.          .+...|.
T Consensus       275 ~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP----------~~~~a~~  342 (553)
T PRK12370        275 YSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDH----------NNPQALG  342 (553)
T ss_pred             HHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCC----------CCHHHHH
Confidence            3467899999988874  564 455555554443         23457899999999988654          4667888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCCh-hHHHHHHHHHH
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSI-EHYGCLVYILG  152 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~-~~~~~li~~~~  152 (352)
                      .+...+...|++++|...|++..+.  .|+ ...+..+...+...|++++|...+++..+   +.|+. ..+..+...+.
T Consensus       343 ~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~~~~~~~~  417 (553)
T PRK12370        343 LLGLINTIHSEYIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGITKLWITY  417 (553)
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHH
Confidence            8888899999999999999999885  454 56788888899999999999999999875   35543 33344455567


Q ss_pred             HcCCHHHHHHHHHhC--CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHH
Q 048142          153 RAGRIAKAEELIKNM--PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRI  229 (352)
Q Consensus       153 ~~g~~~~A~~~~~~m--~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  229 (352)
                      ..|++++|...+++.  ...|+ +..+..+...+...|+.++|...++++....|.+....+.+...|...|  +.|...
T Consensus       418 ~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~  495 (553)
T PRK12370        418 YHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPT  495 (553)
T ss_pred             hccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHH
Confidence            789999999999886  22354 4456677778889999999999999887766666666777777788888  477777


Q ss_pred             HHHHHh
Q 048142          230 RELMAE  235 (352)
Q Consensus       230 ~~~m~~  235 (352)
                      ++.+.+
T Consensus       496 l~~ll~  501 (553)
T PRK12370        496 IREFLE  501 (553)
T ss_pred             HHHHHH
Confidence            777654

>PRK12370 invasion protein regulator; Provisional

Probab=99.27  E-value=3.4e-09  Score=101.00  Aligned_cols=214  Identities=16%  Similarity=0.008  Sum_probs=158.5

Q ss_pred             CCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            4 DSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      .+++++|...+++....  .| +...+..+...+...|++++|...+++..+.+.          .+...|..+...+..
T Consensus       317 ~~~~~~A~~~~~~Al~l--dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P----------~~~~a~~~lg~~l~~  384 (553)
T PRK12370        317 QNAMIKAKEHAIKATEL--DHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSP----------ISADIKYYYGWNLFM  384 (553)
T ss_pred             chHHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHH
Confidence            45689999999999875  45 677888888888999999999999999998763          345678889999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCH-hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDA-ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A  160 (352)
                      .|++++|+..+++..+.  .|+. ..+..++..+...|++++|...+++..+.  ..| ++..+..+..+|...|++++|
T Consensus       385 ~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA  460 (553)
T PRK12370        385 AGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELA  460 (553)
T ss_pred             CCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHH
Confidence            99999999999999885  4543 23334454566789999999999998764  234 455677788889999999999


Q ss_pred             HHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          161 EELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELL--PDNGGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       161 ~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      ...+.++ +..|+ ...++.+...+...|  +.|...++.+.+..  .+....+  +-..|+-.|+-+.+..+ +++.+.
T Consensus       461 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        461 RKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             HHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            9999987 44455 344555556677777  58888888876532  1221222  44455666777777666 777765


Q ss_pred             CC
Q 048142          237 NI  238 (352)
Q Consensus       237 g~  238 (352)
                      |.
T Consensus       536 ~~  537 (553)
T PRK12370        536 DN  537 (553)
T ss_pred             ch
Confidence            43

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

Probab=99.26  E-value=3e-10  Score=103.70  Aligned_cols=200  Identities=13%  Similarity=0.033  Sum_probs=166.0

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      .+.||-++-+.|+-+++.+.|++.|+...+.+.          ....+|+.+..-+.....+|.|...|+....  +.|.
T Consensus       420 sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp----------~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~r  487 (638)
T KOG1126|consen  420 SPESWCALGNCFSLQKDHDTAIKCFKRAIQLDP----------RFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDPR  487 (638)
T ss_pred             CcHHHHHhcchhhhhhHHHHHHHHHHHhhccCC----------ccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCch
Confidence            578899999999999999999999999987553          4778999999999999999999999998765  3333


Q ss_pred             -HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHH
Q 048142          105 -AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLL  180 (352)
Q Consensus       105 -~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li  180 (352)
                       ..+|-.|...|.+.++++.|.-.|+...   .+.| +.+..-.+...+-+.|+.|+|++++++. ...| |+..---..
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence             3345567788999999999999999887   5677 5666667778889999999999999997 2232 344434455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCC
Q 048142          181 GACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       181 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      ..+...++.++|.+.++++++..|.+...|..+...|-+.|+.+.|+.-|.-+.+..-+
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            66778899999999999999999999999999999999999999999998887665443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.25  E-value=3e-09  Score=105.13  Aligned_cols=250  Identities=14%  Similarity=0.062  Sum_probs=182.6

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      ..|+.++|++++.+..... +.+...+..+..++...|++++|.+++++..+...          .+...+..+...+..
T Consensus        27 ~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P----------~~~~a~~~la~~l~~   95 (765)
T PRK10049         27 WAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEP----------QNDDYQRGLILTLAD   95 (765)
T ss_pred             HcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHH
Confidence            4689999999999998632 44566789999999999999999999999988643          445667888999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      .|++++|+..+++..+. .+.+.. +..+..++...|+.++|...++++.+.   .| +...+..+..++.+.|..++|+
T Consensus        96 ~g~~~eA~~~l~~~l~~-~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~---~P~~~~~~~~la~~l~~~~~~e~Al  170 (765)
T PRK10049         96 AGQYDEALVKAKQLVSG-APDKAN-LLALAYVYKRAGRHWDELRAMTQALPR---APQTQQYPTEYVQALRNNRLSAPAL  170 (765)
T ss_pred             CCCHHHHHHHHHHHHHh-CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCChHHHH
Confidence            99999999999999886 333455 888888999999999999999999864   55 5666677888899999999999


Q ss_pred             HHHHhCCCCCcHH------HHHHHHHHHH-----hcCCH---HHHHHHHHHHHHhCCCCcch---HH----HHHHHHhhc
Q 048142          162 ELIKNMPMALDHF------VLGGLLGACR-----IHDNL---EAAERAAQQLLELLPDNGGS---YV----ILSNRYSSS  220 (352)
Q Consensus       162 ~~~~~m~~~p~~~------~~~~li~~~~-----~~g~~---~~a~~~~~~~~~~~~~~~~~---~~----~li~~~~~~  220 (352)
                      ..++.....|+..      ....++....     ..+++   ++|+..++.+.+..+.++..   +.    ..+.++...
T Consensus       171 ~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~  250 (765)
T PRK10049        171 GAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLAR  250 (765)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHh
Confidence            9999886555421      1122222222     12223   77888888887654333322   21    113345677


Q ss_pred             CChHHHHHHHHHHHhcCCC-CCCceeEEEEcceeehhhhcCcccCchhhhhcCC
Q 048142          221 RKWKKVKRIRELMAERNIK-KPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMD  273 (352)
Q Consensus       221 g~~~~a~~~~~~m~~~g~~-p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~  273 (352)
                      |++++|...|+.+.+.+.. |+..-.+     +...+...|..+.|...+..+.
T Consensus       251 g~~~eA~~~~~~ll~~~~~~P~~a~~~-----la~~yl~~g~~e~A~~~l~~~l  299 (765)
T PRK10049        251 DRYKDVISEYQRLKAEGQIIPPWAQRW-----VASAYLKLHQPEKAQSILTELF  299 (765)
T ss_pred             hhHHHHHHHHHHhhccCCCCCHHHHHH-----HHHHHHhcCCcHHHHHHHHHHh
Confidence            9999999999999887632 3211111     2335778899999998887654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.21  E-value=9.9e-09  Score=101.53  Aligned_cols=219  Identities=11%  Similarity=0.004  Sum_probs=166.8

Q ss_pred             hHHHHHHHHHHHC-CCCCCHH-HHH----HHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCc-HHHHHHHHHHH
Q 048142            8 EEALLLFREVQHK-GLTGDKV-TMV----SLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKD-VMTLTALIVVL   80 (352)
Q Consensus         8 ~~A~~~~~~m~~~-g~~p~~~-t~~----~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~-~~~~~~li~~~   80 (352)
                      ++|++.++.+... ...|+.. .+.    ..+.++...|++++|+..|+.+.+.+..  .      |+ ...|  +...|
T Consensus       213 d~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~--~------P~~a~~~--la~~y  282 (765)
T PRK10049        213 DRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQI--I------PPWAQRW--VASAY  282 (765)
T ss_pred             HHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCC--C------CHHHHHH--HHHHH
Confidence            7788899988854 2233321 111    1134456779999999999999887531  1      32 2333  46789


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC---CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcC----------CCCC---hhHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKP---DAITFVGVLVACSHAGLVDERISHFNLMSEKYG----------IRPS---IEHY  144 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g----------~~p~---~~~~  144 (352)
                      ...|++++|+..|+++....-..   .......+..++...|++++|..+++.+.....          -.|+   ...+
T Consensus       283 l~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~  362 (765)
T PRK10049        283 LKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQ  362 (765)
T ss_pred             HhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHH
Confidence            99999999999999987642111   123466677788999999999999999986410          1122   2345


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCC
Q 048142          145 GCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRK  222 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  222 (352)
                      ..+...+...|++++|+++++++ ...| +...+..+...+...|++++|++.+++..+..|.+...+..+...+.+.|+
T Consensus       363 ~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~  442 (765)
T PRK10049        363 SLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQE  442 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCC
Confidence            66778899999999999999997 3344 477888899999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHhc
Q 048142          223 WKKVKRIRELMAER  236 (352)
Q Consensus       223 ~~~a~~~~~~m~~~  236 (352)
                      +++|.++++++.+.
T Consensus       443 ~~~A~~~~~~ll~~  456 (765)
T PRK10049        443 WRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999999864

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

Probab=99.20  E-value=4.8e-09  Score=92.19  Aligned_cols=159  Identities=14%  Similarity=0.095  Sum_probs=137.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVY  149 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~  149 (352)
                      |...+.+-|+-.++.++|...|++..+.  .|. ...|+.+-.-|...++...|.+-++...+   +.| |-..|-.|.+
T Consensus       332 TCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd---i~p~DyRAWYGLGQ  406 (559)
T KOG1155|consen  332 TCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD---INPRDYRAWYGLGQ  406 (559)
T ss_pred             ceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHHHHHHHHh---cCchhHHHHhhhhH
Confidence            5566677788888999999999998874  444 56788999999999999999999999874   455 8889999999


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHH
Q 048142          150 ILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVK  227 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  227 (352)
                      +|.-.+...=|+-+|++. ..+| |...|.+|-.+|.+.++.++|++.|+........+...+..|.+.|-+.++.++|.
T Consensus       407 aYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa  486 (559)
T KOG1155|consen  407 AYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAA  486 (559)
T ss_pred             HHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHH
Confidence            999999999999999987 5566 58999999999999999999999999988866667789999999999999999999


Q ss_pred             HHHHHHHh
Q 048142          228 RIRELMAE  235 (352)
Q Consensus       228 ~~~~~m~~  235 (352)
                      +.|.+-.+
T Consensus       487 ~~yek~v~  494 (559)
T KOG1155|consen  487 QYYEKYVE  494 (559)
T ss_pred             HHHHHHHH
Confidence            99887654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.19  E-value=8.7e-09  Score=94.14  Aligned_cols=219  Identities=10%  Similarity=0.004  Sum_probs=169.5

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcH-----HHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDV-----MTLTAL   76 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~-----~~~~~l   76 (352)
                      .+.|++++|++.++++.... +-+......+...+.+.|++++|.+++..+.+.+..++       ...     ..|..+
T Consensus       164 l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~-------~~~~~l~~~a~~~l  235 (398)
T PRK10747        164 LARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDE-------EHRAMLEQQAWIGL  235 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCH-------HHHHHHHHHHHHHH
Confidence            35799999999999998864 23677888899999999999999999999999875421       111     244455


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCC
Q 048142           77 IVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGR  156 (352)
Q Consensus        77 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~  156 (352)
                      +.......+.+...++++.+.+. .+.+......+...+...|+.++|..++++..+.   .|+...  .++.+....++
T Consensus       236 ~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l--~~l~~~l~~~~  309 (398)
T PRK10747        236 MDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERL--VLLIPRLKTNN  309 (398)
T ss_pred             HHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHH--HHHHhhccCCC
Confidence            55555556667777777776543 4557778889999999999999999999888753   455522  23344445699


Q ss_pred             HHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          157 IAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       157 ~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      .+++.+..++. ...|+ +..+..+...+...+++++|.+.|+...+..| +..+|..+...+.+.|+.++|.+++++-.
T Consensus       310 ~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P-~~~~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        310 PEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRP-DAYDYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             hHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999887 44565 55677788899999999999999999988765 45678899999999999999999999764


Q ss_pred             h
Q 048142          235 E  235 (352)
Q Consensus       235 ~  235 (352)
                      .
T Consensus       389 ~  389 (398)
T PRK10747        389 M  389 (398)
T ss_pred             h
Confidence            3

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

Probab=99.19  E-value=8.7e-09  Score=90.42  Aligned_cols=206  Identities=11%  Similarity=0.076  Sum_probs=166.3

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      .+|++++|.+.+++.....-.-....||+=+ .+-..|++++|++.|-++...-.          .++...-.+.+.|-.
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~il~----------nn~evl~qianiye~  570 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAILL----------NNAEVLVQIANIYEL  570 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHHHH----------hhHHHHHHHHHHHHH
Confidence            4799999999999998764333334445433 34778999999999877654322          455667778888999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      ..+...|++++.+.... ++.|+...+-|...|-+.|+-.+|++.+-+--+  =++.+..+...|...|....-+++|..
T Consensus       571 led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~  647 (840)
T KOG2003|consen  571 LEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAIN  647 (840)
T ss_pred             hhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHH
Confidence            99999999999766553 555678889999999999999999988766532  234478888888889999999999999


Q ss_pred             HHHhC-CCCCcHHHHHHHHHHH-HhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCC
Q 048142          163 LIKNM-PMALDHFVLGGLLGAC-RIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRK  222 (352)
Q Consensus       163 ~~~~m-~~~p~~~~~~~li~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  222 (352)
                      +|++. -++|+..-|..||.+| .+.|++.+|.++++......|.|......|++.+...|-
T Consensus       648 y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  648 YFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            99998 5789999999999766 568999999999999999999999999999998887774

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.16  E-value=1.8e-08  Score=88.27  Aligned_cols=216  Identities=13%  Similarity=0.089  Sum_probs=157.1

Q ss_pred             CCChhHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKG-LTGD--KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g-~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      .+..+.++.-+.++.... ..|+  ...|..+-..+.+.|+.++|...|.+..+...          .+...|+.+...|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P----------~~~~a~~~lg~~~  108 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP----------DMADAYNYLGIYL  108 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC----------CCHHHHHHHHHHH
Confidence            355677888888887532 2232  35577788888999999999999999988653          4667899999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~  159 (352)
                      ...|++++|.+.|++..+  +.|+ ..+|..+..++...|++++|.+.|+...+.   .|+..........+...++.++
T Consensus       109 ~~~g~~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~  183 (296)
T PRK11189        109 TQAGNFDAAYEAFDSVLE--LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQ  183 (296)
T ss_pred             HHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHH
Confidence            999999999999999987  4554 567888888899999999999999998864   5543222222333456788999


Q ss_pred             HHHHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-------hCCCCcchHHHHHHHHhhcCChHHHHHHH
Q 048142          160 AEELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLE-------LLPDNGGSYVILSNRYSSSRKWKKVKRIR  230 (352)
Q Consensus       160 A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-------~~~~~~~~~~~li~~~~~~g~~~~a~~~~  230 (352)
                      |...|++.  ...|+...| .+.  ....|+...+ +.++.+.+       ..|.....|..+...+.+.|++++|...|
T Consensus       184 A~~~l~~~~~~~~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~  259 (296)
T PRK11189        184 AKENLKQRYEKLDKEQWGW-NIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALF  259 (296)
T ss_pred             HHHHHHHHHhhCCccccHH-HHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999764  223333222 222  2334555443 34455443       23344568999999999999999999999


Q ss_pred             HHHHhcCC
Q 048142          231 ELMAERNI  238 (352)
Q Consensus       231 ~~m~~~g~  238 (352)
                      ++..+.++
T Consensus       260 ~~Al~~~~  267 (296)
T PRK11189        260 KLALANNV  267 (296)
T ss_pred             HHHHHhCC
Confidence            99987664

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.16  E-value=3.7e-09  Score=97.06  Aligned_cols=243  Identities=15%  Similarity=0.128  Sum_probs=182.0

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHc---CCCCCccccccCCcHHHH-HHHHHHHHhcCChHHHHHHHHHHHHc--
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKK---NIEVDVGLGMALKDVMTL-TALIVVLAMCGQGNKALEYFYEMQIR--   99 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~~~~~~~~~l~~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~--   99 (352)
                      ..+...|...|...|+++.|..++.+..+.   +...+.      |.+.+- +.+...|...+++++|..+|+++..-  
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~h------l~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e  272 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKH------LVVASMLNILALVYRSLGKYDEAVNLYEEALTIRE  272 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccC------HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHH
Confidence            456677999999999999999999987764   111111      555443 44778899999999999999998642  


Q ss_pred             ---C-CCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhc----CCCC-Ch-hHHHHHHHHHHHcCCHHHHHHHHHhC-
Q 048142          100 ---G-VKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKY----GIRP-SI-EHYGCLVYILGRAGRIAKAEELIKNM-  167 (352)
Q Consensus       100 ---g-~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~----g~~p-~~-~~~~~li~~~~~~g~~~~A~~~~~~m-  167 (352)
                         | ..|. ..+++.|-.+|.+.|++++|...+++..+-+    |..+ .+ ..++.+...++..+++++|..+++.. 
T Consensus       273 ~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al  352 (508)
T KOG1840|consen  273 EVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKAL  352 (508)
T ss_pred             HhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence               2 2222 4567888889999999999988887765432    2222 22 33566777788899999999998765 


Q ss_pred             --------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--------CCCCcchHHHHHHHHhhcCChHHHHHHH
Q 048142          168 --------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLEL--------LPDNGGSYVILSNRYSSSRKWKKVKRIR  230 (352)
Q Consensus       168 --------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~~~~li~~~~~~g~~~~a~~~~  230 (352)
                              ...|. ..+++.|-..|...|++++|++++++....        .+.....++.|...|.+.++.++|.++|
T Consensus       353 ~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~  432 (508)
T KOG1840|consen  353 KIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLF  432 (508)
T ss_pred             HHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHH
Confidence                    12222 568999999999999999999999997542        1223456788889999999999999999


Q ss_pred             HHHHh--cCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCH
Q 048142          231 ELMAE--RNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       231 ~~m~~--~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                      .+-..  .-+.|+..+...++.++...|...|+.++|.++...+..
T Consensus       433 ~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  433 EEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            87643  334466555666778899999999999999999887653

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

Probab=99.11  E-value=5e-08  Score=82.23  Aligned_cols=229  Identities=14%  Similarity=0.080  Sum_probs=168.7

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      +.++++|.++|-+|.+.. +-+..+-.+|-+.|-+.|..+.|++++..+.++.-.+..      --...--.|..-|...
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~------qr~lAl~qL~~Dym~a  120 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFE------QRLLALQQLGRDYMAA  120 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchH------HHHHHHHHHHHHHHHh
Confidence            568899999999999842 224455567889999999999999999998874211000      1123345667778899


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC----hhHHHHHHHHHHHcCCHHH
Q 048142           84 GQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS----IEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        84 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~~~  159 (352)
                      |-++.|..+|..+.+.|.. -......|+..|-...++++|+++-+++.+- +-.+.    ...|--|...+....+++.
T Consensus       121 Gl~DRAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~-~~q~~~~eIAqfyCELAq~~~~~~~~d~  198 (389)
T COG2956         121 GLLDRAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKL-GGQTYRVEIAQFYCELAQQALASSDVDR  198 (389)
T ss_pred             hhhhHHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHc-CCccchhHHHHHHHHHHHHHhhhhhHHH
Confidence            9999999999999875422 3445678999999999999999999988864 43332    1233344445556778999


Q ss_pred             HHHHHHhC-CCCCcHHHHH-HHHHHHHhcCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          160 AEELIKNM-PMALDHFVLG-GLLGACRIHDNLEAAERAAQQLLELLPD-NGGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       160 A~~~~~~m-~~~p~~~~~~-~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      |..++++. ...|..+=-+ .+-......|+++.|.+.++.+.+..|. -+.+-..|..+|...|+.++....+..+.+.
T Consensus       199 A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~  278 (389)
T COG2956         199 ARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET  278 (389)
T ss_pred             HHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            99999887 3344433333 3446788999999999999999887654 3356778899999999999999999998775


Q ss_pred             CCCCC
Q 048142          237 NIKKP  241 (352)
Q Consensus       237 g~~p~  241 (352)
                      ...++
T Consensus       279 ~~g~~  283 (389)
T COG2956         279 NTGAD  283 (389)
T ss_pred             cCCcc
Confidence            54443

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

Probab=99.10  E-value=9.2e-09  Score=86.74  Aligned_cols=220  Identities=10%  Similarity=-0.034  Sum_probs=182.1

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHH-HHHHHH
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTL-TALIVV   79 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~-~~li~~   79 (352)
                      |.+-|.+.+|...|+.-...  .|-..||..|-.+|.+..+...|+.++.+-.+.-           |-.+|| .-+...
T Consensus       233 ylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-----------P~~VT~l~g~ARi  299 (478)
T KOG1129|consen  233 YLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-----------PFDVTYLLGQARI  299 (478)
T ss_pred             HHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-----------CchhhhhhhhHHH
Confidence            34678899999999888775  6777888899999999999999999998876643           444555 345577


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHH
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~  159 (352)
                      +-..++.++|.++++...+. .+.+.....++...|.-.++++-|.++++++.+. |+. ++..|+.+.-+|.-.+++|-
T Consensus       300 ~eam~~~~~a~~lYk~vlk~-~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqm-G~~-speLf~NigLCC~yaqQ~D~  376 (478)
T KOG1129|consen  300 HEAMEQQEDALQLYKLVLKL-HPINVEAIACIAVGYFYDNNPEMALRYYRRILQM-GAQ-SPELFCNIGLCCLYAQQIDL  376 (478)
T ss_pred             HHHHHhHHHHHHHHHHHHhc-CCccceeeeeeeeccccCCChHHHHHHHHHHHHh-cCC-ChHHHhhHHHHHHhhcchhh
Confidence            77889999999999998875 3445666677777888889999999999999985 755 67788888888888999999


Q ss_pred             HHHHHHhC---CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          160 AEELIKNM---PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       160 A~~~~~~m---~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      ++.-|++.   -.+|+  ..+|-.+-......||...|.+.|+..+..++.+...+|.|.-.-.+.|++++|..++....
T Consensus       377 ~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  377 VLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             hHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            99998876   22344  56788888888899999999999999999999999999999999999999999999999876


Q ss_pred             hc
Q 048142          235 ER  236 (352)
Q Consensus       235 ~~  236 (352)
                      ..
T Consensus       457 s~  458 (478)
T KOG1129|consen  457 SV  458 (478)
T ss_pred             hh
Confidence            53

>TIGR00540 hemY_coli hemY protein

Probab=99.08  E-value=5e-08  Score=89.62  Aligned_cols=217  Identities=10%  Similarity=-0.043  Sum_probs=156.5

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHH----HHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLT----ALIV   78 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~----~li~   78 (352)
                      +.|+++.|++.++.+.+.. +-+...+..+...+.+.|++++|.+++..+.+.+..          +...+.    ....
T Consensus       165 ~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~----------~~~~~~~l~~~a~~  233 (409)
T TIGR00540       165 AQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF----------DDEEFADLEQKAEI  233 (409)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC----------CHHHHHHHHHHHHH
Confidence            4799999999999999864 226678889999999999999999999999998753          222221    1111


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCC---CCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHH-HHHHHHH--H
Q 048142           79 VLAMCGQGNKALEYFYEMQIRGV---KPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHY-GCLVYIL--G  152 (352)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~~g~---~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~-~~li~~~--~  152 (352)
                      ++...+..+++.+.+..+.....   +.+...+..+...+...|+.++|..++++..+.   .||.... ..++..+  .
T Consensus       234 ~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l  310 (409)
T TIGR00540       234 GLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRL  310 (409)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhc
Confidence            22333334444456666655421   137778888999999999999999999999875   4443311 0133333  3


Q ss_pred             HcCCHHHHHHHHHhC-CCCCcH---HHHHHHHHHHHhcCCHHHHHHHHHH--HHHhCCCCcchHHHHHHHHhhcCChHHH
Q 048142          153 RAGRIAKAEELIKNM-PMALDH---FVLGGLLGACRIHDNLEAAERAAQQ--LLELLPDNGGSYVILSNRYSSSRKWKKV  226 (352)
Q Consensus       153 ~~g~~~~A~~~~~~m-~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~--~~~~~~~~~~~~~~li~~~~~~g~~~~a  226 (352)
                      ..++.+.+.+.++.. ...|+.   ....++...+.+.|++++|.+.|+.  ..+. .|+...+..+...+.+.|+.++|
T Consensus       311 ~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~-~p~~~~~~~La~ll~~~g~~~~A  389 (409)
T TIGR00540       311 KPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKE-QLDANDLAMAADAFDQAGDKAEA  389 (409)
T ss_pred             CCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhc-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            357788888888776 334543   4566788889999999999999995  4334 45666788999999999999999


Q ss_pred             HHHHHHHH
Q 048142          227 KRIRELMA  234 (352)
Q Consensus       227 ~~~~~~m~  234 (352)
                      .+++++-.
T Consensus       390 ~~~~~~~l  397 (409)
T TIGR00540       390 AAMRQDSL  397 (409)
T ss_pred             HHHHHHHH
Confidence            99999753

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.

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

Probab=99.05  E-value=9.6e-08  Score=82.75  Aligned_cols=255  Identities=14%  Similarity=0.092  Sum_probs=146.3

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccC----------------
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL----------------   67 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l----------------   67 (352)
                      .|++..|+++..+-.+.+-.| ...|..-..+-.+.|+.+.+-..+.+.-+.--.++..+.-+.                
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            466777777666655554333 334555555556666666666666665553212111000000                


Q ss_pred             ---------CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-------hHHHHHHHHHhccCCHHHHHHHHHHh
Q 048142           68 ---------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA-------ITFVGVLVACSHAGLVDERISHFNLM  131 (352)
Q Consensus        68 ---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~t~~~ll~~~~~~g~~~~a~~~~~~m  131 (352)
                               .+...-.....+|.+.|++.+...++.+|.+.|.--|.       .+|..+++-....+..+.-...++..
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence                     33445556666666666666666666666666543332       34555555555555555545555555


Q ss_pred             hHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchH
Q 048142          132 SEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSY  210 (352)
Q Consensus       132 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  210 (352)
                      .++  ..-++..-.+++.-+.++|+.++|.++.++. +-.-|..  -...-.+.+-++.+.-++..++-.+..|.++..+
T Consensus       256 pr~--lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~--L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~  331 (400)
T COG3071         256 PRK--LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR--LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLL  331 (400)
T ss_pred             cHH--hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh--HHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHH
Confidence            442  3344555567777888888888888887765 2222333  1122345556666666666666666667777777


Q ss_pred             HHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhh
Q 048142          211 VILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVL  269 (352)
Q Consensus       211 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~  269 (352)
                      .+|...|.+.+.|.+|.+.|+...  ..+|+..++.    .+.+.|-+.|....+.++.
T Consensus       332 ~tLG~L~~k~~~w~kA~~~leaAl--~~~~s~~~~~----~la~~~~~~g~~~~A~~~r  384 (400)
T COG3071         332 STLGRLALKNKLWGKASEALEAAL--KLRPSASDYA----ELADALDQLGEPEEAEQVR  384 (400)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHH--hcCCChhhHH----HHHHHHHHcCChHHHHHHH
Confidence            788888888888888888887443  3445444333    2344466667666555554

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.02  E-value=1.6e-07  Score=82.34  Aligned_cols=193  Identities=11%  Similarity=-0.114  Sum_probs=139.2

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|+.++|...|++..+.. +.+...|+.+...+...|++++|.+.|+...+...          .+...|..+..++.
T Consensus        75 ~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P----------~~~~a~~~lg~~l~  143 (296)
T PRK11189         75 DSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDP----------TYNYAYLNRGIALY  143 (296)
T ss_pred             HHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHH
Confidence            45799999999999998853 23678999999999999999999999999988653          34568888999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH-
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA-  160 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A-  160 (352)
                      ..|++++|++.|++..+.  .|+..........+...++.++|...|.+...  ...|+...+ .+.  +...|+.+++ 
T Consensus       144 ~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~~~~~~~~~-~~~--~~~lg~~~~~~  216 (296)
T PRK11189        144 YGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--KLDKEQWGW-NIV--EFYLGKISEET  216 (296)
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--hCCccccHH-HHH--HHHccCCCHHH
Confidence            999999999999999874  45543222222334457789999999977654  334443222 222  2335555443 


Q ss_pred             -HHHHHhC-CCC----C-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHH
Q 048142          161 -EELIKNM-PMA----L-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVI  212 (352)
Q Consensus       161 -~~~~~~m-~~~----p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  212 (352)
                       ...+.+- ...    | ....|..+...+...|+.++|...|++..+..|++-.-+-.
T Consensus       217 ~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e~~~  275 (296)
T PRK11189        217 LMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVEHRY  275 (296)
T ss_pred             HHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHHHHH
Confidence             3222221 111    2 24578889999999999999999999999988877555443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.02  E-value=1.8e-07  Score=91.83  Aligned_cols=195  Identities=13%  Similarity=0.029  Sum_probs=153.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcC----CCCChhHHHHHHHH
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYG----IRPSIEHYGCLVYI  150 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g----~~p~~~~~~~li~~  150 (352)
                      -.+-++.+.+++.++++.|+.|...|.+....+-..+.++|...+.+++|..+++++....+    ..++......|.-+
T Consensus       297 Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA  376 (822)
T PRK14574        297 DRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYS  376 (822)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHH
Confidence            34567778899999999999999988765556888999999999999999999999876422    23345556789999


Q ss_pred             HHHcCCHHHHHHHHHhC----C------------CCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHH
Q 048142          151 LGRAGRIAKAEELIKNM----P------------MALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVIL  213 (352)
Q Consensus       151 ~~~~g~~~~A~~~~~~m----~------------~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  213 (352)
                      |...+++++|..+++++    |            -.|| ...+..++..+...|+.++|++.++++....|.|......+
T Consensus       377 ~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~  456 (822)
T PRK14574        377 LNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIAL  456 (822)
T ss_pred             HHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            99999999999999988    1            1233 23345566778899999999999999999999999999999


Q ss_pred             HHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCH
Q 048142          214 SNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       214 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                      .+.+...|...+|.+.++.....  .|+...   +-.+........|..+.|..+++.+.+
T Consensus       457 A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~~---~~~~~~~~al~l~e~~~A~~~~~~l~~  512 (822)
T PRK14574        457 ASIYLARDLPRKAEQELKAVESL--APRSLI---LERAQAETAMALQEWHQMELLTDDVIS  512 (822)
T ss_pred             HHHHHhcCCHHHHHHHHHHHhhh--CCccHH---HHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            99999999999999999766544  454211   112344556677888888887765543

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

Probab=98.94  E-value=1.5e-07  Score=83.59  Aligned_cols=215  Identities=15%  Similarity=0.074  Sum_probs=167.9

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      .|+.-.|.+-|+........++ ..|.-+..+|....+.++....|....+.+.  ..      ||  +|-.=...+.-.
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp--~n------~d--vYyHRgQm~flL  407 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDP--EN------PD--VYYHRGQMRFLL  407 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCC--CC------Cc--hhHhHHHHHHHH
Confidence            5788888888888887543332 2277777889999999999999999988553  22      44  455555555667


Q ss_pred             CChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHH
Q 048142           84 GQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        84 g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      +++++|..=|++.+.  +.| +...|..+--+.-+.++++++...|++.+++  ++.-+.+|+-....+...+++++|.+
T Consensus       408 ~q~e~A~aDF~Kai~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k  483 (606)
T KOG0547|consen  408 QQYEEAIADFQKAIS--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVK  483 (606)
T ss_pred             HHHHHHHHHHHHHhh--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHH
Confidence            789999999999887  444 4566777777777899999999999999985  55667889999999999999999999


Q ss_pred             HHHhC-CCCCc---------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHH
Q 048142          163 LIKNM-PMALD---------HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIREL  232 (352)
Q Consensus       163 ~~~~m-~~~p~---------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  232 (352)
                      .|+.. ...|+         +.+-..++-.-- .+++..|+.++++..+.+|.....|.+|...-.+.|+.++|.++|++
T Consensus       484 ~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEk  562 (606)
T KOG0547|consen  484 QYDKAIELEPREHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEK  562 (606)
T ss_pred             HHHHHHhhccccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            99876 33333         223333332222 38899999999999999999999999999999999999999999997


Q ss_pred             HH
Q 048142          233 MA  234 (352)
Q Consensus       233 m~  234 (352)
                      -.
T Consensus       563 sa  564 (606)
T KOG0547|consen  563 SA  564 (606)
T ss_pred             HH
Confidence            54

>PF12854 PPR_1: PPR repeat

Probab=98.92  E-value=1.7e-09  Score=60.99  Aligned_cols=32  Identities=34%  Similarity=0.559  Sum_probs=17.1

Q ss_pred             CCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142          136 GIRPSIEHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       136 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      |+.||..|||+||++||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            45555555555555555555555555555554

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

Probab=98.90  E-value=3.5e-07  Score=73.83  Aligned_cols=162  Identities=14%  Similarity=0.056  Sum_probs=142.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVY  149 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~  149 (352)
                      +..-|.-+|...|+...|..-+++..+.  .|+ ..+|..+...|.+.|..+.|.+-|++..+   +.| +..+.|....
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls---l~p~~GdVLNNYG~  111 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALS---LAPNNGDVLNNYGA  111 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh---cCCCccchhhhhhH
Confidence            4556778899999999999999999985  444 66899999999999999999999999874   466 5677888888


Q ss_pred             HHHHcCCHHHHHHHHHhC---CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHH
Q 048142          150 ILGRAGRIAKAEELIKNM---PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKK  225 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m---~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  225 (352)
                      .+|..|++++|...|++.   |.-|. ..+|.++.-+..+.|+.+.|...|++.++..|..+.+...+.....+.|++-.
T Consensus       112 FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         112 FLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             HHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchH
Confidence            999999999999999997   22222 56888888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCC
Q 048142          226 VKRIRELMAERNI  238 (352)
Q Consensus       226 a~~~~~~m~~~g~  238 (352)
                      |...++.....+.
T Consensus       192 Ar~~~~~~~~~~~  204 (250)
T COG3063         192 ARLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHHhccc
Confidence            9999999887766

>PF12854 PPR_1: PPR repeat

Probab=98.90  E-value=2.8e-09  Score=60.06  Aligned_cols=32  Identities=34%  Similarity=0.604  Sum_probs=24.2

Q ss_pred             CCCCCHhHHHHHHHHHhccCCHHHHHHHHHHh
Q 048142          100 GVKPDAITFVGVLVACSHAGLVDERISHFNLM  131 (352)
Q Consensus       100 g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  131 (352)
                      |+.||..||++||++||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            67777777777777777777777777777765

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

Probab=98.88  E-value=6.5e-07  Score=79.11  Aligned_cols=244  Identities=14%  Similarity=0.072  Sum_probs=176.0

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCC
Q 048142            6 ACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQ   85 (352)
Q Consensus         6 ~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~   85 (352)
                      ..++++.-.+.....|+.-+...-+....+.-...+++.|+.+|+++.+..+ -+.      .|..+|+..+-.-  +.+
T Consensus       242 q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDP-YRl------~dmdlySN~LYv~--~~~  312 (559)
T KOG1155|consen  242 QHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDP-YRL------DDMDLYSNVLYVK--NDK  312 (559)
T ss_pred             HHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCC-Ccc------hhHHHHhHHHHHH--hhh
Confidence            4556666666666667654444333344444667788999999999888632 122      5677787776433  322


Q ss_pred             hHHHHHHHHHHH--HcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHH
Q 048142           86 GNKALEYFYEMQ--IRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        86 ~~~A~~~~~~m~--~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      ..  +..+.+-.  -....|  .|...+.+.|+-.++.++|...|++..+   +.| ....|+.+..-|....+...|.+
T Consensus       313 sk--Ls~LA~~v~~idKyR~--ETCCiIaNYYSlr~eHEKAv~YFkRALk---LNp~~~~aWTLmGHEyvEmKNt~AAi~  385 (559)
T KOG1155|consen  313 SK--LSYLAQNVSNIDKYRP--ETCCIIANYYSLRSEHEKAVMYFKRALK---LNPKYLSAWTLMGHEYVEMKNTHAAIE  385 (559)
T ss_pred             HH--HHHHHHHHHHhccCCc--cceeeehhHHHHHHhHHHHHHHHHHHHh---cCcchhHHHHHhhHHHHHhcccHHHHH
Confidence            22  22222211  122333  4666778888889999999999999874   566 56788889999999999999999


Q ss_pred             HHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCC
Q 048142          163 LIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKK  240 (352)
Q Consensus       163 ~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  240 (352)
                      -++.. .+.| |-..|-.|-.+|...+...=|+-.|++..+..|.|+..|.+|...|.+.++.++|.+.|......|-.-
T Consensus       386 sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte  465 (559)
T KOG1155|consen  386 SYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTE  465 (559)
T ss_pred             HHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccc
Confidence            99987 4444 789999999999999999999999999999999999999999999999999999999999988776541


Q ss_pred             CCceeEEEEcceeehhhhcCcccCchhhhh
Q 048142          241 PPGCILIEVDGVVHEFVKAGFVPNKSEVLF  270 (352)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~  270 (352)
                      .     ..+..+.+.+-+.++..+|..++.
T Consensus       466 ~-----~~l~~LakLye~l~d~~eAa~~ye  490 (559)
T KOG1155|consen  466 G-----SALVRLAKLYEELKDLNEAAQYYE  490 (559)
T ss_pred             h-----HHHHHHHHHHHHHHhHHHHHHHHH
Confidence            1     111223344556666666666543

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

Probab=98.87  E-value=5.4e-07  Score=80.14  Aligned_cols=150  Identities=11%  Similarity=0.101  Sum_probs=124.1

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A  160 (352)
                      -.|+.-+|.+-|+..+...-.++. .|--+...|....+.++.+..|+...+   +.| ++.+|..-.+++.-.+++++|
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~---ldp~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAED---LDPENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHh---cCCCCCchhHhHHHHHHHHHHHHHH
Confidence            467888888888888875433332 266677788899999999999998874   555 677888888888888999999


Q ss_pred             HHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          161 EELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       161 ~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..=|++. .+.|. +..|--+.-+.-+.+.+++++..|++.++..|..+..|+.....+...+++++|.+.|+...+
T Consensus       414 ~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  414 IADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            9999987 55564 666766767777888999999999999999999999999999999999999999999998764

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.86  E-value=1.2e-06  Score=86.04  Aligned_cols=189  Identities=12%  Similarity=0.042  Sum_probs=147.3

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhH
Q 048142           28 TMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAIT  107 (352)
Q Consensus        28 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  107 (352)
                      .|...|. ..+.|+++.|+..|.+..+....         -....+ .++..+...|+.++|+..+++.... .......
T Consensus        37 ~y~~aii-~~r~Gd~~~Al~~L~qaL~~~P~---------~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~  104 (822)
T PRK14574         37 QYDSLII-RARAGDTAPVLDYLQEESKAGPL---------QSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRG  104 (822)
T ss_pred             HHHHHHH-HHhCCCHHHHHHHHHHHHhhCcc---------chhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHH
Confidence            3554443 47999999999999999886532         001233 8888899999999999999998721 1222333


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHHh
Q 048142          108 FVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMALDHFVLGGLLGACRI  185 (352)
Q Consensus       108 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~  185 (352)
                      ...+...+...|++++|.++|+++.+.   .| ++..+..++..|...++.++|++.++++ +..|+...+..++..+..
T Consensus       105 llalA~ly~~~gdyd~Aiely~kaL~~---dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~  181 (822)
T PRK14574        105 LASAARAYRNEKRWDQALALWQSSLKK---DPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRA  181 (822)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHh
Confidence            444466788889999999999999864   44 5677778889999999999999999998 566777777555555555


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHH
Q 048142          186 HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       186 ~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      .++..+|++.++++.+..|.+...+..+..+..+.|-...|.++..
T Consensus       182 ~~~~~~AL~~~ekll~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~  227 (822)
T PRK14574        182 TDRNYDALQASSEAVRLAPTSEEVLKNHLEILQRNRIVEPALRLAK  227 (822)
T ss_pred             cchHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            6677679999999999999999999999999999998888887665

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

Probab=98.84  E-value=3.1e-06  Score=68.45  Aligned_cols=197  Identities=11%  Similarity=0.018  Sum_probs=163.5

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-H
Q 048142           27 VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-A  105 (352)
Q Consensus        27 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~  105 (352)
                      .+..-|.-+|.+.|+...|..-+++.++...          .+..+|..+...|-+.|..+.|.+-|++....  .|+ .
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~DP----------s~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~G  103 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHDP----------SYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNG  103 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc----------ccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCcc
Confidence            3456677789999999999999999999764          45678999999999999999999999998874  444 5


Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHH
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGAC  183 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~  183 (352)
                      ...|.--.-+|..|++++|...|++........--..+|..+.-+-.+.|+.+.|...|++. ...|+ ..+.-.+....
T Consensus       104 dVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~  183 (250)
T COG3063         104 DVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLH  183 (250)
T ss_pred             chhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHH
Confidence            56777777889999999999999999876333334567888888888999999999999986 34444 56777888889


Q ss_pred             HhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          184 RIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       184 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ...|++-.|...++......+++..+.-..|..-...|+.+.+-+.=..+.+
T Consensus       184 ~~~~~y~~Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         184 YKAGDYAPARLYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HhcccchHHHHHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            9999999999999999887778888888888988999999988877666654

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

Probab=98.83  E-value=4e-06  Score=78.14  Aligned_cols=259  Identities=15%  Similarity=0.091  Sum_probs=174.3

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHH-HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVT-MVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      ...|++++|++.++.-...  .+|..+ .......+.+.|+.++|..++..+++.+.          .|..-|..+..+.
T Consensus        15 ~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNP----------dn~~Yy~~L~~~~   82 (517)
T PF12569_consen   15 EEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNP----------DNYDYYRGLEEAL   82 (517)
T ss_pred             HHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC----------CcHHHHHHHHHHH
Confidence            3679999999999775543  455544 45677788999999999999999999874          3444455555555


Q ss_pred             Hhc-----CChHHHHHHHHHHHHcCCC---C--------C--------------------HhHHHHHHHHHhccCCHHHH
Q 048142           81 AMC-----GQGNKALEYFYEMQIRGVK---P--------D--------------------AITFVGVLVACSHAGLVDER  124 (352)
Q Consensus        81 ~~~-----g~~~~A~~~~~~m~~~g~~---p--------~--------------------~~t~~~ll~~~~~~g~~~~a  124 (352)
                      .-.     .+.+...++|+++...--.   |        +                    +.+|+.|-..|....+.+-.
T Consensus        83 g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   83 GLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             hhhcccccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHH
Confidence            222     2456667777766543100   0        1                    12334444444444444444


Q ss_pred             HHHHHHhhHhc---C----------CCCCh--hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcC
Q 048142          125 ISHFNLMSEKY---G----------IRPSI--EHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHD  187 (352)
Q Consensus       125 ~~~~~~m~~~~---g----------~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g  187 (352)
                      ..++.......   +          -.|+.  .++.-+.+.|-..|++++|++++++. ...|+ +..|..-...+-..|
T Consensus       163 ~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G  242 (517)
T PF12569_consen  163 ESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAG  242 (517)
T ss_pred             HHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCC
Confidence            45555544321   1          12333  34456677888999999999999976 55676 677777888899999


Q ss_pred             CHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCc-----eeEEEEcceeehhhhcCcc
Q 048142          188 NLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPG-----CILIEVDGVVHEFVKAGFV  262 (352)
Q Consensus       188 ~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-----~~~~~~~~~~~~~~~~G~~  262 (352)
                      ++++|.+.++...+.++.|...=+.....+.++|++++|.+++....+.+..|...     +.|..+ ....++.+.|..
T Consensus       243 ~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~-e~a~a~~r~~~~  321 (517)
T PF12569_consen  243 DLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFET-ECAEAYLRQGDY  321 (517)
T ss_pred             CHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHH-HHHHHHHHHhhH
Confidence            99999999999999999898888888889999999999999999988777633210     011111 133445677877


Q ss_pred             cCchhhhhcCC
Q 048142          263 PNKSEVLFDMD  273 (352)
Q Consensus       263 ~~~~~~~~~~~  273 (352)
                      ..|...+..+.
T Consensus       322 ~~ALk~~~~v~  332 (517)
T PF12569_consen  322 GLALKRFHAVL  332 (517)
T ss_pred             HHHHHHHHHHH
Confidence            77777766554

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 [], [].

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

Probab=98.83  E-value=1.1e-06  Score=86.88  Aligned_cols=208  Identities=14%  Similarity=0.110  Sum_probs=173.0

Q ss_pred             CCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHc-CCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048142           23 TGD-KVTMVSLLLACTHLGALEVGMWLHPYIMKK-NIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRG  100 (352)
Q Consensus        23 ~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  100 (352)
                      .|| ...|-.-|.-..+.+++++|+++.++.+.. ++....      --.-.|.++++.-...|.-+...++|++..+. 
T Consensus      1454 sPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REee------EKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy- 1526 (1710)
T KOG1070|consen 1454 SPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEE------EKLNIWIAYLNLENAYGTEESLKKVFERACQY- 1526 (1710)
T ss_pred             CCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhH------HHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh-
Confidence            454 677888898889999999999999998763 222211      22347888888888888889999999999875 


Q ss_pred             CCCCH-hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---cHHH
Q 048142          101 VKPDA-ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL---DHFV  175 (352)
Q Consensus       101 ~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~~  175 (352)
                      +  |+ ..|..|...|.+.++.++|-++++.|.+++|  -....|...++.+.+..+-++|..++++. ..-|   .+..
T Consensus      1527 c--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~ 1602 (1710)
T KOG1070|consen 1527 C--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEF 1602 (1710)
T ss_pred             c--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHH
Confidence            2  43 4588999999999999999999999999866  56777999999999999999999999886 2223   3444


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCC
Q 048142          176 LGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKP  241 (352)
Q Consensus       176 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  241 (352)
                      ..-.+..-.+.|+.+++..+|+......|.-...|+..|++=.+.|+.+.+..+|++....++.|-
T Consensus      1603 IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1603 ISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             HHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence            455566678999999999999999999998889999999999999999999999999999999864

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

Probab=98.82  E-value=1.6e-06  Score=75.40  Aligned_cols=227  Identities=12%  Similarity=0.043  Sum_probs=165.1

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      ..|+...|..-..++...+. -+.........+|.+.|++.....+...|.+.|.-.+.....  -...+|+.++.-...
T Consensus       165 ~~~d~~aA~~~v~~ll~~~p-r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~--le~~a~~glL~q~~~  241 (400)
T COG3071         165 NRRDYPAARENVDQLLEMTP-RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAAR--LEQQAWEGLLQQARD  241 (400)
T ss_pred             hCCCchhHHHHHHHHHHhCc-CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHH--HHHHHHHHHHHHHhc
Confidence            46788888888888887642 356778889999999999999999999999998764321111  123467777776666


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      .+..+.-...+++.... .+-++..-.+++.-+...|+.++|.++..+..+. +..|....+    -...+-++.+.-.+
T Consensus       242 ~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~L~~~----~~~l~~~d~~~l~k  315 (400)
T COG3071         242 DNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPRLCRL----IPRLRPGDPEPLIK  315 (400)
T ss_pred             cccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChhHHHH----HhhcCCCCchHHHH
Confidence            66666656677666544 4555666678888899999999999999998886 767662221    12233444444333


Q ss_pred             HHH----hCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          163 LIK----NMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       163 ~~~----~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      ..+    ..|..|  -.+.+|-..|.+++.+.+|...|+...+. .|+..+|+.+.++|.+.|+.++|.+++++-...-.
T Consensus       316 ~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~-~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~  392 (400)
T COG3071         316 AAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKL-RPSASDYAELADALDQLGEPEEAEQVRREALLLTR  392 (400)
T ss_pred             HHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhc-CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhc
Confidence            333    335444  67788999999999999999999976654 45678999999999999999999999998764444


Q ss_pred             CCC
Q 048142          239 KKP  241 (352)
Q Consensus       239 ~p~  241 (352)
                      +|+
T Consensus       393 ~~~  395 (400)
T COG3071         393 QPN  395 (400)
T ss_pred             CCC
Confidence            443

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

Probab=98.81  E-value=7.3e-07  Score=80.61  Aligned_cols=221  Identities=14%  Similarity=0.057  Sum_probs=148.3

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      ..+++.+.+++++..... .++....+..-|.++...|+..+-..+=.+|++.-+          ...++|-++.--|..
T Consensus       256 ~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP----------~~a~sW~aVg~YYl~  324 (611)
T KOG1173|consen  256 YGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYP----------SKALSWFAVGCYYLM  324 (611)
T ss_pred             HcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCC----------CCCcchhhHHHHHHH
Confidence            356777777777777654 234444455555566666666665555555655432          233466666666666


Q ss_pred             cCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHH----------------------------------hccCCHHHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPD-AITFVGVLVAC----------------------------------SHAGLVDERISH  127 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~----------------------------------~~~g~~~~a~~~  127 (352)
                      .|+..+|.+.|.+...  +.|. ...|-....+|                                  .+.++++.|.++
T Consensus       325 i~k~seARry~SKat~--lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~F  402 (611)
T KOG1173|consen  325 IGKYSEARRYFSKATT--LDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKF  402 (611)
T ss_pred             hcCcHHHHHHHHHHhh--cCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHH
Confidence            6666666666665433  2222 12233333333                                  345566666666


Q ss_pred             HHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC--------CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHH
Q 048142          128 FNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM--------PMAL-DHFVLGGLLGACRIHDNLEAAERAAQ  197 (352)
Q Consensus       128 ~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~  197 (352)
                      |.+..   ++.| |+.+.+-+.-..-..+.+.+|...|+..        +..+ -..+++.|-.+|.+.+..++|+..++
T Consensus       403 f~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q  479 (611)
T KOG1173|consen  403 FKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQ  479 (611)
T ss_pred             HHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHH
Confidence            66554   5556 6667777666666678888888888765        1112 35678888899999999999999999


Q ss_pred             HHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCC
Q 048142          198 QLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKP  241 (352)
Q Consensus       198 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  241 (352)
                      +.+...|.+..+|.++.-.|...|+++.|...|.+-.  .+.|+
T Consensus       480 ~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~  521 (611)
T KOG1173|consen  480 KALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPD  521 (611)
T ss_pred             HHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCc
Confidence            9999999999999999999999999999999998764  45666

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

Probab=98.81  E-value=4.5e-07  Score=82.17  Aligned_cols=220  Identities=12%  Similarity=0.027  Sum_probs=176.3

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .++|++.+|.-.|+...+.. +-+...|--|-..-...++-..|+..+.+..+...          .|....-+|.-.|.
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP----------~NleaLmaLAVSyt  364 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDP----------TNLEALMALAVSYT  364 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCC----------ccHHHHHHHHHHHh
Confidence            46889999999999888763 23678888888888888888889998888887554          57778888999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCC--------CCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVK--------PDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGR  153 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~--------p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~  153 (352)
                      ..|.-.+|+..|+.......+        ++..+-..  ..+.....+....++|-++....+..+|+.++..|.-.|--
T Consensus       365 Neg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~l  442 (579)
T KOG1125|consen  365 NEGLQNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNL  442 (579)
T ss_pred             hhhhHHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhc
Confidence            999999999999998764211        01100000  23334445666777777777665666788888899999999


Q ss_pred             cCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHH
Q 048142          154 AGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       154 ~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      .|.++.|.+.|+.. ..+|+ ...||-|-..++...+.++|+..|++.++..|.-+.+...|.-.|...|.+++|.+.|-
T Consensus       443 s~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL  522 (579)
T KOG1125|consen  443 SGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLL  522 (579)
T ss_pred             chHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHH
Confidence            99999999999987 66775 88999999999999999999999999999999888888899999999999999998877


Q ss_pred             HHH
Q 048142          232 LMA  234 (352)
Q Consensus       232 ~m~  234 (352)
                      ...
T Consensus       523 ~AL  525 (579)
T KOG1125|consen  523 EAL  525 (579)
T ss_pred             HHH
Confidence            654

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

Probab=98.77  E-value=3.4e-06  Score=74.49  Aligned_cols=182  Identities=11%  Similarity=0.062  Sum_probs=131.5

Q ss_pred             CChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccC
Q 048142           40 GALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAG  119 (352)
Q Consensus        40 g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g  119 (352)
                      |++++|.+.+.+.....-.         -....|| +.-.+-..|++++|++.|-++..- +.-+......+.+.|-...
T Consensus       504 gd~dka~~~ykeal~ndas---------c~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~le  572 (840)
T KOG2003|consen  504 GDLDKAAEFYKEALNNDAS---------CTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLE  572 (840)
T ss_pred             CcHHHHHHHHHHHHcCchH---------HHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhh
Confidence            4566666666666543322         2222333 233456788999999999887543 3336667777888888889


Q ss_pred             CHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHH
Q 048142          120 LVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMA-LDHFVLGGLLGACRIHDNLEAAERAA  196 (352)
Q Consensus       120 ~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~a~~~~  196 (352)
                      +..+|++++.+..   .+.| |+...+-|.+.|-+.|+-..|....-+- ..- -+..+..-|..-|....-+++++..|
T Consensus       573 d~aqaie~~~q~~---slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~  649 (840)
T KOG2003|consen  573 DPAQAIELLMQAN---SLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYF  649 (840)
T ss_pred             CHHHHHHHHHHhc---ccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHH
Confidence            9999999887765   4455 8899999999999999999998876543 222 24555555777788888899999999


Q ss_pred             HHHHHhCCCCcchHHHHHHHH-hhcCChHHHHHHHHHHHhc
Q 048142          197 QQLLELLPDNGGSYVILSNRY-SSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       197 ~~~~~~~~~~~~~~~~li~~~-~~~g~~~~a~~~~~~m~~~  236 (352)
                      ++.. ...|+.+-|..||..| -+.|++..|..+|+...+.
T Consensus       650 ekaa-liqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  650 EKAA-LIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             HHHH-hcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            8863 5667888999888766 5689999999999988653

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

Probab=98.76  E-value=5.3e-07  Score=83.77  Aligned_cols=223  Identities=16%  Similarity=0.088  Sum_probs=176.1

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048142           23 TGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVK  102 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  102 (352)
                      +|--..-..+...+.+.|-...|..+++.+                  ..|...|.+|...|+..+|..+..+-.+  -+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erl------------------emw~~vi~CY~~lg~~~kaeei~~q~le--k~  454 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERL------------------EMWDPVILCYLLLGQHGKAEEINRQELE--KD  454 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhH------------------HHHHHHHHHHHHhcccchHHHHHHHHhc--CC
Confidence            333333345666778888888888888776                  3688899999999999999999988877  58


Q ss_pred             CCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHH
Q 048142          103 PDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLL  180 (352)
Q Consensus       103 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li  180 (352)
                      ||+..|..+.+......-+++|+++++....+        .--.+.....+.++++++.+.|+.- .+.| -..+|-.+-
T Consensus       455 ~d~~lyc~LGDv~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G  526 (777)
T KOG1128|consen  455 PDPRLYCLLGDVLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLG  526 (777)
T ss_pred             CcchhHHHhhhhccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhcc
Confidence            89999999999998888899999998876543        1111111222378899999999864 4444 367888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcC
Q 048142          181 GACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAG  260 (352)
Q Consensus       181 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G  260 (352)
                      .+..+.+++..|.+.|..-..+.|.+...||++..+|.+.|+..+|...+.+..+.+..|     |.+..+....-.+.|
T Consensus       527 ~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~-----w~iWENymlvsvdvg  601 (777)
T KOG1128|consen  527 CAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQH-----WQIWENYMLVSVDVG  601 (777)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCC-----Ceeeechhhhhhhcc
Confidence            888899999999999999999999999999999999999999999999999998888665     555566666677889


Q ss_pred             cccCchhhhhcCCHHHHh
Q 048142          261 FVPNKSEVLFDMDEEEKE  278 (352)
Q Consensus       261 ~~~~~~~~~~~~~~~~~~  278 (352)
                      ..++|.+.+..+.+..+.
T Consensus       602 e~eda~~A~~rll~~~~~  619 (777)
T KOG1128|consen  602 EFEDAIKAYHRLLDLRKK  619 (777)
T ss_pred             cHHHHHHHHHHHHHhhhh
Confidence            999999988877654444

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

Probab=98.76  E-value=2.7e-06  Score=72.04  Aligned_cols=186  Identities=11%  Similarity=0.012  Sum_probs=91.3

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGD---KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVV   79 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~---~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~   79 (352)
                      +.|..++|+++-..+..+---+.   ....-.|..-|...|-++.|+.+|..+.+.|.          --...--.|+..
T Consensus        81 sRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~e----------fa~~AlqqLl~I  150 (389)
T COG2956          81 SRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGE----------FAEGALQQLLNI  150 (389)
T ss_pred             hcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchh----------hhHHHHHHHHHH
Confidence            45666666666655554311111   12233344445556666666666666555332          112244555566


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCH----hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHc
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDA----ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRA  154 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~  154 (352)
                      |-...+|++|++.-+++...|-.+..    .-|.-|...+....+++.|..++.+..+.   .|+ +..--.+.+.+...
T Consensus       151 YQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa---~~~cvRAsi~lG~v~~~~  227 (389)
T COG2956         151 YQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQA---DKKCVRASIILGRVELAK  227 (389)
T ss_pred             HHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhh---CccceehhhhhhHHHHhc
Confidence            66666666666665555554443332    22444455555555555555555555432   232 22222334455555


Q ss_pred             CCHHHHHHHHHhC-CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048142          155 GRIAKAEELIKNM-PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       155 g~~~~A~~~~~~m-~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      |+++.|.+.++.. .-.|+  ..+...|..+|...|+.+++...+.++.+
T Consensus       228 g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         228 GDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             cchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            6666665555555 22233  33444555555555655555555555443

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

Probab=98.75  E-value=2.9e-06  Score=80.70  Aligned_cols=202  Identities=13%  Similarity=0.068  Sum_probs=155.2

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CH
Q 048142           27 VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP-DA  105 (352)
Q Consensus        27 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~  105 (352)
                      ...-...+-....|++++|.+++.+.++...          .+...|-+|...|-..|+.+++...+-..-.  ..| |.
T Consensus       140 ~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp----------~~~~ay~tL~~IyEqrGd~eK~l~~~llAAH--L~p~d~  207 (895)
T KOG2076|consen  140 RQLLGEANNLFARGDLEEAEEILMEVIKQDP----------RNPIAYYTLGEIYEQRGDIEKALNFWLLAAH--LNPKDY  207 (895)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCc----------cchhhHHHHHHHHHHcccHHHHHHHHHHHHh--cCCCCh
Confidence            3333344444445999999999999998765          5667999999999999999999887754443  344 56


Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-c-H----HHHHH
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-D-H----FVLGG  178 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~-~----~~~~~  178 (352)
                      .-|..+-....+.|.++.|.-.|.+..+.  -+++...+---...|-+.|+...|++-|.++ ...| . .    ..--.
T Consensus       208 e~W~~ladls~~~~~i~qA~~cy~rAI~~--~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~  285 (895)
T KOG2076|consen  208 ELWKRLADLSEQLGNINQARYCYSRAIQA--NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRR  285 (895)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHH
Confidence            77889999999999999999999999864  3345555555677899999999999999988 4344 2 1    22233


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH--hCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCC
Q 048142          179 LLGACRIHDNLEAAERAAQQLLE--LLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPP  242 (352)
Q Consensus       179 li~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  242 (352)
                      ++..+..+++-+.|.+.++....  ....+...++.++..|.+...++.|......+..+...||+
T Consensus       286 ~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~  351 (895)
T KOG2076|consen  286 VAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDD  351 (895)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCCh
Confidence            45667778888888888888665  44556678999999999999999999999998876555554

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

Probab=98.73  E-value=3.1e-07  Score=79.62  Aligned_cols=146  Identities=14%  Similarity=0.030  Sum_probs=70.8

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH----HHHcC
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI----LGRAG  155 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~----~~~~g  155 (352)
                      +...|++++|++++++-      .+.......+..+.+.++++.|.+.++.|.+   ...|... ..|..+    +.-.+
T Consensus       112 ~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~---~~eD~~l-~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  112 LFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQ---IDEDSIL-TQLAEAWVNLATGGE  181 (290)
T ss_dssp             HCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---CSCCHHH-HHHHHHHHHHHHTTT
T ss_pred             HHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCcHHH-HHHHHHHHHHHhCch
Confidence            34455566665555431      2334444555555566666666666666543   2333221 122222    22223


Q ss_pred             CHHHHHHHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCCh-HHHHHHHHH
Q 048142          156 RIAKAEELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKW-KKVKRIREL  232 (352)
Q Consensus       156 ~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~  232 (352)
                      .+.+|..+|+++  ...+++.+.+.+..+....|++++|+.++.+..+..|.++.+...++......|+. +.+.+++.+
T Consensus       182 ~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~q  261 (290)
T PF04733_consen  182 KYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQ  261 (290)
T ss_dssp             CCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHH
Confidence            455666666665  22345555555555566666666666665555555555555555555555555555 444555555


Q ss_pred             HHh
Q 048142          233 MAE  235 (352)
Q Consensus       233 m~~  235 (352)
                      ++.
T Consensus       262 L~~  264 (290)
T PF04733_consen  262 LKQ  264 (290)
T ss_dssp             CHH
T ss_pred             HHH
Confidence            544

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.

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

Probab=98.72  E-value=3.4e-06  Score=80.23  Aligned_cols=222  Identities=16%  Similarity=0.118  Sum_probs=147.6

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHH----HHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVS----LLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVV   79 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~----li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~   79 (352)
                      .|+...|++-|.++.....+.|..-+..    .+..+...++-+.|.+.++.....+-.  .      -+...+|.++..
T Consensus       254 ~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~--~------~~~ed~ni~ael  325 (895)
T KOG2076|consen  254 TGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKD--E------ASLEDLNILAEL  325 (895)
T ss_pred             hChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccc--c------ccccHHHHHHHH
Confidence            4555555555555555321111111111    233334444445555555554441111  0      333457778888


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHh----------------------HHH----HHHHHHhccCCHHHHHHHHHHhhH
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDAI----------------------TFV----GVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~~----------------------t~~----~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      |.+...++.|......+.....++|..                      .|.    -+.-++.+....+....+.....+
T Consensus       326 ~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~  405 (895)
T KOG2076|consen  326 FLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVE  405 (895)
T ss_pred             HHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHH
Confidence            888888888888888777622222221                      111    122344445555555555555555


Q ss_pred             hcCCCC--ChhHHHHHHHHHHHcCCHHHHHHHHHhCCC---CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcc
Q 048142          134 KYGIRP--SIEHYGCLVYILGRAGRIAKAEELIKNMPM---ALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGG  208 (352)
Q Consensus       134 ~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  208 (352)
                      . .+.|  +...|.-+..+|...|++.+|+++|..+-.   .-+...|-.+..+|...|..++|.+.+++.+...|.+..
T Consensus       406 ~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D  484 (895)
T KOG2076|consen  406 D-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLD  484 (895)
T ss_pred             h-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchh
Confidence            3 5333  577888899999999999999999999822   234778999999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          209 SYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       209 ~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      .-.+|...+.+.|+.++|.+++..|.
T Consensus       485 ~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  485 ARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             hhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            99999999999999999999999876

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

Probab=98.68  E-value=1.7e-05  Score=73.24  Aligned_cols=237  Identities=12%  Similarity=-0.004  Sum_probs=114.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      .|--....+-.+|+...|..++.+..+.. +-+...|...+..-.....++.|..+|.+..   +..|+..+|.--+...
T Consensus       586 lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar---~~sgTeRv~mKs~~~e  661 (913)
T KOG0495|consen  586 LWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKAR---SISGTERVWMKSANLE  661 (913)
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHh---ccCCcchhhHHHhHHH
Confidence            34444444455555555555555555431 1133445555555555555555555555543   3344555554444444


Q ss_pred             HHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHH
Q 048142          152 GRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRI  229 (352)
Q Consensus       152 ~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  229 (352)
                      .-.+..++|.+++++. ..-|+ ...|..+-..+-+.++++.|...|..-.+.+|..+..|..|.+.=-+.|.+-.|..+
T Consensus       662 r~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~i  741 (913)
T KOG0495|consen  662 RYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSI  741 (913)
T ss_pred             HHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHH
Confidence            4455555555555544 22344 334444444555555555555555555555555555555555555555555556555


Q ss_pred             HHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcC-CHHHHhhhhhhhhHHHHHHHhhhCCCCCCcEEEEcc
Q 048142          230 RELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDM-DEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKN  308 (352)
Q Consensus       230 ~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~  308 (352)
                      +++-+-++-+-  .   .++-..+..-.+.|....|..++... .++.      .....-+.+--+.+.+...+ .-++.
T Consensus       742 ldrarlkNPk~--~---~lwle~Ir~ElR~gn~~~a~~lmakALQecp------~sg~LWaEaI~le~~~~rkT-ks~DA  809 (913)
T KOG0495|consen  742 LDRARLKNPKN--A---LLWLESIRMELRAGNKEQAELLMAKALQECP------SSGLLWAEAIWLEPRPQRKT-KSIDA  809 (913)
T ss_pred             HHHHHhcCCCc--c---hhHHHHHHHHHHcCCHHHHHHHHHHHHHhCC------ccchhHHHHHHhccCcccch-HHHHH
Confidence            55554444321  0   11112222334566665555543321 1111      11112222233334444444 67889


Q ss_pred             cccccCccchhHHHhh
Q 048142          309 LRVCNDCHTATNIISK  324 (352)
Q Consensus       309 l~~~~~~~~a~~~~~~  324 (352)
                      |++|..=+-.+--+.+
T Consensus       810 Lkkce~dphVllaia~  825 (913)
T KOG0495|consen  810 LKKCEHDPHVLLAIAK  825 (913)
T ss_pred             HHhccCCchhHHHHHH
Confidence            9998765544444433

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.64  E-value=6.2e-06  Score=69.81  Aligned_cols=168  Identities=13%  Similarity=0.029  Sum_probs=126.8

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-H---hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCCh-h
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-A---ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSI-E  142 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~---~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~-~  142 (352)
                      .....+-.+...+.+.|++++|...|++....  .|+ .   .++..+..++...|++++|...++++.+...-.|.. .
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHH
Confidence            45567888888999999999999999999874  333 2   466778889999999999999999998752222221 2


Q ss_pred             HHHHHHHHHHHc--------CCHHHHHHHHHhC-CCCCcH-HHHH-----------------HHHHHHHhcCCHHHHHHH
Q 048142          143 HYGCLVYILGRA--------GRIAKAEELIKNM-PMALDH-FVLG-----------------GLLGACRIHDNLEAAERA  195 (352)
Q Consensus       143 ~~~~li~~~~~~--------g~~~~A~~~~~~m-~~~p~~-~~~~-----------------~li~~~~~~g~~~~a~~~  195 (352)
                      ++..+...+.+.        |+.++|.+.|+++ ...|+. ..+.                 .+...+...|++++|...
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~  188 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINR  188 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            444555555554        7889999999987 223432 2221                 344567888999999999


Q ss_pred             HHHHHHhCCC---CcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          196 AQQLLELLPD---NGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       196 ~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ++...+..|.   ....+..+..++.+.|++++|..+++.+..+.
T Consensus       189 ~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       189 FETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            9999886554   34688899999999999999999999887543

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.62  E-value=1.2e-05  Score=67.95  Aligned_cols=167  Identities=11%  Similarity=-0.001  Sum_probs=124.5

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCC-cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALK-DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP  103 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  103 (352)
                      ....+..+...+.+.|+++.|...++++.+....  .      | ....+..+..+|.+.|++++|+..|+++.+.  .|
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~--~------~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p  101 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPF--S------PYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HP  101 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--c------hhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--Cc
Confidence            4567778888899999999999999998875421  1      2 2246788889999999999999999999874  33


Q ss_pred             CHh----HHHHHHHHHhcc--------CCHHHHHHHHHHhhHhcCCCCCh-hHH-----------------HHHHHHHHH
Q 048142          104 DAI----TFVGVLVACSHA--------GLVDERISHFNLMSEKYGIRPSI-EHY-----------------GCLVYILGR  153 (352)
Q Consensus       104 ~~~----t~~~ll~~~~~~--------g~~~~a~~~~~~m~~~~g~~p~~-~~~-----------------~~li~~~~~  153 (352)
                      +..    ++..+..++...        |+.++|...++.+.+.   .|+. ..+                 -.+...|.+
T Consensus       102 ~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~  178 (235)
T TIGR03302       102 NHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLK  178 (235)
T ss_pred             CCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            221    344444455443        7889999999999865   3332 111                 134566788


Q ss_pred             cCCHHHHHHHHHhC----CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          154 AGRIAKAEELIKNM----PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       154 ~g~~~~A~~~~~~m----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                      .|++++|...+++.    +..| ....+..+..++...|+.++|...++.+....|
T Consensus       179 ~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       179 RGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             cCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            99999999999887    3233 357888999999999999999999988876543

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).

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

Probab=98.61  E-value=3.1e-05  Score=69.85  Aligned_cols=87  Identities=13%  Similarity=-0.049  Sum_probs=38.6

Q ss_pred             HHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC---CcH--HHHHHHHHHHHh
Q 048142          112 LVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMA---LDH--FVLGGLLGACRI  185 (352)
Q Consensus       112 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~---p~~--~~~~~li~~~~~  185 (352)
                      ...+...|++++|...+++..+.  .+.+...+..+...|...|++++|...+++. +..   |+.  ..|..+...+..
T Consensus       121 a~~~~~~G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~  198 (355)
T cd05804         121 AFGLEEAGQYDRAEEAARRALEL--NPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLE  198 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHH
Confidence            33444455555555555555432  1112334444444555555555555555443 111   111  123334444555


Q ss_pred             cCCHHHHHHHHHHHH
Q 048142          186 HDNLEAAERAAQQLL  200 (352)
Q Consensus       186 ~g~~~~a~~~~~~~~  200 (352)
                      .|+.++|..++++..
T Consensus       199 ~G~~~~A~~~~~~~~  213 (355)
T cd05804         199 RGDYEAALAIYDTHI  213 (355)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            555555555555543

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.60  E-value=7.2e-08  Score=54.91  Aligned_cols=34  Identities=44%  Similarity=0.612  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      +||+||.+|++.|++++|.++|++|.+.|++||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            7899999999999999999999999999998873

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.

>PLN02789 farnesyltranstransferase

Probab=98.59  E-value=3.6e-05  Score=67.81  Aligned_cols=201  Identities=12%  Similarity=0.032  Sum_probs=121.3

Q ss_pred             CCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccC-ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLG-ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .++.++|+.+..+....  .| +..+|+.--..+...| ++++++..++++.+...          .+..+|+.-.-.+.
T Consensus        50 ~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np----------knyqaW~~R~~~l~  117 (320)
T PLN02789         50 DERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP----------KNYQIWHHRRWLAE  117 (320)
T ss_pred             CCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC----------cchHHhHHHHHHHH
Confidence            45666677777666653  44 3445555555555566 56777777777776544          44556766555555


Q ss_pred             hcCCh--HHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHc---CC
Q 048142           82 MCGQG--NKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRA---GR  156 (352)
Q Consensus        82 ~~g~~--~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~---g~  156 (352)
                      +.|+.  ++++++++++.+... -|..+|+...-++...|+++++++.++++.+. . .-+...|+.....+.+.   |.
T Consensus       118 ~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~-d-~~N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE-D-VRNNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-C-CCchhHHHHHHHHHHhcccccc
Confidence            55542  567777777776432 25667777777777777788888888877764 2 22455566555554443   22


Q ss_pred             H----HHHHHHHHhC-CCCC-cHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh
Q 048142          157 I----AKAEELIKNM-PMAL-DHFVLGGLLGACRIH----DNLEAAERAAQQLLELLPDNGGSYVILSNRYSS  219 (352)
Q Consensus       157 ~----~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~  219 (352)
                      .    +++.++..++ ...| |...|+.+...+...    +...+|...+.+..+..+.++.....|++.|+.
T Consensus       195 ~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~  267 (320)
T PLN02789        195 LEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCE  267 (320)
T ss_pred             ccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHh
Confidence            2    3455555333 3344 356666666666552    334556677766666566666667777777765

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.50  E-value=3.9e-05  Score=74.34  Aligned_cols=169  Identities=9%  Similarity=0.017  Sum_probs=132.1

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA-ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYG  145 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~  145 (352)
                      .++..+-.|.....+.|++++|..+++...+  +.||. .....+...+.+.+++++|...+++...   ..| +.....
T Consensus        84 ~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~---~~p~~~~~~~  158 (694)
T PRK15179         84 HTELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS---GGSSSAREIL  158 (694)
T ss_pred             ccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh---cCCCCHHHHH
Confidence            4577788888999999999999999999988  57774 5677889999999999999999999985   355 567778


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCCh
Q 048142          146 CLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKW  223 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  223 (352)
                      .+..++.+.|++++|.++|+++ .-.|+ ..++.++-.++...|+.++|...|++..+...+-..-|+.++.      ++
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~~------~~  232 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRLV------DL  232 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHHH------HH
Confidence            8888999999999999999998 23454 7889999999999999999999999998876666666665443      33


Q ss_pred             HHHHHHHHHHHhcCCCCCCceeEE
Q 048142          224 KKVKRIRELMAERNIKKPPGCILI  247 (352)
Q Consensus       224 ~~a~~~~~~m~~~g~~p~~~~~~~  247 (352)
                      ..-..+++.+.-.+...+..+..+
T Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~  256 (694)
T PRK15179        233 NADLAALRRLGVEGDGRDVPVSIL  256 (694)
T ss_pred             HHHHHHHHHcCcccccCCCceeee
Confidence            444556666654444333333333

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

Probab=98.50  E-value=0.00018  Score=66.80  Aligned_cols=218  Identities=8%  Similarity=-0.060  Sum_probs=171.0

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      .|..++-..+|++.... ++-....|-......-..|++..|+.++.+..+...          .+...|-+-+..-..+
T Consensus       563 hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~p----------nseeiwlaavKle~en  631 (913)
T KOG0495|consen  563 HGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANP----------NSEEIWLAAVKLEFEN  631 (913)
T ss_pred             cCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC----------CcHHHHHHHHHHhhcc
Confidence            35566666777777654 333455666667777788999999999998887654          4567899999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHH
Q 048142           84 GQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEEL  163 (352)
Q Consensus        84 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  163 (352)
                      ..++.|..+|.+...  ..|+...|.--++.---.++.++|.+++++..+.  ++--...|-.+.+.+-+.++++.|.+-
T Consensus       632 ~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~a  707 (913)
T KOG0495|consen  632 DELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREA  707 (913)
T ss_pred             ccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHH
Confidence            999999999988776  5677777776666666789999999999888864  333355677778888888999998887


Q ss_pred             HHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          164 IKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       164 ~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      |..= ..-|+ +..|-.|...--+.|++-+|..++++.+-..|.+...|-..|.+=.+.|..++|..+..+..+.
T Consensus       708 Y~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe  782 (913)
T KOG0495|consen  708 YLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE  782 (913)
T ss_pred             HHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7653 33454 7788888888888889999999999988888999999999999999999999998887766543

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

Probab=98.48  E-value=5.6e-06  Score=77.22  Aligned_cols=202  Identities=13%  Similarity=0.020  Sum_probs=161.4

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      .|-..+|+.+|++..         .|-.+|.+|...|+..+|..+..+..+.  +         ||...|..+.+.....
T Consensus       411 lGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~---------~d~~lyc~LGDv~~d~  470 (777)
T KOG1128|consen  411 LGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--D---------PDPRLYCLLGDVLHDP  470 (777)
T ss_pred             cchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--C---------CcchhHHHhhhhccCh
Confidence            456667777776543         5777889999999999999998888773  2         7778899999888888


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHH
Q 048142           84 GQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        84 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      --+++|.++++.....       +-..+-.-..+.++++++.+.|+.-.+.   .| ...+|-.+--+..+.++++.|.+
T Consensus       471 s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~---nplq~~~wf~~G~~ALqlek~q~av~  540 (777)
T KOG1128|consen  471 SLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEI---NPLQLGTWFGLGCAALQLEKEQAAVK  540 (777)
T ss_pred             HHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhc---CccchhHHHhccHHHHHHhhhHHHHH
Confidence            8899999999876542       1111112223378999999999887653   34 56778888888889999999999


Q ss_pred             HHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          163 LIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       163 ~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      .|... ...|| ...||++-.+|.+.++..+|...+++..+-...+...|...+-...+-|.+++|.+.+..|..
T Consensus       541 aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  541 AFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            99876 55676 789999999999999999999999999886666777888888888999999999999998864

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.48  E-value=2.4e-07  Score=52.38  Aligned_cols=33  Identities=42%  Similarity=0.586  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP  103 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  103 (352)
                      .+||++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            578888888888888888888888888888877

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

Probab=98.47  E-value=3e-05  Score=63.52  Aligned_cols=148  Identities=6%  Similarity=-0.012  Sum_probs=111.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCC
Q 048142           77 IVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGR  156 (352)
Q Consensus        77 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~  156 (352)
                      +..|...|+++.+....+.+..    |.        ..+...++.+++...++...+.  -+.+...|..|...|...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCC
Confidence            4567888988886544432221    11        1222366677777777776653  24478889999999999999


Q ss_pred             HHHHHHHHHhC-CCCC-cHHHHHHHHHHH-HhcCC--HHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHH
Q 048142          157 IAKAEELIKNM-PMAL-DHFVLGGLLGAC-RIHDN--LEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       157 ~~~A~~~~~~m-~~~p-~~~~~~~li~~~-~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      +++|...|++. ...| +...+..+..++ ...|+  .++|.+++++..+..|.+..++..+...+...|++++|...|+
T Consensus        89 ~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         89 YDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999987 4455 467777777764 66676  5999999999999999999999999999999999999999999


Q ss_pred             HHHhcCC
Q 048142          232 LMAERNI  238 (352)
Q Consensus       232 ~m~~~g~  238 (352)
                      ++.+..-
T Consensus       169 ~aL~l~~  175 (198)
T PRK10370        169 KVLDLNS  175 (198)
T ss_pred             HHHhhCC
Confidence            9876544

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

Probab=98.45  E-value=4.6e-06  Score=80.01  Aligned_cols=221  Identities=13%  Similarity=0.004  Sum_probs=117.4

Q ss_pred             cCCChhHHHHHHHHHHHC---CCCCCH------HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcH-HH
Q 048142            3 EDSACEEALLLFREVQHK---GLTGDK------VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDV-MT   72 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~---g~~p~~------~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~-~~   72 (352)
                      ..|++++|...|.+....   ...+|.      .+-..+....-..++.+.|.+.|..+.+.-.           +- ..
T Consensus       464 ~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp-----------~YId~  532 (1018)
T KOG2002|consen  464 RLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHP-----------GYIDA  532 (1018)
T ss_pred             HhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCc-----------hhHHH
Confidence            468888999988888764   223333      2233344455667788888888888877432           11 11


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHH
Q 048142           73 LTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILG  152 (352)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~  152 (352)
                      |--+...--..++..+|..+++..... ...++..++.+-..+.+...+..|..-|....++....+|..+.-+|.+.|.
T Consensus       533 ylRl~~ma~~k~~~~ea~~~lk~~l~~-d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~  611 (1018)
T KOG2002|consen  533 YLRLGCMARDKNNLYEASLLLKDALNI-DSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYI  611 (1018)
T ss_pred             HHHhhHHHHhccCcHHHHHHHHHHHhc-ccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHH
Confidence            222221111235566677666666543 1222333333344455555555555545444443222344444444444333


Q ss_pred             H------------cCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHh
Q 048142          153 R------------AGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS  218 (352)
Q Consensus       153 ~------------~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~  218 (352)
                      +            .+..++|+++|.+. ...| |...-|.+.-.++..|++.+|..+|..+.+.......+|..+.+.|.
T Consensus       612 ~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~  691 (1018)
T KOG2002|consen  612 QALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYV  691 (1018)
T ss_pred             HHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHH
Confidence            2            13345566665554 2222 34444555555666666666666666666544445556666666666


Q ss_pred             hcCChHHHHHHHHHHHh
Q 048142          219 SSRKWKKVKRIRELMAE  235 (352)
Q Consensus       219 ~~g~~~~a~~~~~~m~~  235 (352)
                      ..|++-.|+++|+.-..
T Consensus       692 e~~qy~~AIqmYe~~lk  708 (1018)
T KOG2002|consen  692 EQGQYRLAIQMYENCLK  708 (1018)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            66666666666665443

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

Probab=98.42  E-value=5.3e-05  Score=73.01  Aligned_cols=256  Identities=12%  Similarity=0.042  Sum_probs=179.0

Q ss_pred             CChhHHHHHHHHH----HHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHc---CCCCCccccccCCcHHHHHHHH
Q 048142            5 SACEEALLLFREV----QHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKK---NIEVDVGLGMALKDVMTLTALI   77 (352)
Q Consensus         5 g~~~~A~~~~~~m----~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~~~~~~~~~l~~~~~~~~li   77 (352)
                      +++..++..|...    ...+..+-....|.+.......|++.+|...|......   ...+|..  .+ +++.+--.+.
T Consensus       427 ~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~--~~-~~lt~~YNla  503 (1018)
T KOG2002|consen  427 TDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEG--KS-TNLTLKYNLA  503 (1018)
T ss_pred             cChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCcccc--cc-chhHHHHHHH
Confidence            3444445555433    34555677888999999999999999999999998765   1222211  11 3332323355


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHhH-HHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCC
Q 048142           78 VVLAMCGQGNKALEYFYEMQIRGVKPDAIT-FVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGR  156 (352)
Q Consensus        78 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~  156 (352)
                      ..+-..++.+.|.+.|......  .|..++ |--+...-...+...+|...+.....  ....++..++-+...|.+...
T Consensus       504 rl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~--~d~~np~arsl~G~~~l~k~~  579 (1018)
T KOG2002|consen  504 RLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALN--IDSSNPNARSLLGNLHLKKSE  579 (1018)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHh--cccCCcHHHHHHHHHHHhhhh
Confidence            6666778999999999999874  455443 44443222335788899999988876  445566667777778888888


Q ss_pred             HHHHHHHHHhC----CCCCcHHHHHHHHHHHH------------hcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhc
Q 048142          157 IAKAEELIKNM----PMALDHFVLGGLLGACR------------IHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSS  220 (352)
Q Consensus       157 ~~~A~~~~~~m----~~~p~~~~~~~li~~~~------------~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~  220 (352)
                      +..|.+-|+..    ...+|+.+.-+|-+.|.            ..+..++|+++|.++++..|.|...-|-+.-.++..
T Consensus       580 ~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~k  659 (1018)
T KOG2002|consen  580 WKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEK  659 (1018)
T ss_pred             hcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhc
Confidence            88888855544    33356665555555442            334578899999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcC
Q 048142          221 RKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDM  272 (352)
Q Consensus       221 g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~  272 (352)
                      |++++|..+|.+.++....-.+  .|   -++.|.+...|.+-.|++++...
T Consensus       660 g~~~~A~dIFsqVrEa~~~~~d--v~---lNlah~~~e~~qy~~AIqmYe~~  706 (1018)
T KOG2002|consen  660 GRFSEARDIFSQVREATSDFED--VW---LNLAHCYVEQGQYRLAIQMYENC  706 (1018)
T ss_pred             cCchHHHHHHHHHHHHHhhCCc--ee---eeHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999987763211  12   23567788888888888777543

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

Probab=98.41  E-value=2.1e-05  Score=66.86  Aligned_cols=158  Identities=11%  Similarity=-0.018  Sum_probs=133.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHH-HHHHHHHH
Q 048142           74 TALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHY-GCLVYILG  152 (352)
Q Consensus        74 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~-~~li~~~~  152 (352)
                      +.|..+|.+.|.+.+|...|+.-...  .|-..||..|-++|.+...++.|+.++.+-.+.   -|..+|| .-+.+.+.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~---fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS---FPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc---CCchhhhhhhhHHHHH
Confidence            77889999999999999999998875  667778999999999999999999999988753   4544444 44567788


Q ss_pred             HcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHH
Q 048142          153 RAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIR  230 (352)
Q Consensus       153 ~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  230 (352)
                      ..++.++|.++++.. ...| ++.....+..+|.-.++++.|.+.++++++....++..|..+.-.|.-.+++|-++--|
T Consensus       302 am~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHH
Confidence            889999999999987 3333 45566667778899999999999999999998889999999999999999999999888


Q ss_pred             HHHHhc
Q 048142          231 ELMAER  236 (352)
Q Consensus       231 ~~m~~~  236 (352)
                      ++....
T Consensus       382 ~RAlst  387 (478)
T KOG1129|consen  382 QRALST  387 (478)
T ss_pred             HHHHhh
Confidence            876643

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

Probab=98.40  E-value=8.2e-06  Score=70.86  Aligned_cols=153  Identities=20%  Similarity=0.130  Sum_probs=112.5

Q ss_pred             HHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHH
Q 048142           34 LACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLV  113 (352)
Q Consensus        34 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  113 (352)
                      ..+...|++++|++++..-               .+.......+..|.+.++++.|.+.++.|.+.  ..|. +...+..
T Consensus       110 ~i~~~~~~~~~AL~~l~~~---------------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD~-~l~qLa~  171 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG---------------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DEDS-ILTQLAE  171 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT---------------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCCH-HHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHcc---------------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcH-HHHHHHH
Confidence            4456778888888776532               34456677889999999999999999999874  3443 3444444


Q ss_pred             HHh----ccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcC
Q 048142          114 ACS----HAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHD  187 (352)
Q Consensus       114 ~~~----~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g  187 (352)
                      ++.    ..+.+.+|..+|+++.+  ...+++.+.|.+..++...|++++|.+++.+. ...| ++.+...++......|
T Consensus       172 awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~g  249 (290)
T PF04733_consen  172 AWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLG  249 (290)
T ss_dssp             HHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhC
Confidence            443    34579999999999876  45678899999999999999999999999886 3333 4667777887777778


Q ss_pred             CH-HHHHHHHHHHHHhCCCC
Q 048142          188 NL-EAAERAAQQLLELLPDN  206 (352)
Q Consensus       188 ~~-~~a~~~~~~~~~~~~~~  206 (352)
                      +. +.+.+.+.++....|..
T Consensus       250 k~~~~~~~~l~qL~~~~p~h  269 (290)
T PF04733_consen  250 KPTEAAERYLSQLKQSNPNH  269 (290)
T ss_dssp             -TCHHHHHHHHHCHHHTTTS
T ss_pred             CChhHHHHHHHHHHHhCCCC
Confidence            77 77888999988876654

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.40  E-value=6.2e-07  Score=50.91  Aligned_cols=34  Identities=18%  Similarity=0.213  Sum_probs=31.6

Q ss_pred             chHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCC
Q 048142          208 GSYVILSNRYSSSRKWKKVKRIRELMAERNIKKP  241 (352)
Q Consensus       208 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  241 (352)
                      .+|+++|++|++.|++++|.++|++|.+.|++||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            3799999999999999999999999999999987

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.

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

Probab=98.38  E-value=0.00021  Score=64.43  Aligned_cols=198  Identities=12%  Similarity=0.060  Sum_probs=133.2

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDV-MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      ...|..+...+...|+.+.+...+....+.... +       .+. .........+...|++++|.+++++..+. .+.|
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~-------~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~-~P~~   76 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAA-R-------ATERERAHVEALSAWIAGDLPKALALLEQLLDD-YPRD   76 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhcc-C-------CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-CCCc
Confidence            445666666677778888877777666554321 1       121 11222334556789999999999998875 2333


Q ss_pred             HhHHHH---HHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHH
Q 048142          105 AITFVG---VLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGG  178 (352)
Q Consensus       105 ~~t~~~---ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~  178 (352)
                      ...+..   ........+..+.+.+.+...   ....|+ ......+...+...|++++|...+++. ...|+ ...+..
T Consensus        77 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~  153 (355)
T cd05804          77 LLALKLHLGAFGLGDFSGMRDHVARVLPLW---APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHA  153 (355)
T ss_pred             HHHHHHhHHHHHhcccccCchhHHHHHhcc---CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            434442   122222345556666555541   133443 344556667889999999999999987 44454 667788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCCCc----chHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          179 LLGACRIHDNLEAAERAAQQLLELLPDNG----GSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       179 li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      +...+...|++++|...+++..+..|.+.    ..|..+...+...|++++|..++++...
T Consensus       154 la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         154 VAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            88899999999999999999887655332    2355788899999999999999999854

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.

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

Probab=98.38  E-value=0.00031  Score=65.72  Aligned_cols=228  Identities=15%  Similarity=0.085  Sum_probs=154.6

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHh-cc-----CChHHHHHHHHHHHHcCCCCCccccccC--------
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACT-HL-----GALEVGMWLHPYIMKKNIEVDVGLGMAL--------   67 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~-~~-----g~~~~a~~~~~~m~~~g~~~~~~~~~~l--------   67 (352)
                      .+.|+.++|..+|+.+...  .|+...|...+..+. -.     .+.+...++++++...-...+..-.-+|        
T Consensus        49 ~kLg~~~eA~~~y~~Li~r--NPdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F  126 (517)
T PF12569_consen   49 LKLGRKEEAEKIYRELIDR--NPDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEF  126 (517)
T ss_pred             HHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHH
Confidence            4679999999999999986  477776665554443 22     2467778888887665432222111111        


Q ss_pred             -------------Cc-HHHHHHHHHHHHhcCChHHHHHHHHHHHHc----C----------CCCCHh--HHHHHHHHHhc
Q 048142           68 -------------KD-VMTLTALIVVLAMCGQGNKALEYFYEMQIR----G----------VKPDAI--TFVGVLVACSH  117 (352)
Q Consensus        68 -------------~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g----------~~p~~~--t~~~ll~~~~~  117 (352)
                                   .. ..+|+.|-..|....+.+-..+++......    +          -.|+..  ++.-+...|..
T Consensus       127 ~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~  206 (517)
T PF12569_consen  127 KERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDY  206 (517)
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHH
Confidence                         11 135666666666555555555666665432    1          134442  44566777889


Q ss_pred             cCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHHHHHhcCCHHHHHH
Q 048142          118 AGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRAGRIAKAEELIKNM-PMA-LDHFVLGGLLGACRIHDNLEAAER  194 (352)
Q Consensus       118 ~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~a~~  194 (352)
                      .|++++|..++++..+   ..|+ +..|..-...|-..|++++|.+.++.. ... -|-..=+-....+.++|++++|.+
T Consensus       207 ~g~~~~Al~~Id~aI~---htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~  283 (517)
T PF12569_consen  207 LGDYEKALEYIDKAIE---HTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEK  283 (517)
T ss_pred             hCCHHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHH
Confidence            9999999999998875   3565 778888899999999999999999887 222 355555666678899999999999


Q ss_pred             HHHHHHHhC-CCCc--------chHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          195 AAQQLLELL-PDNG--------GSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       195 ~~~~~~~~~-~~~~--------~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      ++....+.. .+..        ....-...+|.+.|++..|++-|....
T Consensus       284 ~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  284 TASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             HHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            998876533 2211        122455678999999998887766554

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 [], [].

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

Probab=98.37  E-value=4e-05  Score=63.32  Aligned_cols=94  Identities=16%  Similarity=0.035  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhc
Q 048142          143 HYGCLVYILGRAGRIAKAEELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSS  220 (352)
Q Consensus       143 ~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~  220 (352)
                      ..+..+....+.|++.+|...|.+.  +..+|...|+.+-.+|-+.|+.+.|..-|.+..+..+.++..++.|.-.|.-.
T Consensus       102 ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~  181 (257)
T COG5010         102 LLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLR  181 (257)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHc
Confidence            3333444444445555555544444  22234444444444455555555555555554444444444444444444445


Q ss_pred             CChHHHHHHHHHHHhc
Q 048142          221 RKWKKVKRIRELMAER  236 (352)
Q Consensus       221 g~~~~a~~~~~~m~~~  236 (352)
                      |+++.|..++......
T Consensus       182 gd~~~A~~lll~a~l~  197 (257)
T COG5010         182 GDLEDAETLLLPAYLS  197 (257)
T ss_pred             CCHHHHHHHHHHHHhC
Confidence            5555555444444433

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

Probab=98.37  E-value=4e-05  Score=69.70  Aligned_cols=201  Identities=14%  Similarity=0.045  Sum_probs=129.9

Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048142           21 GLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRG  100 (352)
Q Consensus        21 g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  100 (352)
                      |..-+......-.+-|-..+++.+..++.+.+.+...          +....+-.-|.++...|+..+-+.+=.+|.+. 
T Consensus       239 ~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dp----------fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-  307 (611)
T KOG1173|consen  239 GLAENLDLLAEKADRLYYGCRFKECLKITEELLEKDP----------FHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-  307 (611)
T ss_pred             hhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCC----------CCcchHHHHHHHHHHhcccchHHHHHHHHHHh-
Confidence            4455666777778888899999999999999887643          44456667788999999999888888888875 


Q ss_pred             CCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHH--------------
Q 048142          101 VKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRAGRIAKAEELIK--------------  165 (352)
Q Consensus       101 ~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~--------------  165 (352)
                      .+-.+.+|-++.-.|-..|+.++|++.|.+..   .+.|. ...|-.....|+-.|..|.|+..+.              
T Consensus       308 yP~~a~sW~aVg~YYl~i~k~seARry~SKat---~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~L  384 (611)
T KOG1173|consen  308 YPSKALSWFAVGCYYLMIGKYSEARRYFSKAT---TLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSL  384 (611)
T ss_pred             CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHh---hcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHH
Confidence            45568899999999999999999999998875   34442 3345555555555555555555443              


Q ss_pred             --------------------hC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-------CCCcchHHHHHHH
Q 048142          166 --------------------NM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELL-------PDNGGSYVILSNR  216 (352)
Q Consensus       166 --------------------~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-------~~~~~~~~~li~~  216 (352)
                                          +. .+.|+ +...+-+--.....+.+.+|...|+..+...       +.-..+++.|..+
T Consensus       385 Ylgmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~  464 (611)
T KOG1173|consen  385 YLGMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHA  464 (611)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHH
Confidence                                33 23332 3333333333334455555555555543210       0112235556666


Q ss_pred             HhhcCChHHHHHHHHHHHh
Q 048142          217 YSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       217 ~~~~g~~~~a~~~~~~m~~  235 (352)
                      |.+.+++++|...+++...
T Consensus       465 ~Rkl~~~~eAI~~~q~aL~  483 (611)
T KOG1173|consen  465 YRKLNKYEEAIDYYQKALL  483 (611)
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            6666666666666665544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.37  E-value=2.7e-05  Score=60.39  Aligned_cols=105  Identities=11%  Similarity=-0.039  Sum_probs=71.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHH
Q 048142          108 FVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACR  184 (352)
Q Consensus       108 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  184 (352)
                      +..+...+...|++++|...|+....   ..| +...|..+..++.+.|++++|...|+.. ...| +...|..+..++.
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~  103 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVM---AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLK  103 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            33455666677777777777777664   344 5666777777777777777777777776 3333 4666677777777


Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCcchHHHHHH
Q 048142          185 IHDNLEAAERAAQQLLELLPDNGGSYVILSN  215 (352)
Q Consensus       185 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~  215 (352)
                      ..|+.++|...|+...+..|.++..|...-.
T Consensus       104 ~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~  134 (144)
T PRK15359        104 MMGEPGLAREAFQTAIKMSYADASWSEIRQN  134 (144)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            7777777777777777777777666654433

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.37  E-value=1.5e-05  Score=61.76  Aligned_cols=99  Identities=9%  Similarity=-0.078  Sum_probs=87.2

Q ss_pred             CCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHH
Q 048142          137 IRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILS  214 (352)
Q Consensus       137 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li  214 (352)
                      +.|+  .+..+...+...|++++|...|+.. ...| +...|..+...+...|++++|...|+...+..|.++..+..+.
T Consensus        22 ~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg   99 (144)
T PRK15359         22 VDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTG   99 (144)
T ss_pred             cCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHH
Confidence            3454  3556778889999999999999987 4455 5888999999999999999999999999999999999999999


Q ss_pred             HHHhhcCChHHHHHHHHHHHhcC
Q 048142          215 NRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       215 ~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      .++...|+.++|.+.|+...+..
T Consensus       100 ~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        100 VCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999987644

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.36  E-value=7.9e-05  Score=72.26  Aligned_cols=132  Identities=13%  Similarity=0.024  Sum_probs=105.1

Q ss_pred             CCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHH
Q 048142          101 VKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLG  177 (352)
Q Consensus       101 ~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~  177 (352)
                      ...+...+..|.....+.|..++|..+++...+   +.|+ ......+...+.+.+++++|+..+++. ...|+ .....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~  158 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREIL  158 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHH
Confidence            444677888888888888999999998888874   5674 566677788888889999998888887 44565 45556


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          178 GLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       178 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      .+..++...|++++|..+|+++....|.+..++..+...+-..|+.++|...|++..+
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6667788889999999999988887777788888888888888999998888887753

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.33  E-value=1e-06  Score=49.74  Aligned_cols=33  Identities=15%  Similarity=0.174  Sum_probs=31.0

Q ss_pred             chHHHHHHHHhhcCChHHHHHHHHHHHhcCCCC
Q 048142          208 GSYVILSNRYSSSRKWKKVKRIRELMAERNIKK  240 (352)
Q Consensus       208 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  240 (352)
                      .+|+.++.+|++.|+++.|.++|++|++.|++|
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            589999999999999999999999999999987

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

Probab=98.33  E-value=8.9e-05  Score=61.33  Aligned_cols=154  Identities=15%  Similarity=0.101  Sum_probs=84.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHc
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRA  154 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  154 (352)
                      .+-..+...|+-+.+..+....... ..-|............+.|++..|...+.+...  .-++|...|+.+--+|.+.
T Consensus        71 ~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          71 KLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHc
Confidence            3444455555555555555543322 122333333455555666666666666666553  3344566666666666666


Q ss_pred             CCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHH
Q 048142          155 GRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       155 g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      |++++|..-|.+. .+.| ++...|+|.-.+.-.|+.+.|..++.......+.|..+-..|.-.....|++++|..+-.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         148 GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            6666666655554 2222 244555566666666666666666666555555555555556666666666666665543

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

Probab=98.28  E-value=0.0001  Score=60.38  Aligned_cols=115  Identities=11%  Similarity=-0.012  Sum_probs=87.1

Q ss_pred             ccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHH-
Q 048142           38 HLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP-DAITFVGVLVAC-  115 (352)
Q Consensus        38 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~-  115 (352)
                      ..++.+++...+....+...          .|...|..|...|...|++++|...|++..+.  .| +...+..+..++ 
T Consensus        51 ~~~~~~~~i~~l~~~L~~~P----------~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~  118 (198)
T PRK10370         51 SQQTPEAQLQALQDKIRANP----------QNSEQWALLGEYYLWRNDYDNALLAYRQALQL--RGENAELYAALATVLY  118 (198)
T ss_pred             CchhHHHHHHHHHHHHHHCC----------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            36666777777777766554          57778888888888889999999998888874  34 455666666653 


Q ss_pred             hccCC--HHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142          116 SHAGL--VDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       116 ~~~g~--~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      ...|+  .++|..++++..+.   .| +...+..+...+.+.|++++|...|+++
T Consensus       119 ~~~g~~~~~~A~~~l~~al~~---dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370        119 YQAGQHMTPQTREMIDKALAL---DANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HhcCCCCcHHHHHHHHHHHHh---CCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            56666  48888888888753   44 6677888888888889999999988887

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

Probab=98.28  E-value=4.9e-05  Score=72.59  Aligned_cols=208  Identities=16%  Similarity=0.087  Sum_probs=129.6

Q ss_pred             CccCCChhHHHHHHHHHHHCC------------------------CCCCHHHHHHHHHHHhccCChHH---HHHHHHHHH
Q 048142            1 YVEDSACEEALLLFREVQHKG------------------------LTGDKVTMVSLLLACTHLGALEV---GMWLHPYIM   53 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g------------------------~~p~~~t~~~li~~~~~~g~~~~---a~~~~~~m~   53 (352)
                      ||..|+.+.|- +|..|+-..                        -.|-..||..|+.+|...|++..   .++.+..+.
T Consensus        35 Yc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~  113 (1088)
T KOG4318|consen   35 YCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGDLILFEVVEQDLESIN  113 (1088)
T ss_pred             HcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccchHHHHHHHHHHHHHH
Confidence            67778888777 777664321                        25677899999999999998755   333222222


Q ss_pred             H----cCCCC-Ccccc-------ccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHhHHHHHHHHHhccCC
Q 048142           54 K----KNIEV-DVGLG-------MALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRG-VKPDAITFVGVLVACSHAGL  120 (352)
Q Consensus        54 ~----~g~~~-~~~~~-------~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~g~  120 (352)
                      .    .|+.. ...+.       ..+||..   +.|....-.|-++.+++++..+.... ..|-.+    .++-+.....
T Consensus       114 ~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~eglwaqllkll~~~Pvsa~~~p~~v----fLrqnv~~nt  186 (1088)
T KOG4318|consen  114 QSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQV----FLRQNVVDNT  186 (1088)
T ss_pred             hhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHHHHHHHHHHhhCCcccccchHHH----HHHHhccCCc
Confidence            1    22211 00000       0003332   23444445566667776666554321 112211    2444443322


Q ss_pred             HHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC---CCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 048142          121 VDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM---PMALDHFVLGGLLGACRIHDNLEAAERAAQ  197 (352)
Q Consensus       121 ~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  197 (352)
                        ...++....+.-.+ .|++.+|.+++.+-..+|+++-|..++.+|   |+..+..-|-.|+-+   .++...++.+.+
T Consensus       187 --pvekLl~~cksl~e-~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlr  260 (1088)
T KOG4318|consen  187 --PVEKLLNMCKSLVE-APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLR  260 (1088)
T ss_pred             --hHHHHHHHHHHhhc-CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHH
Confidence              23333333333223 799999999999999999999999999999   666666656666655   788888888888


Q ss_pred             HHHH-hCCCCcchHHHHHHHHhhcCC
Q 048142          198 QLLE-LLPDNGGSYVILSNRYSSSRK  222 (352)
Q Consensus       198 ~~~~-~~~~~~~~~~~li~~~~~~g~  222 (352)
                      .|.+ +..|+..|+...+..+.+.|.
T Consensus       261 gmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  261 GMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHHhcCCCCcchhHHHHHhhhcchh
Confidence            8876 678899999988887777555

>PLN02789 farnesyltranstransferase

Probab=98.27  E-value=0.00074  Score=59.54  Aligned_cols=195  Identities=7%  Similarity=0.009  Sum_probs=141.0

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCCHh
Q 048142           28 TMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG-QGNKALEYFYEMQIRGVKPDAI  106 (352)
Q Consensus        28 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~  106 (352)
                      ++..+-..+...+..++|+.+.+++++...          .+..+|+.--..+...| +++++++.++++.+...+ +..
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~lnP----------~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyq  107 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLNP----------GNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQ  107 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCc----------hhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chH
Confidence            344455556677889999999999988653          34456777767777777 689999999999886333 455


Q ss_pred             HHHHHHHHHhccCC--HHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHH
Q 048142          107 TFVGVLVACSHAGL--VDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMA-LDHFVLGGLLG  181 (352)
Q Consensus       107 t~~~ll~~~~~~g~--~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~  181 (352)
                      +|+..-..+.+.|+  .+++..+++.+.+.   .| +..+|+...-++.+.|++++|++.++++ ... .+...|+....
T Consensus       108 aW~~R~~~l~~l~~~~~~~el~~~~kal~~---dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~  184 (320)
T PLN02789        108 IWHHRRWLAEKLGPDAANKELEFTRKILSL---DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYF  184 (320)
T ss_pred             HhHHHHHHHHHcCchhhHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHH
Confidence            67655444555665  36778888888753   45 7788888888899999999999999998 322 35677776665


Q ss_pred             HHHhc---CC----HHHHHHHHHHHHHhCCCCcchHHHHHHHHhhc----CChHHHHHHHHHHHhc
Q 048142          182 ACRIH---DN----LEAAERAAQQLLELLPDNGGSYVILSNRYSSS----RKWKKVKRIRELMAER  236 (352)
Q Consensus       182 ~~~~~---g~----~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~  236 (352)
                      .+...   |.    .+++.....+.....|.|...|+.+...+...    ++..+|.+.+.+..+.
T Consensus       185 vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~  250 (320)
T PLN02789        185 VITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSK  250 (320)
T ss_pred             HHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcc
Confidence            55443   22    24677777788888999999999999988773    3446687777776553

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.25  E-value=1.1e-06  Score=48.34  Aligned_cols=30  Identities=43%  Similarity=0.516  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGV  101 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  101 (352)
                      +||+||++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            688888888888888888888888887764

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.

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

Probab=98.24  E-value=0.0004  Score=62.18  Aligned_cols=220  Identities=10%  Similarity=0.016  Sum_probs=138.3

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      .+++..|..+|++..... ..+...|..-+..=.+...+..|+.+++..+..-..          -...|--.+..=-..
T Consensus        86 q~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPR----------VdqlWyKY~ymEE~L  154 (677)
T KOG1915|consen   86 QKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPR----------VDQLWYKYIYMEEML  154 (677)
T ss_pred             HHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcch----------HHHHHHHHHHHHHHh
Confidence            356778888888887644 345666666676667777788888888877764322          112444444444556


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHH
Q 048142           84 GQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEEL  163 (352)
Q Consensus        84 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  163 (352)
                      |++..|.++|++-.+  ..|+...|.+.|+.=.+-+.++.|..+++...-   +.|++.+|--....=.++|.+.-|..+
T Consensus       155 gNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~---~HP~v~~wikyarFE~k~g~~~~aR~V  229 (677)
T KOG1915|consen  155 GNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL---VHPKVSNWIKYARFEEKHGNVALARSV  229 (677)
T ss_pred             cccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe---ecccHHHHHHHHHHHHhcCcHHHHHHH
Confidence            777777777777665  577777777777777777777777777777763   457777776666666667776666666


Q ss_pred             HHhC----C-------------------------------------CCCcHHHHHHHHHHHHhcCCHHHHHHH-------
Q 048142          164 IKNM----P-------------------------------------MALDHFVLGGLLGACRIHDNLEAAERA-------  195 (352)
Q Consensus       164 ~~~m----~-------------------------------------~~p~~~~~~~li~~~~~~g~~~~a~~~-------  195 (352)
                      |+..    +                                     .......|..+..---+.|+....+..       
T Consensus       230 yerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~  309 (677)
T KOG1915|consen  230 YERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKF  309 (677)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhh
Confidence            6544    1                                     111122233333222333433222211       


Q ss_pred             -HHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCC
Q 048142          196 -AQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKK  240 (352)
Q Consensus       196 -~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  240 (352)
                       ++.+.+..|.|-.+|--.++.-...|+.+...++|++... +++|
T Consensus       310 qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIa-nvpp  354 (677)
T KOG1915|consen  310 QYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIA-NVPP  354 (677)
T ss_pred             HHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHc-cCCc
Confidence             1222233566667787888888888999999999998875 3444

>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=98.24  E-value=7.7e-05  Score=67.15  Aligned_cols=123  Identities=13%  Similarity=0.060  Sum_probs=68.6

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHH
Q 048142           31 SLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVG  110 (352)
Q Consensus        31 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  110 (352)
                      +|+..+...++++.|..+++++.+..           |+  ....|+..+...++..+|++++++.... .+-|......
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~-----------pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~  239 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD-----------PE--VAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNL  239 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC-----------Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHH
Confidence            34444455566666666666666543           22  2233555555566666666666666543 2223444444


Q ss_pred             HHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhCCCC
Q 048142          111 VLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNMPMA  170 (352)
Q Consensus       111 ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  170 (352)
                      -...|.+.++.+.|..+.+++.+   ..| +..+|..|..+|.+.|++++|+..++.+|+.
T Consensus       240 Qa~fLl~k~~~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~  297 (395)
T PF09295_consen  240 QAEFLLSKKKYELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCPML  297 (395)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCC
Confidence            44555566666666666666653   344 3346666666666666666666666666433

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

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

Probab=98.23  E-value=0.00089  Score=59.06  Aligned_cols=122  Identities=10%  Similarity=0.048  Sum_probs=79.0

Q ss_pred             HHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHH----------------------------
Q 048142          112 LVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEE----------------------------  162 (352)
Q Consensus       112 l~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~----------------------------  162 (352)
                      -..+...|++++|.-.|+...   .+.| +...|.-|+..|...|++.||.-                            
T Consensus       341 G~lL~~~~R~~~A~IaFR~Aq---~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp  417 (564)
T KOG1174|consen  341 GRLLIALERHTQAVIAFRTAQ---MLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDP  417 (564)
T ss_pred             cHHHHhccchHHHHHHHHHHH---hcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCc
Confidence            334445566666666665554   3343 55566666666666666655543                            


Q ss_pred             --------HHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHH
Q 048142          163 --------LIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIREL  232 (352)
Q Consensus       163 --------~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  232 (352)
                              ++++- ..+|+ ....+.+...+...|..+.++.++++.+...+ |...++.|.+.+.....+.+|+..|..
T Consensus       418 ~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~-D~~LH~~Lgd~~~A~Ne~Q~am~~y~~  496 (564)
T KOG1174|consen  418 RMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFP-DVNLHNHLGDIMRAQNEPQKAMEYYYK  496 (564)
T ss_pred             hhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhcc-ccHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence                    33332 35566 44556666777888888888888888766544 556888888888888888888888887


Q ss_pred             HHhcC
Q 048142          233 MAERN  237 (352)
Q Consensus       233 m~~~g  237 (352)
                      ....+
T Consensus       497 ALr~d  501 (564)
T KOG1174|consen  497 ALRQD  501 (564)
T ss_pred             HHhcC
Confidence            65543

>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=98.20  E-value=5.4e-05  Score=68.13  Aligned_cols=122  Identities=16%  Similarity=0.090  Sum_probs=100.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHh
Q 048142          108 FVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRI  185 (352)
Q Consensus       108 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~  185 (352)
                      ..+|+..+...++++.|..+++++.+.   .|+.  ...++..+...++-.+|.+++++. ...| |......-...+.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~---~pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRER---DPEV--AVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhc---CCcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            345677777789999999999999875   3554  446788888888888999998887 2233 56666666677889


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          186 HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       186 ~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      .++.+.|..+.+++.+..|.+-.+|..|..+|...|+++.|+..++.+.
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999999999999999999999999999999999988775

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

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

Probab=98.19  E-value=0.00077  Score=60.66  Aligned_cols=160  Identities=17%  Similarity=0.079  Sum_probs=121.6

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGC  146 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~  146 (352)
                      |+...+...+.+......-..+..++.+-.+.  .-...-|..-+ .+...|..++|+..++.+...   .| |+.....
T Consensus       272 ~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A~-~~~~~~~~d~A~~~l~~L~~~---~P~N~~~~~~  345 (484)
T COG4783         272 PDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGRAL-QTYLAGQYDEALKLLQPLIAA---QPDNPYYLEL  345 (484)
T ss_pred             ccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHHHH-HHHHhcccchHHHHHHHHHHh---CCCCHHHHHH
Confidence            66666777776655444333333333322221  11233344444 445689999999999998763   55 6677777


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChH
Q 048142          147 LVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWK  224 (352)
Q Consensus       147 li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  224 (352)
                      ..+.+.+.++.++|.+.++++ ...|+ ...+-++..++.+.|++.+|+++++......|.|+..|..|..+|...|+..
T Consensus       346 ~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~  425 (484)
T COG4783         346 AGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRA  425 (484)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchH
Confidence            788999999999999999998 55676 6777888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 048142          225 KVKRIRELM  233 (352)
Q Consensus       225 ~a~~~~~~m  233 (352)
                      ++.....++
T Consensus       426 ~a~~A~AE~  434 (484)
T COG4783         426 EALLARAEG  434 (484)
T ss_pred             HHHHHHHHH
Confidence            998877765

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.18  E-value=0.00024  Score=59.87  Aligned_cols=206  Identities=14%  Similarity=0.084  Sum_probs=150.4

Q ss_pred             CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048142           20 KGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR   99 (352)
Q Consensus        20 ~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~   99 (352)
                      .|+....--+.+++..+.+-.++..|++++..-.+...          ++....+.|..+|-...++..|-+.++++.. 
T Consensus         4 ~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p----------~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q-   72 (459)
T KOG4340|consen    4 SGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERSP----------RSRAGLSLLGYCYYRLQEFALAAECYEQLGQ-   72 (459)
T ss_pred             ccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcCc----------cchHHHHHHHHHHHHHHHHHHHHHHHHHHHh-
Confidence            34444444567777777888999999998887766553          4677888899999999999999999999987 


Q ss_pred             CCCCCHhHHHH-HHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH--HHHcCCHHHHHHHHHhCCCCCcHHHH
Q 048142          100 GVKPDAITFVG-VLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI--LGRAGRIAKAEELIKNMPMALDHFVL  176 (352)
Q Consensus       100 g~~p~~~t~~~-ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~p~~~~~  176 (352)
                       ..|...-|.. -...+-+++.+.+|.++...|...    |....-..-+.+  .-..+++..+..++++.+.+.+..+.
T Consensus        73 -l~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~----~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~  147 (459)
T KOG4340|consen   73 -LHPELEQYRLYQAQSLYKACIYADALRVAFLLLDN----PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQ  147 (459)
T ss_pred             -hChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCC----HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchh
Confidence             4666655542 345667788999999999888642    332221111222  23468888899999999755566666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCC
Q 048142          177 GGLLGACRIHDNLEAAERAAQQLLEL-LPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPP  242 (352)
Q Consensus       177 ~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  242 (352)
                      +.......+.|+.+.|.+-|+...+. .-.....|+..+..| +.|++..|.+...++.++|++-.|
T Consensus       148 in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HP  213 (459)
T KOG4340|consen  148 INLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHP  213 (459)
T ss_pred             ccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCC
Confidence            66666667899999999999998773 222335677666555 789999999999999999998544

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

Probab=98.17  E-value=0.0012  Score=59.23  Aligned_cols=165  Identities=12%  Similarity=0.134  Sum_probs=106.8

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHh--H---HHHH-HHH----HhccCCHHHHHHHHHHhhHhcCC
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAI--T---FVGV-LVA----CSHAGLVDERISHFNLMSEKYGI  137 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t---~~~l-l~~----~~~~g~~~~a~~~~~~m~~~~g~  137 (352)
                      -|-.+|--.+..-...|+.+...++|++.... ++|-..  .   |.-| |+.    =....+.+.+.++|+...+   +
T Consensus       320 ~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~---l  395 (677)
T KOG1915|consen  320 YNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD---L  395 (677)
T ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh---h
Confidence            35556666666666777888888888777764 555221  0   1111 111    1235667777777776664   3


Q ss_pred             CC-ChhHHHHHHHHHH----HcCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHH
Q 048142          138 RP-SIEHYGCLVYILG----RAGRIAKAEELIKNM-PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYV  211 (352)
Q Consensus       138 ~p-~~~~~~~li~~~~----~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  211 (352)
                      .| ...|+.-+=-+|+    ++.++..|.+++... |.-|-..+|...|..-.+.+++|....++++.++..|.|..+|.
T Consensus       396 IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~  475 (677)
T KOG1915|consen  396 IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWS  475 (677)
T ss_pred             cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHH
Confidence            33 4555554443443    567777788777665 77777888888887777788888888888888777777777777


Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          212 ILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       212 ~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      .....=...|+.+.|..+|+-..+.
T Consensus       476 kyaElE~~LgdtdRaRaifelAi~q  500 (677)
T KOG1915|consen  476 KYAELETSLGDTDRARAIFELAISQ  500 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhcC
Confidence            6666666667777777777665544

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

Probab=98.15  E-value=0.00011  Score=67.07  Aligned_cols=215  Identities=11%  Similarity=0.100  Sum_probs=159.4

Q ss_pred             HhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHH
Q 048142           36 CTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVA  114 (352)
Q Consensus        36 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~  114 (352)
                      +.+.|++.+|.-.|+..++...          -+...|--|......+++-..|+..+++-.+  +.|+ ......|.-.
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP----------~haeAW~~LG~~qaENE~E~~ai~AL~rcl~--LdP~NleaLmaLAVS  362 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDP----------QHAEAWQKLGITQAENENEQNAISALRRCLE--LDPTNLEALMALAVS  362 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhCh----------HHHHHHHHhhhHhhhccchHHHHHHHHHHHh--cCCccHHHHHHHHHH
Confidence            3678889999999999988765          5778999999999999999999999999887  5565 5567788888


Q ss_pred             HhccCCHHHHHHHHHHhhHhcCC------C--CChhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCcHHHHHHHHHH
Q 048142          115 CSHAGLVDERISHFNLMSEKYGI------R--PSIEHYGCLVYILGRAGRIAKAEELIKNM----PMALDHFVLGGLLGA  182 (352)
Q Consensus       115 ~~~~g~~~~a~~~~~~m~~~~g~------~--p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~li~~  182 (352)
                      |...|.-.+|...++.-.+. ..      .  ++...-+.  ..+.....+.+..++|-++    +..+|+.+...|--.
T Consensus       363 ytNeg~q~~Al~~L~~Wi~~-~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVL  439 (579)
T KOG1125|consen  363 YTNEGLQNQALKMLDKWIRN-KPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVL  439 (579)
T ss_pred             HhhhhhHHHHHHHHHHHHHh-CccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHH
Confidence            99999999999988887653 21      0  01000000  1111122234445555544    545677777778778


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcc
Q 048142          183 CRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFV  262 (352)
Q Consensus       183 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~  262 (352)
                      |-..|++++|...|+..+...|.|...||.|...++...+.++|...|.+..+  ++|.   |...-..+--.+...|.+
T Consensus       440 y~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~---yVR~RyNlgIS~mNlG~y  514 (579)
T KOG1125|consen  440 YNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPG---YVRVRYNLGISCMNLGAY  514 (579)
T ss_pred             HhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCC---eeeeehhhhhhhhhhhhH
Confidence            88899999999999999999999999999999999999999999999998865  4554   222222344446688888


Q ss_pred             cCchhhhh
Q 048142          263 PNKSEVLF  270 (352)
Q Consensus       263 ~~~~~~~~  270 (352)
                      .+|...|-
T Consensus       515 kEA~~hlL  522 (579)
T KOG1125|consen  515 KEAVKHLL  522 (579)
T ss_pred             HHHHHHHH
Confidence            88877654

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

Probab=98.13  E-value=0.001  Score=66.78  Aligned_cols=213  Identities=10%  Similarity=0.012  Sum_probs=161.7

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGD-----KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALI   77 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~-----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li   77 (352)
                      +.++.++|.+++++.... +.+.     .-.|.++++.-..-|.-+...++|+++.+.-           .....|..|.
T Consensus      1470 elsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc-----------d~~~V~~~L~ 1537 (1710)
T KOG1070|consen 1470 ELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC-----------DAYTVHLKLL 1537 (1710)
T ss_pred             hhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc-----------chHHHHHHHH
Confidence            457789999999998764 3332     3457777777666778888899999998853           1234789999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC---hhHHHHHHHHHHHc
Q 048142           78 VVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS---IEHYGCLVYILGRA  154 (352)
Q Consensus        78 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~---~~~~~~li~~~~~~  154 (352)
                      ..|.+.+..++|.++|++|.+. +.-....|...+..+.+..+-+.|..++.+..+.   -|.   .....-.++.--+.
T Consensus      1538 ~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~---lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1538 GIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS---LPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh---cchhhhHHHHHHHHHHHhhc
Confidence            9999999999999999999876 5556778999999999999999999999998753   454   33344445556689


Q ss_pred             CCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-CCC-C-cchHHHHHHHHhhcCChHHHHHH
Q 048142          155 GRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLEL-LPD-N-GGSYVILSNRYSSSRKWKKVKRI  229 (352)
Q Consensus       155 g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~-~-~~~~~~li~~~~~~g~~~~a~~~  229 (352)
                      |+.+.+..+|+.. ...| -...|+..|..-.++|+.+.+..+|++.... .++ . -..|...+..=-+.|+-+.+..+
T Consensus      1614 GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             CCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHH
Confidence            9999999999987 2122 4678999999999999999999999998774 222 2 24566666666666766655554


Q ss_pred             HH
Q 048142          230 RE  231 (352)
Q Consensus       230 ~~  231 (352)
                      -.
T Consensus      1694 Ka 1695 (1710)
T KOG1070|consen 1694 KA 1695 (1710)
T ss_pred             HH
Confidence            33

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

Probab=98.13  E-value=0.00034  Score=62.90  Aligned_cols=116  Identities=17%  Similarity=0.039  Sum_probs=82.7

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHh-HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHcCCH
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDAI-TFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRAGRI  157 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~  157 (352)
                      +...|++++|+..++.+...  .||.. -.......+.+.++.++|.+.++.+..   ..|+ ....-.+.++|.+.|+.
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all~~g~~  390 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLKGGKP  390 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHhcCCh
Confidence            34577888888888887764  44444 444566777788888888888888774   3554 55566677788888888


Q ss_pred             HHHHHHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048142          158 AKAEELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLL  200 (352)
Q Consensus       158 ~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  200 (352)
                      .+|..+++..  ...-|+..|..|..+|...|+..++.....+..
T Consensus       391 ~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         391 QEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             HHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            8888888776  223357788888888888888877777766653

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

Probab=98.11  E-value=0.00046  Score=63.35  Aligned_cols=210  Identities=12%  Similarity=0.053  Sum_probs=131.3

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHH--HHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTAL--IVV   79 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~l--i~~   79 (352)
                      ..+|++++|+.....+...+ +-|...+..=+-+..+.+.+++|+.+.+.   .+..            .+++..  =.+
T Consensus        23 ~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~~------------~~~~~~~fEKA   86 (652)
T KOG2376|consen   23 GKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NGAL------------LVINSFFFEKA   86 (652)
T ss_pred             ccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cchh------------hhcchhhHHHH
Confidence            35688888988888888765 33455666666677888888888754432   2211            122222  344


Q ss_pred             H--HhcCChHHHHHHHHHHHHcCCCCCHh-HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcC
Q 048142           80 L--AMCGQGNKALEYFYEMQIRGVKPDAI-TFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAG  155 (352)
Q Consensus        80 ~--~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g  155 (352)
                      |  .+.++.++|+..++     |..++.. +...-...|-+.|++++|..+|+.+.+. +.+- +...-..++.+    +
T Consensus        87 Yc~Yrlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn-~~dd~d~~~r~nl~a~----~  156 (652)
T KOG2376|consen   87 YCEYRLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKN-NSDDQDEERRANLLAV----A  156 (652)
T ss_pred             HHHHHcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-CCchHHHHHHHHHHHH----H
Confidence            4  46888999988887     4444443 5555567778889999999999998764 3221 22222222211    1


Q ss_pred             CHHHHHHHHHhCCCCCcHHHHHHHHH---HHHhcCCHHHHHHHHHHHHHh-----CCCCc----------chHHHHHHHH
Q 048142          156 RIAKAEELIKNMPMALDHFVLGGLLG---ACRIHDNLEAAERAAQQLLEL-----LPDNG----------GSYVILSNRY  217 (352)
Q Consensus       156 ~~~~A~~~~~~m~~~p~~~~~~~li~---~~~~~g~~~~a~~~~~~~~~~-----~~~~~----------~~~~~li~~~  217 (352)
                      .--.+. +.+..+..| ..+|..+.+   .+...|++..|+++++...+.     ...|.          ..-..|.-.+
T Consensus       157 a~l~~~-~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVl  234 (652)
T KOG2376|consen  157 AALQVQ-LLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVL  234 (652)
T ss_pred             HhhhHH-HHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHH
Confidence            111122 455556555 335554443   456789999999999987321     11111          2334556678


Q ss_pred             hhcCChHHHHHHHHHHHhcCCC
Q 048142          218 SSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       218 ~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      ...|+.++|.+++......+..
T Consensus       235 Q~~Gqt~ea~~iy~~~i~~~~~  256 (652)
T KOG2376|consen  235 QLQGQTAEASSIYVDIIKRNPA  256 (652)
T ss_pred             HHhcchHHHHHHHHHHHHhcCC
Confidence            8899999999999999887763

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

Probab=98.10  E-value=8.6e-05  Score=56.81  Aligned_cols=95  Identities=13%  Similarity=-0.006  Sum_probs=43.4

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhc
Q 048142          109 VGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIH  186 (352)
Q Consensus       109 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~  186 (352)
                      ..+...+...|++++|...++.....  .+.+...+..+...|.+.|++++|...++.. ...| +...|..+...+...
T Consensus        21 ~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        21 YALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHc
Confidence            33444444455555555555554432  1223444444445555555555555554443 2222 234444444444555


Q ss_pred             CCHHHHHHHHHHHHHhCCC
Q 048142          187 DNLEAAERAAQQLLELLPD  205 (352)
Q Consensus       187 g~~~~a~~~~~~~~~~~~~  205 (352)
                      |+.++|...++...+..|.
T Consensus        99 g~~~~A~~~~~~al~~~p~  117 (135)
T TIGR02552        99 GEPESALKALDLAIEICGE  117 (135)
T ss_pred             CCHHHHHHHHHHHHHhccc
Confidence            5555555555554444443

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

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.10  E-value=4.4e-06  Score=45.91  Aligned_cols=31  Identities=23%  Similarity=0.343  Sum_probs=25.4

Q ss_pred             chHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          208 GSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       208 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      ++|++++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3788888888888888888888888887774

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.

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

Probab=98.07  E-value=0.00035  Score=53.36  Aligned_cols=97  Identities=10%  Similarity=0.066  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      ......+...+...|++++|.+.+..+...+.          .+...|..+...|.+.|++++|...|++....+ +.+.
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p----------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~   85 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYDP----------YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDP   85 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCC----------CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCCh
Confidence            34455566666777777777777777766542          345567777777777777777777777766542 3345


Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      .++..+...+...|++++|...|+...+
T Consensus        86 ~~~~~la~~~~~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        86 RPYFHAAECLLALGEPESALKALDLAIE  113 (135)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5566666677777777777777776664

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

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

Probab=98.06  E-value=0.0013  Score=54.81  Aligned_cols=149  Identities=11%  Similarity=-0.016  Sum_probs=99.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHH---
Q 048142           77 IVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGR---  153 (352)
Q Consensus        77 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~---  153 (352)
                      ...|+..+++++|++......      +......=...+.+..+++-|...++.|.+-   . +..|.+-|..++.+   
T Consensus       115 a~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---d-ed~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---D-EDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---c-hHHHHHHHHHHHHHHhc
Confidence            355777888888888776621      2222233344456677788888888888752   2 34445545555443   


Q ss_pred             -cCCHHHHHHHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHH-HHHH
Q 048142          154 -AGRIAKAEELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKK-VKRI  229 (352)
Q Consensus       154 -~g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~  229 (352)
                       .+.+.+|.-+|++|  +..|+..+-+.+..++...|++++|+.++++.+...+.++.+...+|-.-...|.-.+ ..+.
T Consensus       185 ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~  264 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERN  264 (299)
T ss_pred             cchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHH
Confidence             45678888888888  3567788888888888888888888888888888777777777777666666665543 3455


Q ss_pred             HHHHHh
Q 048142          230 RELMAE  235 (352)
Q Consensus       230 ~~~m~~  235 (352)
                      ...++.
T Consensus       265 l~QLk~  270 (299)
T KOG3081|consen  265 LSQLKL  270 (299)
T ss_pred             HHHHHh
Confidence            555554

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

Probab=98.05  E-value=0.00051  Score=60.50  Aligned_cols=118  Identities=16%  Similarity=0.130  Sum_probs=63.3

Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHH-HHH-hhcCChH
Q 048142          149 YILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILS-NRY-SSSRKWK  224 (352)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li-~~~-~~~g~~~  224 (352)
                      .++...|++++|.--|+.. ...| +..+|..|+.+|...|...+|.-..+...+..+.+..+.+.+. ..+ ....--+
T Consensus       342 ~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rE  421 (564)
T KOG1174|consen  342 RLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMRE  421 (564)
T ss_pred             HHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHH
Confidence            4455566666666666655 2333 3566666666666666666666666665555555555554442 222 1222334


Q ss_pred             HHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhc
Q 048142          225 KVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFD  271 (352)
Q Consensus       225 ~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~  271 (352)
                      +|.+++++-    ++.+|. |.-.+..+.+.....|...|++.+++.
T Consensus       422 KAKkf~ek~----L~~~P~-Y~~AV~~~AEL~~~Eg~~~D~i~LLe~  463 (564)
T KOG1174|consen  422 KAKKFAEKS----LKINPI-YTPAVNLIAELCQVEGPTKDIIKLLEK  463 (564)
T ss_pred             HHHHHHHhh----hccCCc-cHHHHHHHHHHHHhhCccchHHHHHHH
Confidence            555555432    222221 222223344455578888888888753

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.04  E-value=0.00012  Score=52.63  Aligned_cols=81  Identities=14%  Similarity=0.136  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCHhHHHHHHHHHhccC--------CHHHHHHHHHHhhHhcCCCCChh
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGV-KPDAITFVGVLVACSHAG--------LVDERISHFNLMSEKYGIRPSIE  142 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~~~~~~g--------~~~~a~~~~~~m~~~~g~~p~~~  142 (352)
                      +-...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++...+.+|+.|... +++|+..
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~e  105 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDE  105 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHH
Confidence            345567667777999999999999999999 999999999999988643        355678899999987 8999999


Q ss_pred             HHHHHHHHHHH
Q 048142          143 HYGCLVYILGR  153 (352)
Q Consensus       143 ~~~~li~~~~~  153 (352)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            99999988765

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.04  E-value=0.00069  Score=52.58  Aligned_cols=85  Identities=12%  Similarity=0.039  Sum_probs=38.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCH--hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcC
Q 048142           78 VVLAMCGQGNKALEYFYEMQIRGVKPDA--ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAG  155 (352)
Q Consensus        78 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g  155 (352)
                      ..+...|++++|...|+........|+.  .....|...+...|++++|...++....   -......+....+.|.+.|
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~---~~~~~~~~~~~Gdi~~~~g  132 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPD---EAFKALAAELLGDIYLAQG  132 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccC---cchHHHHHHHHHHHHHHCC
Confidence            4444555555555555555554311111  1222334444455555555555544221   1223333444445555555


Q ss_pred             CHHHHHHHHH
Q 048142          156 RIAKAEELIK  165 (352)
Q Consensus       156 ~~~~A~~~~~  165 (352)
                      +.++|...|+
T Consensus       133 ~~~~A~~~y~  142 (145)
T PF09976_consen  133 DYDEARAAYQ  142 (145)
T ss_pred             CHHHHHHHHH
Confidence            5555555544

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

Probab=98.03  E-value=0.0011  Score=55.23  Aligned_cols=194  Identities=15%  Similarity=0.086  Sum_probs=120.1

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHH-HHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKAL-EYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGC  146 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~  146 (352)
                      |.....-.+-.....-++-++-+ ++.+.+.......+...-..-...|++.|++++|++..+...       +......
T Consensus        70 ~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~-------~lE~~Al  142 (299)
T KOG3081|consen   70 TPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE-------NLEAAAL  142 (299)
T ss_pred             ChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc-------hHHHHHH
Confidence            44444444444444444444333 344455554444444444444567888899999988776522       2333333


Q ss_pred             HHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCC
Q 048142          147 LVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACR----IHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRK  222 (352)
Q Consensus       147 li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  222 (352)
                      =+..+.+..+++-|...+++|..--+..|.+-|..++.    ..+.+.+|.-+|++|.+..+|++.+.+-...++...|+
T Consensus       143 ~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~  222 (299)
T KOG3081|consen  143 NVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGR  222 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcC
Confidence            34556677888889999988853345666666666554    34558888889999988888888888888888888999


Q ss_pred             hHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcc-cCchhhhhcCC
Q 048142          223 WKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFV-PNKSEVLFDMD  273 (352)
Q Consensus       223 ~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~-~~~~~~~~~~~  273 (352)
                      +++|..++++...+.-.-    ...+++-++... ..|.. +-....+..+.
T Consensus       223 ~eeAe~lL~eaL~kd~~d----petL~Nliv~a~-~~Gkd~~~~~r~l~QLk  269 (299)
T KOG3081|consen  223 YEEAESLLEEALDKDAKD----PETLANLIVLAL-HLGKDAEVTERNLSQLK  269 (299)
T ss_pred             HHHHHHHHHHHHhccCCC----HHHHHHHHHHHH-HhCCChHHHHHHHHHHH
Confidence            999999988887654431    123444444444 34444 33344554444

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.02  E-value=0.00089  Score=51.96  Aligned_cols=125  Identities=16%  Similarity=0.094  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC--hhHHH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD---AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS--IEHYG  145 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~--~~~~~  145 (352)
                      ..|..++..+. .++...+.+.++.+.... +.+   ....-.+...+...|++++|...|+..... ...|+  ....-
T Consensus        13 ~~y~~~~~~~~-~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l   89 (145)
T PF09976_consen   13 ALYEQALQALQ-AGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARL   89 (145)
T ss_pred             HHHHHHHHHHH-CCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHH
Confidence            35666666663 778888888888887752 222   122333556677788888888888888875 32222  22344


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhCCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          146 CLVYILGRAGRIAKAEELIKNMPMA-LDHFVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      .|...+...|++++|+..++..+.. .....+...-..+...|+.++|...|+.
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            4667777888888888888776322 2344555556677888888888887765

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.01  E-value=0.0008  Score=55.55  Aligned_cols=151  Identities=15%  Similarity=0.141  Sum_probs=119.8

Q ss_pred             cCChHHHHHHHHHHHH---cC-CCCCHhH-HHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCH
Q 048142           83 CGQGNKALEYFYEMQI---RG-VKPDAIT-FVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRI  157 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~---~g-~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~  157 (352)
                      ..+.++..+++.++..   .| ..|+..+ |-.++-+....|+.+.|...++.+..++  +-+..+-..-...+-..|++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhch
Confidence            4678889999888864   34 6677655 5567777788899999999999998763  22332222222235568999


Q ss_pred             HHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          158 AKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       158 ~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ++|+++++.+ ...| |.+++.--+...-..|+.-+|++-+....+.++.|...|.-+...|...|+++.|.-.++++.-
T Consensus       103 ~~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  103 KEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             hhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            9999999998 3334 5788888888888888888999999999999999999999999999999999999999999874

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

Probab=98.00  E-value=0.001  Score=65.66  Aligned_cols=181  Identities=11%  Similarity=-0.010  Sum_probs=113.5

Q ss_pred             CCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048142           22 LTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRG  100 (352)
Q Consensus        22 ~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  100 (352)
                      ..| +...+..|++.+...+++++|.++.+...+...  +.      +.  .|-.+...+.+.++.++|..+  .+... 
T Consensus        26 ~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P--~~------i~--~yy~~G~l~~q~~~~~~~~lv--~~l~~-   92 (906)
T PRK14720         26 YSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHK--KS------IS--ALYISGILSLSRRPLNDSNLL--NLIDS-   92 (906)
T ss_pred             CCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC--cc------ee--hHHHHHHHHHhhcchhhhhhh--hhhhh-
Confidence            444 566778888888888888888888886665432  21      22  222222255555555555544  22221 


Q ss_pred             CCCCH-------------------hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142          101 VKPDA-------------------ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus       101 ~~p~~-------------------~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      +..+.                   ..+..+..+|-+.|+.++|..+++++.+- . .-|+.+.|.+...|+.. ++++|.
T Consensus        93 ~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~-D-~~n~~aLNn~AY~~ae~-dL~KA~  169 (906)
T PRK14720         93 FSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKA-D-RDNPEIVKKLATSYEEE-DKEKAI  169 (906)
T ss_pred             cccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhc-C-cccHHHHHHHHHHHHHh-hHHHHH
Confidence            12222                   45556666777777777777777777753 2 22566677777777766 777776


Q ss_pred             HHHHhC---------------------CCCCc---------------------HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048142          162 ELIKNM---------------------PMALD---------------------HFVLGGLLGACRIHDNLEAAERAAQQL  199 (352)
Q Consensus       162 ~~~~~m---------------------~~~p~---------------------~~~~~~li~~~~~~g~~~~a~~~~~~~  199 (352)
                      .++.+.                     ...|+                     +.++-.+-..|....+++++..+++.+
T Consensus       170 ~m~~KAV~~~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~i  249 (906)
T PRK14720        170 TYLKKAIYRFIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKI  249 (906)
T ss_pred             HHHHHHHHHHHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHH
Confidence            665443                     11222                     223344446677788899999999999


Q ss_pred             HHhCCCCcchHHHHHHHHh
Q 048142          200 LELLPDNGGSYVILSNRYS  218 (352)
Q Consensus       200 ~~~~~~~~~~~~~li~~~~  218 (352)
                      ++..|.|.....-++..|.
T Consensus       250 L~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        250 LEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HhcCCcchhhHHHHHHHHH
Confidence            9988888888887877775

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.99  E-value=0.00018  Score=65.19  Aligned_cols=134  Identities=13%  Similarity=0.028  Sum_probs=105.2

Q ss_pred             HHHHHHH---CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHH
Q 048142           13 LFREVQH---KGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKA   89 (352)
Q Consensus        13 ~~~~m~~---~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A   89 (352)
                      ++..|.+   .+.+.+......+++.+....+++.+..++-......-..+.     +|.  |..++|+.|.+.|..+++
T Consensus        50 ~~~~l~~k~~~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~-----~~~--t~ha~vR~~l~~~~~~~~  122 (429)
T PF10037_consen   50 LYSELDKKFERKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYL-----LPS--THHALVRQCLELGAEDEL  122 (429)
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccc-----cCc--cHHHHHHHHHhcCCHHHH
Confidence            4444433   344557778888999999899999999988887764221111     022  345999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHc
Q 048142           90 LEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRA  154 (352)
Q Consensus        90 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  154 (352)
                      +++++.=...|+-||..||+.||+.+.+.|++..|.++...|... +...+..|+..-+.++.+.
T Consensus       123 l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQ-e~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  123 LELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQ-EEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHh-hccCCchHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999998886 7667777776666665555

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=97.97  E-value=0.00032  Score=56.75  Aligned_cols=88  Identities=23%  Similarity=0.189  Sum_probs=60.5

Q ss_pred             CCCCHHHHHHHHHHHhcc-----CChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC------------
Q 048142           22 LTGDKVTMVSLLLACTHL-----GALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG------------   84 (352)
Q Consensus        22 ~~p~~~t~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g------------   84 (352)
                      -..|..+|..++..+.+.     |.++-....+..|.+.|++         .|..+|+.|++.+=+..            
T Consensus        43 ~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~---------kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   43 QAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVE---------KDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             ccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCc---------ccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            356899999999999654     6788888889999999999         88899999999886522            


Q ss_pred             ----ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhcc
Q 048142           85 ----QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHA  118 (352)
Q Consensus        85 ----~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  118 (352)
                          +-+-|++++++|...|+-||..|+..|++.+++.
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~  151 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRK  151 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccc
Confidence                2233444444444444444444444444444433

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=97.97  E-value=0.0009  Score=63.34  Aligned_cols=233  Identities=16%  Similarity=0.059  Sum_probs=157.1

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH-cCCCCCc-----cccccC----CcH
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMK-KNIEVDV-----GLGMAL----KDV   70 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~~~~-----~~~~~l----~~~   70 (352)
                      |+..++.+.|++..++....+-.-+...|..|.-.+...+++.+|+.+.+.... .|.....     .+...+    .-+
T Consensus       488 ~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~~~~~~e~~l  567 (799)
T KOG4162|consen  488 YAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIELTFNDREEAL  567 (799)
T ss_pred             HHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhhhcccHHHHH
Confidence            345678899999999998876566888999888888999999999998887654 2321100     000000    111


Q ss_pred             HHHHHHHHHHHh-----------------------cCChHHHHHHHHHHH--------HcC---------CC--CCH---
Q 048142           71 MTLTALIVVLAM-----------------------CGQGNKALEYFYEMQ--------IRG---------VK--PDA---  105 (352)
Q Consensus        71 ~~~~~li~~~~~-----------------------~g~~~~A~~~~~~m~--------~~g---------~~--p~~---  105 (352)
                      .|...++...-.                       ..+..+|.+...++.        ..|         +.  |+.   
T Consensus       568 ~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~  647 (799)
T KOG4162|consen  568 DTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWY  647 (799)
T ss_pred             HHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHH
Confidence            122222222110                       011112222111110        001         11  121   


Q ss_pred             ---hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHH
Q 048142          106 ---ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLL  180 (352)
Q Consensus       106 ---~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li  180 (352)
                         ..|......+.+.+..++|...+.+..+.  .......|......+...|.+++|.+.|... -..|+ +.+-.++.
T Consensus       648 ~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~s~~Ala  725 (799)
T KOG4162|consen  648 LLQKLWLLAADLFLLSGNDDEARSCLLEASKI--DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHVPSMTALA  725 (799)
T ss_pred             HHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc--chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCcHHHHHHH
Confidence               12344556667778888888877777642  2336777777778888899999999988876 55676 77888899


Q ss_pred             HHHHhcCCHHHHHH--HHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          181 GACRIHDNLEAAER--AAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       181 ~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..+...|+...|..  ++..+.+.+|.+...|-.+...+-+.|+.++|.+.|+...+
T Consensus       726 ~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  726 ELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             HHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHh
Confidence            99999999888888  99999999999999999999999999999999999998754

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.95  E-value=0.00019  Score=51.51  Aligned_cols=81  Identities=15%  Similarity=0.122  Sum_probs=70.1

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCC-CCCccccccCCcHHHHHHHHHHHHhcC--------ChHHHHHHHHHHHH
Q 048142           28 TMVSLLLACTHLGALEVGMWLHPYIMKKNI-EVDVGLGMALKDVMTLTALIVVLAMCG--------QGNKALEYFYEMQI   98 (352)
Q Consensus        28 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~~~~~~~~~l~~~~~~~~li~~~~~~g--------~~~~A~~~~~~m~~   98 (352)
                      |-...|..|...+++...-.+|..+++.|+ .         |++.+||.++.+.++..        ++.+.+.+|+.|..
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~l---------Psv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~   97 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITL---------PSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILS   97 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCC---------CcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHH
Confidence            345677778888999999999999999999 5         89999999999988753        35678899999999


Q ss_pred             cCCCCCHhHHHHHHHHHhc
Q 048142           99 RGVKPDAITFVGVLVACSH  117 (352)
Q Consensus        99 ~g~~p~~~t~~~ll~~~~~  117 (352)
                      .+++|+..||+.++..+.+
T Consensus        98 ~~lKP~~etYnivl~~Llk  116 (120)
T PF08579_consen   98 NKLKPNDETYNIVLGSLLK  116 (120)
T ss_pred             hccCCcHHHHHHHHHHHHH
Confidence            9999999999999988764

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 [, , ].

>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=97.94  E-value=0.00016  Score=50.64  Aligned_cols=92  Identities=23%  Similarity=0.159  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcC
Q 048142          144 YGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSR  221 (352)
Q Consensus       144 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g  221 (352)
                      +..+...+...|++++|...+++. ...|+ ...+..+...+...+++++|.+.++...+..|.+..++..+...+...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            445556666777777777777765 22333 3556666667777777888888777777766666667777777777788


Q ss_pred             ChHHHHHHHHHHHh
Q 048142          222 KWKKVKRIRELMAE  235 (352)
Q Consensus       222 ~~~~a~~~~~~m~~  235 (352)
                      ++++|...+....+
T Consensus        83 ~~~~a~~~~~~~~~   96 (100)
T cd00189          83 KYEEALEAYEKALE   96 (100)
T ss_pred             hHHHHHHHHHHHHc
Confidence            88888777776654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.93  E-value=0.0028  Score=64.69  Aligned_cols=229  Identities=11%  Similarity=0.045  Sum_probs=150.2

Q ss_pred             cCCChhHHHHHHHHHHHCCC---CC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHc----CCCCCccccccCCcHHHH
Q 048142            3 EDSACEEALLLFREVQHKGL---TG--DKVTMVSLLLACTHLGALEVGMWLHPYIMKK----NIEVDVGLGMALKDVMTL   73 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~---~p--~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~~~~~~~~~l~~~~~~   73 (352)
                      ..|++++|...+++.....-   .+  ...++..+...+...|+++.|...+++....    +.. +..     .....+
T Consensus       503 ~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~-~~~-----~~~~~~  576 (903)
T PRK04841        503 CKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLE-QLP-----MHEFLL  576 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccc-ccc-----HHHHHH
Confidence            46899999999888764211   11  1234556667788899999999998886653    211 110     123445


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc--CCCCC--HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHH-----
Q 048142           74 TALIVVLAMCGQGNKALEYFYEMQIR--GVKPD--AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHY-----  144 (352)
Q Consensus        74 ~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~-----  144 (352)
                      ..+...+...|++++|...+.+....  ...|.  ..++..+.......|+.++|...+...............+     
T Consensus       577 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~  656 (903)
T PRK04841        577 RIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANAD  656 (903)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHH
Confidence            56667777889999999999887553  11222  3345556667778999999999988875421111111111     


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhCCC-C-CcH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-----C-CCcchHHH
Q 048142          145 GCLVYILGRAGRIAKAEELIKNMPM-A-LDH----FVLGGLLGACRIHDNLEAAERAAQQLLELL-----P-DNGGSYVI  212 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~~m~~-~-p~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~-~~~~~~~~  212 (352)
                      ...+..+...|+.+.|...+..... . ...    ..+..+..++...|+.++|...+++.....     + ....+...
T Consensus       657 ~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~  736 (903)
T PRK04841        657 KVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLIL  736 (903)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHH
Confidence            1122445568999999999877621 1 111    123456667889999999999999876531     1 12345667


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          213 LSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       213 li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      +..++...|+.++|...+.+..+..
T Consensus       737 la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        737 LNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            7788999999999999999887644

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.92  E-value=0.00037  Score=51.70  Aligned_cols=97  Identities=18%  Similarity=0.081  Sum_probs=42.4

Q ss_pred             HHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHHH
Q 048142          111 VLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD----HFVLGGLLGACR  184 (352)
Q Consensus       111 ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~  184 (352)
                      +...+.+.|++++|...|..+.+...-.+ ....+..+...+.+.|++++|...|+.+ ...|+    ..++..+...+.
T Consensus         8 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~   87 (119)
T TIGR02795         8 AALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQ   87 (119)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHH
Confidence            33344444455555555544443211000 1223333444455555555555555543 11111    233444444455


Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCc
Q 048142          185 IHDNLEAAERAAQQLLELLPDNG  207 (352)
Q Consensus       185 ~~g~~~~a~~~~~~~~~~~~~~~  207 (352)
                      ..|+.++|...++++.+..|.+.
T Consensus        88 ~~~~~~~A~~~~~~~~~~~p~~~  110 (119)
T TIGR02795        88 ELGDKEKAKATLQQVIKRYPGSS  110 (119)
T ss_pred             HhCChHHHHHHHHHHHHHCcCCh
Confidence            55555555555555555544443

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.89  E-value=0.01  Score=49.26  Aligned_cols=191  Identities=21%  Similarity=0.180  Sum_probs=128.7

Q ss_pred             CCChhHHHHHHHHHHH---CC-CCCCHHH-HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQH---KG-LTGDKVT-MVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIV   78 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~---~g-~~p~~~t-~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~   78 (352)
                      ..++++.++++.++..   .| ..|+..+ |-.++-+....|+.+.|...++++...-..  .      +-+.-..+|. 
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~--S------~RV~~lkam~-   95 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPG--S------KRVGKLKAML-   95 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCC--C------hhHHHHHHHH-
Confidence            4577888888888864   34 5566544 445666667788888999888888776421  1      2222222222 


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHH
Q 048142           79 VLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA  158 (352)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~  158 (352)
                       +-..|++++|+++++.+.+.. +-|.+++---+...-..|+.-+|++-+....+  .+..|...|.-+-..|...|+++
T Consensus        96 -lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~  171 (289)
T KOG3060|consen   96 -LEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFE  171 (289)
T ss_pred             -HHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHH
Confidence             334688999999999988764 44566676555555566777788887777776  46678888999999999999999


Q ss_pred             HHHHHHHhC-CCCCcH-HHHHHHHHHH---HhcCCHHHHHHHHHHHHHhCCCCc
Q 048142          159 KAEELIKNM-PMALDH-FVLGGLLGAC---RIHDNLEAAERAAQQLLELLPDNG  207 (352)
Q Consensus       159 ~A~~~~~~m-~~~p~~-~~~~~li~~~---~~~g~~~~a~~~~~~~~~~~~~~~  207 (352)
                      +|.-.++++ -.+|-. ..+..+...+   ....+.+.|.+.|.+..+..+.+.
T Consensus       172 kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~  225 (289)
T KOG3060|consen  172 KAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNL  225 (289)
T ss_pred             HHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhH
Confidence            999999887 334443 3333333332   233456777888888877766443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.84  E-value=0.0055  Score=62.63  Aligned_cols=263  Identities=14%  Similarity=-0.002  Sum_probs=161.8

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDK----VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIV   78 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~   78 (352)
                      ..|++++|...+++....--..+.    .+.+.+...+...|+++.|...+.+.....-......    ....+++.+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~----~~~~~~~~la~  539 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYH----YALWSLLQQSE  539 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchH----HHHHHHHHHHH
Confidence            468999999999987653111122    3445566667889999999999988875321111000    12345566677


Q ss_pred             HHHhcCChHHHHHHHHHHHHc----CCC--C-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhc-CCCC--ChhHHHHHH
Q 048142           79 VLAMCGQGNKALEYFYEMQIR----GVK--P-DAITFVGVLVACSHAGLVDERISHFNLMSEKY-GIRP--SIEHYGCLV  148 (352)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~~----g~~--p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-g~~p--~~~~~~~li  148 (352)
                      .+...|++++|...+++....    |..  | ....+..+...+...|++++|...+.+..... ...+  ....+..+.
T Consensus       540 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  619 (903)
T PRK04841        540 ILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLA  619 (903)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHH
Confidence            888999999999999887542    221  1 22334455556677899999999988875421 1112  233444566


Q ss_pred             HHHHHcCCHHHHHHHHHhC----CCCCcHHHH-----HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcc----hHHHHHH
Q 048142          149 YILGRAGRIAKAEELIKNM----PMALDHFVL-----GGLLGACRIHDNLEAAERAAQQLLELLPDNGG----SYVILSN  215 (352)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~m----~~~p~~~~~-----~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~li~  215 (352)
                      ..+...|+.++|.+.++..    ........+     ...+..+...|+.+.|...+.......+....    .+..+..
T Consensus       620 ~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~  699 (903)
T PRK04841        620 KISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIAR  699 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHH
Confidence            6788899999999988776    111111111     11224455688999999887765432212211    1346677


Q ss_pred             HHhhcCChHHHHHHHHHHHhc----CCCCCCceeEEEEcceeehhhhcCcccCchhhhhcC
Q 048142          216 RYSSSRKWKKVKRIRELMAER----NIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDM  272 (352)
Q Consensus       216 ~~~~~g~~~~a~~~~~~m~~~----g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~  272 (352)
                      ++...|+.++|...+++....    |..++...   ........+.+.|+..+|...+.+.
T Consensus       700 ~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~---~~~~la~a~~~~G~~~~A~~~L~~A  757 (903)
T PRK04841        700 AQILLGQFDEAEIILEELNENARSLRLMSDLNR---NLILLNQLYWQQGRKSEAQRVLLEA  757 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHH---HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            889999999999999987643    32221000   0111223456788888887776644

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.84  E-value=0.0015  Score=56.58  Aligned_cols=126  Identities=17%  Similarity=0.128  Sum_probs=62.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH-HHHHHHHH
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG-CLVYILGR  153 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~-~li~~~~~  153 (352)
                      +|.+++.-..++++.+-.++....-=...|..-| .+..+.+..|...+|.++|-.+... .++ |..+|- .|.++|.+
T Consensus       364 smAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~-~ik-n~~~Y~s~LArCyi~  440 (557)
T KOG3785|consen  364 SMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGP-EIK-NKILYKSMLARCYIR  440 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcCh-hhh-hhHHHHHHHHHHHHh
Confidence            3444444455566666666655544222222222 3555666666666666666555421 222 333443 33455666


Q ss_pred             cCCHHHHHHHHHhCCCCCcHHHHHHHH-HHHHhcCCHHHHHHHHHHHHHhC
Q 048142          154 AGRIAKAEELIKNMPMALDHFVLGGLL-GACRIHDNLEAAERAAQQLLELL  203 (352)
Q Consensus       154 ~g~~~~A~~~~~~m~~~p~~~~~~~li-~~~~~~g~~~~a~~~~~~~~~~~  203 (352)
                      ++..+-|.+++-++....+..+.--+| +-|-+.+.+--|-+.|+.+...+
T Consensus       441 nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  441 NKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             cCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence            666666666666554222333332222 34555555555555555554443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.83  E-value=0.0012  Score=50.94  Aligned_cols=96  Identities=10%  Similarity=-0.026  Sum_probs=76.2

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHh
Q 048142          141 IEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS  218 (352)
Q Consensus       141 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~  218 (352)
                      ....-.+-..+...|++++|..+|+.+ ...| +..-|-.|-..+-..|++++|+..|.......|.|+..+-.+..++.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            334445555677889999999999887 3344 46667778888888899999999999988888888889988999999


Q ss_pred             hcCChHHHHHHHHHHHhc
Q 048142          219 SSRKWKKVKRIRELMAER  236 (352)
Q Consensus       219 ~~g~~~~a~~~~~~m~~~  236 (352)
                      ..|+.+.|.+.|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999988876643

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.82  E-value=0.0037  Score=52.96  Aligned_cols=192  Identities=14%  Similarity=0.123  Sum_probs=125.2

Q ss_pred             ccCCChhHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccc--cccC--CcH------
Q 048142            2 VEDSACEEALLLFREVQHK-GLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGL--GMAL--KDV------   70 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~--~~~l--~~~------   70 (352)
                      .+.|++++|++-|....+. |.. ....||..+.- .+.|+.+.|++...+++++|+.-.+..  +...  ||+      
T Consensus       155 ykegqyEaAvqkFqaAlqvsGyq-pllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt  232 (459)
T KOG4340|consen  155 YKEGQYEAAVQKFQAALQVSGYQ-PLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNT  232 (459)
T ss_pred             eccccHHHHHHHHHHHHhhcCCC-chhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccch
Confidence            3679999999999998874 555 47788877754 577899999999999999887533222  1111  221      


Q ss_pred             ---------HHHHHHHHHHHhcCChHHHHHHHHHHHH-cCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-
Q 048142           71 ---------MTLTALIVVLAMCGQGNKALEYFYEMQI-RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-  139 (352)
Q Consensus        71 ---------~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-  139 (352)
                               ..+|.-...+.+.|+++.|.+-+-.|.- .....|++|...+.-. -..+++.++.+-+.-+.   ++.| 
T Consensus       233 ~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL---~~nPf  308 (459)
T KOG4340|consen  233 LVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLL---QQNPF  308 (459)
T ss_pred             HHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHH---hcCCC
Confidence                     2344444445678899999999888853 3356678887655422 22455666666565555   4455 


Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhCCC---C-CcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048142          140 SIEHYGCLVYILGRAGRIAKAEELIKNMPM---A-LDHFVLGGLLGACRIHDNLEAAERAAQQL  199 (352)
Q Consensus       140 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~  199 (352)
                      -..|+..++-.||++.-++-|-+++.+-+.   + .+...|+.|=..--..-..++|++-+..+
T Consensus       309 P~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~KKL~~L  372 (459)
T KOG4340|consen  309 PPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAFKKLDGL  372 (459)
T ss_pred             ChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            567899999999999999999999876521   1 23344443333223334566665554443

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

Probab=97.82  E-value=0.011  Score=51.22  Aligned_cols=223  Identities=11%  Similarity=0.028  Sum_probs=160.1

Q ss_pred             ccCCChhHHHHHHHHHHHCCCC------------CCHHHH--HHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccC
Q 048142            2 VEDSACEEALLLFREVQHKGLT------------GDKVTM--VSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL   67 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~------------p~~~t~--~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l   67 (352)
                      .+.|.+++|..=|+....+...            |-...|  ...+..+.-.|+...|++....+++..+          
T Consensus       117 lK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~----------  186 (504)
T KOG0624|consen  117 LKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQP----------  186 (504)
T ss_pred             hhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCc----------
Confidence            4679999999999999875321            111111  2233344567888889998888888554          


Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCL  147 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  147 (352)
                      .|...|-.=..+|...|++..|+.=++...+.. .-++.++--+-..+-..|+.+.++...++-.   .+.||...+-..
T Consensus       187 Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECL---KldpdHK~Cf~~  262 (504)
T KOG0624|consen  187 WDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECL---KLDPDHKLCFPF  262 (504)
T ss_pred             chhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHH---ccCcchhhHHHH
Confidence            777888888899999999999998777766542 3345566666677788899999888877776   567764332111


Q ss_pred             -------------HHHHHHcCCHHHHHHHHHhC-CCCCcH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcc
Q 048142          148 -------------VYILGRAGRIAKAEELIKNM-PMALDH-----FVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGG  208 (352)
Q Consensus       148 -------------i~~~~~~g~~~~A~~~~~~m-~~~p~~-----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  208 (352)
                                   +....+.++|.++++-.+.. ...|..     ..+..+-.++...+++.+|++...++++..|.|+.
T Consensus       263 YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~  342 (504)
T KOG0624|consen  263 YKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQ  342 (504)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHH
Confidence                         11233456777777666654 445552     23444556778889999999999999999999999


Q ss_pred             hHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          209 SYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       209 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      ++---..+|.-...+++|..-|+...+.+-
T Consensus       343 ~l~dRAeA~l~dE~YD~AI~dye~A~e~n~  372 (504)
T KOG0624|consen  343 VLCDRAEAYLGDEMYDDAIHDYEKALELNE  372 (504)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHhcCc
Confidence            998888999999999999999998876543

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.82  E-value=0.0034  Score=61.37  Aligned_cols=223  Identities=13%  Similarity=0.202  Sum_probs=142.8

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      ++-+++|..+|+...     .+....+.||.   ..+.++.|.++-+..               .....|+.+..+-.+.
T Consensus      1061 ~~LyEEAF~ifkkf~-----~n~~A~~VLie---~i~~ldRA~efAe~~---------------n~p~vWsqlakAQL~~ 1117 (1666)
T KOG0985|consen 1061 NQLYEEAFAIFKKFD-----MNVSAIQVLIE---NIGSLDRAYEFAERC---------------NEPAVWSQLAKAQLQG 1117 (1666)
T ss_pred             hhHHHHHHHHHHHhc-----ccHHHHHHHHH---HhhhHHHHHHHHHhh---------------CChHHHHHHHHHHHhc
Confidence            445677777775432     24555555553   356667776655544               2335899999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHH
Q 048142           84 GQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEEL  163 (352)
Q Consensus        84 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  163 (352)
                      |...+|++-|-+.      -|+..|.-+++...+.|.+++-.+++.-..++ .-.|...+  .||-+|++.+++.+-+++
T Consensus      1118 ~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id~--eLi~AyAkt~rl~elE~f 1188 (1666)
T KOG0985|consen 1118 GLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYIDS--ELIFAYAKTNRLTELEEF 1188 (1666)
T ss_pred             CchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccchH--HHHHHHHHhchHHHHHHH
Confidence            9999999887432      26778999999999999999999988777665 55666544  899999999999998887


Q ss_pred             HHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---------------------CCCCcchHHHHHHHHhhcCC
Q 048142          164 IKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLEL---------------------LPDNGGSYVILSNRYSSSRK  222 (352)
Q Consensus       164 ~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---------------------~~~~~~~~~~li~~~~~~g~  222 (352)
                      +.    -|+..-...+-.-|...|.++.|.-+|.....-                     ...+..||..+-.+|...+.
T Consensus      1189 i~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~E 1264 (1666)
T KOG0985|consen 1189 IA----GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKEE 1264 (1666)
T ss_pred             hc----CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchhh
Confidence            63    355555555556666666666665555433110                     11234555555555555444


Q ss_pred             hHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhc
Q 048142          223 WKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFD  271 (352)
Q Consensus       223 ~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~  271 (352)
                      +.-|       +-.|+..  ..-.-.+..++.-|...|+.++.+.+++.
T Consensus      1265 FrlA-------QiCGL~i--ivhadeLeeli~~Yq~rGyFeElIsl~Ea 1304 (1666)
T KOG0985|consen 1265 FRLA-------QICGLNI--IVHADELEELIEYYQDRGYFEELISLLEA 1304 (1666)
T ss_pred             hhHH-------HhcCceE--EEehHhHHHHHHHHHhcCcHHHHHHHHHh
Confidence            3322       2234320  00001112366667788998888887753

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.81  E-value=0.0018  Score=61.90  Aligned_cols=211  Identities=12%  Similarity=0.037  Sum_probs=127.2

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHc-CCCCCccccccC--CcHHHHHHHH
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKK-NIEVDVGLGMAL--KDVMTLTALI   77 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~l--~~~~~~~~li   77 (352)
                      |..-|+.+.|.+-.+.++      +...|..+.+.|.+..+++-|.--+..|... |...   +..+.  |+ ..=.-..
T Consensus       738 yvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRA---lR~a~q~~~-e~eakvA  807 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARA---LRRAQQNGE-EDEAKVA  807 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHH---HHHHHhCCc-chhhHHH
Confidence            345688888877765554      4678999999999999998887666665431 1100   00000  11 1111111


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCH
Q 048142           78 VVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRI  157 (352)
Q Consensus        78 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~  157 (352)
                      ..-...|.+++|..+|.+-++.         -.|=+.|...|.+++|.++-+.--+   + -=..||......+...++.
T Consensus       808 vLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DR---i-HLr~Tyy~yA~~Lear~Di  874 (1416)
T KOG3617|consen  808 VLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDR---I-HLRNTYYNYAKYLEARRDI  874 (1416)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccc---e-ehhhhHHHHHHHHHhhccH
Confidence            2224678899999999887653         3455567778999999886544321   1 1234566666667778888


Q ss_pred             HHHHHHHHhCC----------------------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC------------
Q 048142          158 AKAEELIKNMP----------------------MALDHFVLGGLLGACRIHDNLEAAERAAQQLLELL------------  203 (352)
Q Consensus       158 ~~A~~~~~~m~----------------------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~------------  203 (352)
                      +.|++.|++.+                      -..|...|.---.-+-..|+.|.|+.++....+-.            
T Consensus       875 ~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~  954 (1416)
T KOG3617|consen  875 EAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKT  954 (1416)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCc
Confidence            88888888762                      11233333333344456788888888887765420            


Q ss_pred             ---------CCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          204 ---------PDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       204 ---------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                               ..|......|.+.|-..|++.+|...|.+.+
T Consensus       955 ~kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  955 DKAARIAEESGDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             hHHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence                     1133344456666666666666666666554

>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=97.80  E-value=0.00041  Score=48.43  Aligned_cols=92  Identities=18%  Similarity=0.162  Sum_probs=58.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHH
Q 048142           73 LTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILG  152 (352)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~  152 (352)
                      |..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++...+.  ...+...+..+...+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~   79 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALEL--DPDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCcchhHHHHHHHHHH
Confidence            4556666777777777777777776542 223355666666666777777777777766542  1223345666666666


Q ss_pred             HcCCHHHHHHHHHhC
Q 048142          153 RAGRIAKAEELIKNM  167 (352)
Q Consensus       153 ~~g~~~~A~~~~~~m  167 (352)
                      ..|++++|...+...
T Consensus        80 ~~~~~~~a~~~~~~~   94 (100)
T cd00189          80 KLGKYEEALEAYEKA   94 (100)
T ss_pred             HHHhHHHHHHHHHHH
Confidence            677777776666554

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

Probab=97.78  E-value=0.011  Score=55.13  Aligned_cols=113  Identities=24%  Similarity=0.237  Sum_probs=73.0

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH------HHHHcCCHHHHHHHHHhC-CCCCcHHHH-H
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY------ILGRAGRIAKAEELIKNM-PMALDHFVL-G  177 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~------~~~~~g~~~~A~~~~~~m-~~~p~~~~~-~  177 (352)
                      ..|....-+..-.|+...|..+.++..+...-.|+...|.-...      ...++|.+++|.+.+..- +...|-..+ .
T Consensus       144 a~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e  223 (700)
T KOG1156|consen  144 ASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEE  223 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhh
Confidence            34555666666678888888888888765333466555544332      344667777777777655 111232222 2


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHh
Q 048142          178 GLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS  218 (352)
Q Consensus       178 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~  218 (352)
                      +-..-+.+.+++++|..++..++...|.+...|..+..++.
T Consensus       224 ~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lg  264 (700)
T KOG1156|consen  224 TKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALG  264 (700)
T ss_pred             hHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHH
Confidence            33345677888888888888888888888777777777765

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

Probab=97.77  E-value=0.01  Score=55.40  Aligned_cols=101  Identities=10%  Similarity=-0.026  Sum_probs=80.1

Q ss_pred             CCChh--HHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHH
Q 048142          138 RPSIE--HYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVIL  213 (352)
Q Consensus       138 ~p~~~--~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  213 (352)
                      +|...  ++-.++..|-+.|+++.|...++.. +-.|+ +.-|..-...+...|++++|...+++..+.+.+|...=.--
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKc  445 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKC  445 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHH
Confidence            34443  4445778888999999999999887 65677 45566666788889999999999999999888886554466


Q ss_pred             HHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          214 SNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       214 i~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      .....++.+.++|.++.....+.|.
T Consensus       446 AKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  446 AKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHccccHHHHHHHHHhhhccc
Confidence            6777889999999999999887775

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.76  E-value=0.00086  Score=63.26  Aligned_cols=114  Identities=18%  Similarity=0.115  Sum_probs=64.9

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHH
Q 048142           32 LLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGV  111 (352)
Q Consensus        32 li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  111 (352)
                      .+.+......|.+|..+++.+......           .--|.-+...|+..|+++.|.++|-+.-         -|+-.
T Consensus       738 aieaai~akew~kai~ildniqdqk~~-----------s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~da  797 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQKTA-----------SGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDA  797 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhccc-----------cccchHHHHHhccchhHHHHHHHHHhcc---------hhHHH
Confidence            344555666777777777766554321           1124555566677777777777665321         23445


Q ss_pred             HHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCC
Q 048142          112 LVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMP  168 (352)
Q Consensus       112 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  168 (352)
                      |..|.+.|++++|.++-.+..   |-......|-+-..-+-+.|++.+|.+++-.++
T Consensus       798 i~my~k~~kw~da~kla~e~~---~~e~t~~~yiakaedldehgkf~eaeqlyiti~  851 (1636)
T KOG3616|consen  798 IDMYGKAGKWEDAFKLAEECH---GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG  851 (1636)
T ss_pred             HHHHhccccHHHHHHHHHHhc---CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc
Confidence            666777777777766655442   434445555555555555666666666555443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.74  E-value=5.9e-05  Score=52.53  Aligned_cols=80  Identities=16%  Similarity=0.108  Sum_probs=35.4

Q ss_pred             CCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcH-HHHHHHHHHHHhcCCHHHHHHHHH
Q 048142          119 GLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDH-FVLGGLLGACRIHDNLEAAERAAQ  197 (352)
Q Consensus       119 g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~  197 (352)
                      |+++.|..+++++.+.....|+...+-.+..+|.+.|++++|..++++.+..|+. ...-.+..++...|++++|+..++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l~   82 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKALE   82 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHHh
Confidence            4555555555555543111112233333455555555555555555553222221 222223344555555555555554


Q ss_pred             H
Q 048142          198 Q  198 (352)
Q Consensus       198 ~  198 (352)
                      +
T Consensus        83 ~   83 (84)
T PF12895_consen   83 K   83 (84)
T ss_dssp             H
T ss_pred             c
Confidence            3

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.72  E-value=0.0022  Score=55.69  Aligned_cols=143  Identities=12%  Similarity=0.101  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRG-VKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      .+|-.++...-+.+..+.|..+|.+..+.+ +..+.+...+++. +...++.+.|..+|+...+.  +..+...|...++
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            478899999999999999999999998543 2333333344443 33357788899999999985  4456777889999


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHH
Q 048142          150 ILGRAGRIAKAEELIKNM-PMALD----HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY  217 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~  217 (352)
                      .+.+.|+.+.|..+|++. ..-|.    ...|...+.--.+.|+.+....+.+++.+..+.+. ....+++-|
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~-~~~~f~~ry  150 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN-SLELFSDRY  150 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS--HHHHHHCCT
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh-HHHHHHHHh
Confidence            999999999999999987 22333    35999999999999999999999999988766643 444455444

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.71  E-value=0.0012  Score=48.87  Aligned_cols=96  Identities=16%  Similarity=0.073  Sum_probs=79.1

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC---cchHHHH
Q 048142          142 EHYGCLVYILGRAGRIAKAEELIKNM-PMALD----HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN---GGSYVIL  213 (352)
Q Consensus       142 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~l  213 (352)
                      .++..+...+.+.|++++|...|+.+ ...|+    ...+..+...+...|+++.|...++.+....|.+   ...+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            34567788889999999999999988 22333    3566678889999999999999999998866553   4567888


Q ss_pred             HHHHhhcCChHHHHHHHHHHHhcC
Q 048142          214 SNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       214 i~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ..++.+.|+.++|.+.++++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            889999999999999999998774

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.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.65  E-value=0.00013  Score=50.82  Aligned_cols=81  Identities=14%  Similarity=0.107  Sum_probs=60.4

Q ss_pred             CCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            4 DSACEEALLLFREVQHKGL-TGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~-~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      .|+++.|+.+|+++..... .|+...+..+..++.+.|++++|..+++. .+.+.          .+....-.+..+|.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~----------~~~~~~~l~a~~~~~   70 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP----------SNPDIHYLLARCLLK   70 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH----------CHHHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC----------CCHHHHHHHHHHHHH
Confidence            6899999999999998643 12455566689999999999999999988 33222          232344455788999


Q ss_pred             cCChHHHHHHHHH
Q 048142           83 CGQGNKALEYFYE   95 (352)
Q Consensus        83 ~g~~~~A~~~~~~   95 (352)
                      .|++++|+++|++
T Consensus        71 l~~y~eAi~~l~~   83 (84)
T PF12895_consen   71 LGKYEEAIKALEK   83 (84)
T ss_dssp             TT-HHHHHHHHHH
T ss_pred             hCCHHHHHHHHhc
Confidence            9999999999876

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.64  E-value=0.00044  Score=62.69  Aligned_cols=105  Identities=18%  Similarity=0.103  Sum_probs=89.0

Q ss_pred             CChhHHHHHHHHHHHC--CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            5 SACEEALLLFREVQHK--GLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~--g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      .+++++..++.+.+..  ....-..|.+++|..|.+.|..+.+..++..=...|+=         ||..++|.||..+.+
T Consensus        80 ~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF---------~D~~s~n~Lmd~fl~  150 (429)
T PF10037_consen   80 DDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIF---------PDNFSFNLLMDHFLK  150 (429)
T ss_pred             hHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccC---------CChhhHHHHHHHHhh
Confidence            4567788888777764  22233456689999999999999999999998889987         888999999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhcc
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHA  118 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  118 (352)
                      .|++..|.++..+|...+...+..|+...+.+|.+-
T Consensus       151 ~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  151 KGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             cccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999888888888888888777665

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 [].

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.63  E-value=0.0021  Score=60.74  Aligned_cols=187  Identities=14%  Similarity=0.167  Sum_probs=118.3

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC
Q 048142            5 SACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG   84 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g   84 (352)
                      ..+.+|+.+++.++...  ....-|.-+.+-|+..|+++.|.++|-+.   +               .++--|..|.++|
T Consensus       746 kew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---~---------------~~~dai~my~k~~  805 (1636)
T KOG3616|consen  746 KEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---D---------------LFKDAIDMYGKAG  805 (1636)
T ss_pred             hhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---c---------------hhHHHHHHHhccc
Confidence            44566666666665432  12233556667778888888887777543   1               3566677788888


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHH
Q 048142           85 QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELI  164 (352)
Q Consensus        85 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  164 (352)
                      ++++|.++-.+.  .|.......|.+-..-+-+.|++.+|.++|-.+.     .|+.     -|.+|-+.|..++.+++.
T Consensus       806 kw~da~kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~-----~p~~-----aiqmydk~~~~ddmirlv  873 (1636)
T KOG3616|consen  806 KWEDAFKLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG-----EPDK-----AIQMYDKHGLDDDMIRLV  873 (1636)
T ss_pred             cHHHHHHHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc-----CchH-----HHHHHHhhCcchHHHHHH
Confidence            888887776543  2334445556666666667777777777664432     3443     467788888888888887


Q ss_pred             HhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHH
Q 048142          165 KNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       165 ~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      ++-.-..-..|-..+..-+-..|++..|+.-|-+.        .-|.+-+++|-..+-|++|.++-+
T Consensus       874 ~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~flea--------~d~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  874 EKHHGDHLHDTHKHFAKELEAEGDLKAAEEHFLEA--------GDFKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             HHhChhhhhHHHHHHHHHHHhccChhHHHHHHHhh--------hhHHHHHHHhhhhhhHHHHHHHHh
Confidence            76621111344555666677777777777766554        235666778888888888877654

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

Probab=97.60  E-value=0.037  Score=51.90  Aligned_cols=228  Identities=14%  Similarity=0.131  Sum_probs=144.5

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC------CCCccccccC----------
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNI------EVDVGLGMAL----------   67 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~------~~~~~~~~~l----------   67 (352)
                      .|-++-+++++++-.+.  .|  ..-+--|.-+++.+++++|-+.+...+....      +.+--.+..+          
T Consensus       151 ~~lPets~rvyrRYLk~--~P--~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~  226 (835)
T KOG2047|consen  151 HGLPETSIRVYRRYLKV--AP--EAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDK  226 (835)
T ss_pred             CCChHHHHHHHHHHHhc--CH--HHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcch
Confidence            46677788888887763  34  3345667777888888888777766553211      0000000000          


Q ss_pred             -----------------CcH--HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc-----------
Q 048142           68 -----------------KDV--MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSH-----------  117 (352)
Q Consensus        68 -----------------~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~-----------  117 (352)
                                       +|.  ..|++|...|.+.|.+++|.++|++....-  .+..-|+.+.++|+.           
T Consensus       227 ~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me  304 (835)
T KOG2047|consen  227 VQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKME  304 (835)
T ss_pred             hcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHh
Confidence                             333  469999999999999999999999877642  233334444444431           


Q ss_pred             -------------------------------------------------------cCCHHHHHHHHHHhhHhcCCCCC--
Q 048142          118 -------------------------------------------------------AGLVDERISHFNLMSEKYGIRPS--  140 (352)
Q Consensus       118 -------------------------------------------------------~g~~~~a~~~~~~m~~~~g~~p~--  140 (352)
                                                                             .|+..+-...|.+..+  .+.|.  
T Consensus       305 ~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~--~vdP~ka  382 (835)
T KOG2047|consen  305 LADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVK--TVDPKKA  382 (835)
T ss_pred             hhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHH--ccCcccC
Confidence                                                                   1233333344444433  23332  


Q ss_pred             ----hhHHHHHHHHHHHcCCHHHHHHHHHhC---CCCC--c-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--------
Q 048142          141 ----IEHYGCLVYILGRAGRIAKAEELIKNM---PMAL--D-HFVLGGLLGACRIHDNLEAAERAAQQLLEL--------  202 (352)
Q Consensus       141 ----~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p--~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--------  202 (352)
                          ...|-.+.+.|-.+|+++.|..+|++.   +.+-  | ..+|..-...-.++.+++.|.++.+...-.        
T Consensus       383 ~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~  462 (835)
T KOG2047|consen  383 VGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEY  462 (835)
T ss_pred             CCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhh
Confidence                234666777888999999999999987   2211  1 456776677777888899998887775432        


Q ss_pred             ----CCC------CcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCC
Q 048142          203 ----LPD------NGGSYVILSNRYSSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       203 ----~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                          .|+      +...|...++.--..|-++....+|+++.+..+.
T Consensus       463 yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria  509 (835)
T KOG2047|consen  463 YDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA  509 (835)
T ss_pred             hcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC
Confidence                111      2345666677777778888888888888776554

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.60  E-value=0.0016  Score=58.67  Aligned_cols=84  Identities=8%  Similarity=-0.085  Sum_probs=37.3

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      .|++++|++.|++..... +-+...|..+..++.+.|++++|...++++++...          .+...|..+..+|...
T Consensus        15 ~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P----------~~~~a~~~lg~~~~~l   83 (356)
T PLN03088         15 DDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDP----------SLAKAYLRKGTACMKL   83 (356)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc----------CCHHHHHHHHHHHHHh
Confidence            344445555554444421 11333444444444444555555444444444321          2233444444444444


Q ss_pred             CChHHHHHHHHHHHH
Q 048142           84 GQGNKALEYFYEMQI   98 (352)
Q Consensus        84 g~~~~A~~~~~~m~~   98 (352)
                      |++++|+..|++..+
T Consensus        84 g~~~eA~~~~~~al~   98 (356)
T PLN03088         84 EEYQTAKAALEKGAS   98 (356)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555554444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.60  E-value=0.0069  Score=48.45  Aligned_cols=87  Identities=15%  Similarity=0.128  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCC-cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALK-DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP-  103 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-  103 (352)
                      ...+..+...+...|++++|...|++..+....+        + ....|..+...+.+.|++++|...+++....  .| 
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~--------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~  104 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDP--------NDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPK  104 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcc--------chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--Ccc
Confidence            3456667777777888888888888877654321        2 1356777778888888888888888877764  33 


Q ss_pred             CHhHHHHHHHHHhccCCHH
Q 048142          104 DAITFVGVLVACSHAGLVD  122 (352)
Q Consensus       104 ~~~t~~~ll~~~~~~g~~~  122 (352)
                      +...+..+...+...|+..
T Consensus       105 ~~~~~~~lg~~~~~~g~~~  123 (172)
T PRK02603        105 QPSALNNIAVIYHKRGEKA  123 (172)
T ss_pred             cHHHHHHHHHHHHHcCChH
Confidence            3445555666666666543

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

Probab=97.60  E-value=0.015  Score=53.89  Aligned_cols=226  Identities=14%  Similarity=0.109  Sum_probs=139.8

Q ss_pred             ccCCChhHHHHHHHHHHHCC-------------CCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccc---c
Q 048142            2 VEDSACEEALLLFREVQHKG-------------LTGDK-VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGL---G   64 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g-------------~~p~~-~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~---~   64 (352)
                      ...|++.+|+++++...+.+             +.-.. ..-.-+...+-..|+-++|..++...++......+..   .
T Consensus       186 i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~D~~~~Av~~  265 (652)
T KOG2376|consen  186 IENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNPADEPSLAVAV  265 (652)
T ss_pred             HhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCCCchHHHHHh
Confidence            45789999999998883211             11111 1123355566788999999999999888765432111   1


Q ss_pred             ccC---------------------------------------------------------------------CcHHHHHH
Q 048142           65 MAL---------------------------------------------------------------------KDVMTLTA   75 (352)
Q Consensus        65 ~~l---------------------------------------------------------------------~~~~~~~~   75 (352)
                      |-+                                                                     |....=+.
T Consensus       266 NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~a~lp~~~p~~~~~~l  345 (652)
T KOG2376|consen  266 NNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELSASLPGMSPESLFPIL  345 (652)
T ss_pred             cchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhCCccCchHHHHHH
Confidence            111                                                                     33333333


Q ss_pred             HHHHHHh-cCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHH--------HhhHhcCCCCChhHHH
Q 048142           76 LIVVLAM-CGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFN--------LMSEKYGIRPSIEHYG  145 (352)
Q Consensus        76 li~~~~~-~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~--------~m~~~~g~~p~~~~~~  145 (352)
                      +..++-. ...+.+|.+++...-+. .+-+ ...--.++......|+++.|.+++.        .+.+- +..|.  +..
T Consensus       346 l~~~t~~~~~~~~ka~e~L~~~~~~-~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~-~~~P~--~V~  421 (652)
T KOG2376|consen  346 LQEATKVREKKHKKAIELLLQFADG-HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEA-KHLPG--TVG  421 (652)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHhcc-CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhh-ccChh--HHH
Confidence            3333322 22466777777666553 2222 3344456666778899999998888        44432 44444  455


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC--------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHH
Q 048142          146 CLVYILGRAGRIAKAEELIKNM--------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNR  216 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m--------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~  216 (352)
                      +++..|.+.++-+.|..++.+.        ...+. ..+|.-+..--.++|+.++|..+++++.+..|+|..+...++.+
T Consensus       422 aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~~~l~~lV~a  501 (652)
T KOG2376|consen  422 AIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDTDLLVQLVTA  501 (652)
T ss_pred             HHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchHHHHHHHHHH
Confidence            6777888888777777776654        11111 22333333444577999999999999999899999999999999


Q ss_pred             HhhcCChHHHHHHHHH
Q 048142          217 YSSSRKWKKVKRIREL  232 (352)
Q Consensus       217 ~~~~g~~~~a~~~~~~  232 (352)
                      |++. +.+.|..+-..
T Consensus       502 ~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  502 YARL-DPEKAESLSKK  516 (652)
T ss_pred             HHhc-CHHHHHHHhhc
Confidence            8764 45666655443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.59  E-value=0.0012  Score=57.42  Aligned_cols=131  Identities=10%  Similarity=0.032  Sum_probs=99.8

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHh
Q 048142           27 VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAI  106 (352)
Q Consensus        27 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  106 (352)
                      .+|..++...-+.+..+.|+.+|.+..+.+...        ..+....+++..+ -.++.+.|..+|+...+. +..+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~--------~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~-f~~~~~   71 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCT--------YHVYVAYALMEYY-CNKDPKRARKIFERGLKK-FPSDPD   71 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS---------THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH-HTT-HH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCC--------HHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCCHH
Confidence            578899999999999999999999998654210        4445555555443 356777899999999876 666777


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142          107 TFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       107 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      .|..-++.+.+.++.+.|..+|++......-.. ....|...++.=.+.|+++.+..+.+++
T Consensus        72 ~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~  133 (280)
T PF05843_consen   72 FWLEYLDFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRA  133 (280)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            888889999999999999999999986422222 3358999999999999999999998877

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.

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

Probab=97.56  E-value=0.007  Score=56.50  Aligned_cols=224  Identities=12%  Similarity=0.146  Sum_probs=123.8

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH------hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA------ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-  140 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~------~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-  140 (352)
                      .++..|..-+..+  .|+..+-...|.+..+. +.|-.      ..|..+.+.|-..|+++.|..+|++..+. ..+-- 
T Consensus       347 ~nV~eW~kRV~l~--e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V-~y~~v~  422 (835)
T KOG2047|consen  347 HNVEEWHKRVKLY--EGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKV-PYKTVE  422 (835)
T ss_pred             ccHHHHHhhhhhh--cCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcC-CccchH
Confidence            3444554444332  45666777777776654 44422      23666677777788888888888877653 22211 


Q ss_pred             --hhHHHHHHHHHHHcCCHHHHHHHHHhC---CCC-----------------CcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          141 --IEHYGCLVYILGRAGRIAKAEELIKNM---PMA-----------------LDHFVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       141 --~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~-----------------p~~~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                        ..+|-....+=.+..+++.|+.+++..   |-.                 .+...|...+...-..|-++....++++
T Consensus       423 dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdr  502 (835)
T KOG2047|consen  423 DLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDR  502 (835)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence              234444445555667777787777765   211                 1223444444444444555555555555


Q ss_pred             HHHh----------------------------------CC-CC-cchHHHHHHHHh---hcCChHHHHHHHHHHHhcCCC
Q 048142          199 LLEL----------------------------------LP-DN-GGSYVILSNRYS---SSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       199 ~~~~----------------------------------~~-~~-~~~~~~li~~~~---~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      +.+.                                  .+ |+ ...|++.+.-+.   ...+++.|..+|++..+ |.+
T Consensus       503 iidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cp  581 (835)
T KOG2047|consen  503 IIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCP  581 (835)
T ss_pred             HHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCC
Confidence            4432                                  21 11 134444444332   23468999999999988 776


Q ss_pred             CCCceeEEEEcceeehhhhcCcccCchhhhhcCC----HHHHhhhhhhhhHHHHHHHhhhCCC
Q 048142          240 KPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMD----EEEKETALNLHTEKLAITFGLVSPM  298 (352)
Q Consensus       240 p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~  298 (352)
                      |...-+..+.-+.++.  +-|....++.+++...    ...+..+...+-.+.+..||+..+.
T Consensus       582 p~~aKtiyLlYA~lEE--e~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR  642 (835)
T KOG2047|consen  582 PEHAKTIYLLYAKLEE--EHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTR  642 (835)
T ss_pred             HHHHHHHHHHHHHHHH--HhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccH
Confidence            6533332222221111  4588888888887543    2333344556667777778776554

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

Probab=97.55  E-value=0.02  Score=54.65  Aligned_cols=209  Identities=17%  Similarity=0.154  Sum_probs=148.2

Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHH
Q 048142           14 FREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYF   93 (352)
Q Consensus        14 ~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~   93 (352)
                      ++++....+.-|...|-.|.-+....|+++.+-+.|++....-+          .....|+.+-..|...|.-..|..++
T Consensus       311 ~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~----------~~~e~w~~~als~saag~~s~Av~ll  380 (799)
T KOG4162|consen  311 LRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF----------GEHERWYQLALSYSAAGSDSKAVNLL  380 (799)
T ss_pred             HHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh----------hhHHHHHHHHHHHHHhccchHHHHHH
Confidence            34444445666889999999999999999999999999876544          34468999999999999999999999


Q ss_pred             HHHHHcCCCCCHh-HHHHHHHHHh-ccCCHHHHHHHHHHhhHhcCCC---CChhHHHHHHHHHHHc-----------CCH
Q 048142           94 YEMQIRGVKPDAI-TFVGVLVACS-HAGLVDERISHFNLMSEKYGIR---PSIEHYGCLVYILGRA-----------GRI  157 (352)
Q Consensus        94 ~~m~~~g~~p~~~-t~~~ll~~~~-~~g~~~~a~~~~~~m~~~~g~~---p~~~~~~~li~~~~~~-----------g~~  157 (352)
                      ++-....-.|+.. .+...-..|. +.+..+++..+-.+....++-.   ..+..|-.+.-+|...           ...
T Consensus       381 ~~~~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h  460 (799)
T KOG4162|consen  381 RESLKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALH  460 (799)
T ss_pred             HhhcccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHH
Confidence            8765543235433 3433334443 4677888887777766532221   2344555555555532           124


Q ss_pred             HHHHHHHHhC----CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcchHHHHHHHHhhcCChHHHHHHHHH
Q 048142          158 AKAEELIKNM----PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLEL-LPDNGGSYVILSNRYSSSRKWKKVKRIREL  232 (352)
Q Consensus       158 ~~A~~~~~~m----~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  232 (352)
                      .++++.+++.    +..|++.-|-++-  |+..++++.|.+..++..+. ...++..|..|.-.+...+++.+|..+.+.
T Consensus       461 ~kslqale~av~~d~~dp~~if~lalq--~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~  538 (799)
T KOG4162|consen  461 KKSLQALEEAVQFDPTDPLVIFYLALQ--YAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDA  538 (799)
T ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHH--HHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            4566666665    4556666664444  55667899999999999886 667788899999999999999999999876


Q ss_pred             HH
Q 048142          233 MA  234 (352)
Q Consensus       233 m~  234 (352)
                      ..
T Consensus       539 al  540 (799)
T KOG4162|consen  539 AL  540 (799)
T ss_pred             HH
Confidence            54

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.55  E-value=0.0037  Score=50.00  Aligned_cols=130  Identities=16%  Similarity=0.181  Sum_probs=83.6

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD--AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHY  144 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~  144 (352)
                      .....|..+...|...|++++|+..|++.......|.  ...+..+...+.+.|++++|...+.+..+.   .| +...+
T Consensus        33 ~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~  109 (172)
T PRK02603         33 KEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL---NPKQPSAL  109 (172)
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHH
Confidence            4555677778888888888888888888876433322  356777788888888888888888887753   34 45556


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcC
Q 048142          145 GCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSR  221 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g  221 (352)
                      ..+...|...|+...+..-++..                  ...+++|.+++++..+..|.+   |..++..+...|
T Consensus       110 ~~lg~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~  165 (172)
T PRK02603        110 NNIAVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTG  165 (172)
T ss_pred             HHHHHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcC
Confidence            66666777766655544332211                  012566777777776665554   545555554444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.52  E-value=0.0062  Score=47.13  Aligned_cols=100  Identities=7%  Similarity=-0.102  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      ......+-..+...|++++|..+|+.+.....          .+..-|-.|..++-..|++++|++.|........ -|+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp----------~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp  103 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDA----------WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAP  103 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc----------ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCc
Confidence            44555666667889999999999999888654          4666788888888899999999999998887642 356


Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcC
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYG  136 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g  136 (352)
                      ..+-.+-.++...|+.+.|.+.|+......+
T Consensus       104 ~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~~~  134 (157)
T PRK15363        104 QAPWAAAECYLACDNVCYAIKALKAVVRICG  134 (157)
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHHHHHhc
Confidence            7788888889999999999999988876533

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.49  E-value=0.0064  Score=57.38  Aligned_cols=60  Identities=13%  Similarity=0.070  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          174 FVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       174 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      ..|..+.-.....|++++|...+++..+..| +...|..+...+...|+.++|.+.+++..
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~  480 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAF  480 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444443333344555555555555444443 34444555555555555555555554443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.45  E-value=0.068  Score=49.21  Aligned_cols=206  Identities=12%  Similarity=0.092  Sum_probs=140.1

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc-cC--ChHHHHHHHHHHHHc-CCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            8 EEALLLFREVQHKGLTGDKVTMVSLLLACTH-LG--ALEVGMWLHPYIMKK-NIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         8 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~-~g--~~~~a~~~~~~m~~~-g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      +++.++++.....-..-+..+|..+.+-=-. .+  ..+....+++++... ..+         |+ .+|..+|+.-.+.
T Consensus       310 ~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~---------~t-Lv~~~~mn~irR~  379 (656)
T KOG1914|consen  310 DEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDID---------LT-LVYCQYMNFIRRA  379 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccC---------Cc-eehhHHHHHHHHh
Confidence            4555555555443222234444433322111 11  245556666666553 233         22 3788899988888


Q ss_pred             CChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHH
Q 048142           84 GQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        84 g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      .-++.|..+|.+..+.+..+ +...+++++..+| .++.+.|.++|+-=.+.+|-.  +.--...++.+...++-..|..
T Consensus       380 eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf~d~--p~yv~~YldfL~~lNdd~N~R~  456 (656)
T KOG1914|consen  380 EGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKFGDS--PEYVLKYLDFLSHLNDDNNARA  456 (656)
T ss_pred             hhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhcCCC--hHHHHHHHHHHHHhCcchhHHH
Confidence            88999999999999998888 7778888888777 568889999998877654433  3334567888888999999999


Q ss_pred             HHHhC---CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC----CCcchHHHHHHHHhhcCChHHH
Q 048142          163 LIKNM---PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLP----DNGGSYVILSNRYSSSRKWKKV  226 (352)
Q Consensus       163 ~~~~m---~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a  226 (352)
                      +|++.   +..||  ..+|..+|.--..-|+...+.++-+++....|    +....-..+++.|.-.+....-
T Consensus       457 LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~  529 (656)
T KOG1914|consen  457 LFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCS  529 (656)
T ss_pred             HHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhccccccc
Confidence            99987   22333  68999999999999999999999888766544    2223445666777666655433

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.45  E-value=0.056  Score=47.17  Aligned_cols=195  Identities=11%  Similarity=0.054  Sum_probs=125.3

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHH-HHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVS-LLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~-li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.++..|..+++.-...+-+-.. ..+. +..++...|++++|...+..+.+..-          ++...|-.|.-++.
T Consensus        34 s~rDytGAislLefk~~~~~EEE~-~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~----------~~~el~vnLAcc~F  102 (557)
T KOG3785|consen   34 SNRDYTGAISLLEFKLNLDREEED-SLQLWIAHCYFHLGDYEEALNVYTFLMNKDD----------APAELGVNLACCKF  102 (557)
T ss_pred             hcccchhHHHHHHHhhccchhhhH-HHHHHHHHHHHhhccHHHHHHHHHHHhccCC----------CCcccchhHHHHHH
Confidence            356777888877665543322222 2233 34455788999999998888776432          55566777777777


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      -.|.+.+|..+-.+.     +-++..-..|+..--+.++-++-..+.+.+...      ..---+|....-..-.+.+|.
T Consensus       103 yLg~Y~eA~~~~~ka-----~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~------~EdqLSLAsvhYmR~HYQeAI  171 (557)
T KOG3785|consen  103 YLGQYIEAKSIAEKA-----PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT------LEDQLSLASVHYMRMHYQEAI  171 (557)
T ss_pred             HHHHHHHHHHHHhhC-----CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh------HHHHHhHHHHHHHHHHHHHHH
Confidence            788888887765432     223444455666666777777777666666542      122223444433344799999


Q ss_pred             HHHHhC-CCCCcHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh
Q 048142          162 ELIKNM-PMALDHFVLGGLLG-ACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS  219 (352)
Q Consensus       162 ~~~~~m-~~~p~~~~~~~li~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~  219 (352)
                      +++++. ...|.....|..+. +|.+..-++-+.++++-.++..|+++..-|.......+
T Consensus       172 dvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fR  231 (557)
T KOG3785|consen  172 DVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFR  231 (557)
T ss_pred             HHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhh
Confidence            999987 44566666665554 56677778899999998888888877766655544443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.44  E-value=0.0089  Score=56.42  Aligned_cols=134  Identities=14%  Similarity=0.020  Sum_probs=69.4

Q ss_pred             CCCCCHHHHHHHHHHHhccC-----ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC--------ChH
Q 048142           21 GLTGDKVTMVSLLLACTHLG-----ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG--------QGN   87 (352)
Q Consensus        21 g~~p~~~t~~~li~~~~~~g-----~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g--------~~~   87 (352)
                      +.+.|...|...+.+.....     +...|..+|++..+...          -....|..+..+|....        +..
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP----------~~a~a~A~la~~~~~~~~~~~~~~~~l~  401 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEP----------DFTYAQAEKALADIVRHSQQPLDEKQLA  401 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCC----------CcHHHHHHHHHHHHHHHhcCCccHHHHH
Confidence            34567889999888864432     36789999999998653          23344555444332211        112


Q ss_pred             HHHHHHHHHHHc-CCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHh
Q 048142           88 KALEYFYEMQIR-GVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKN  166 (352)
Q Consensus        88 ~A~~~~~~m~~~-g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  166 (352)
                      .+.+...+.... ....+...|..+.-.....|++++|...+++...   +.|+...|..+...+...|+.++|.+.+++
T Consensus       402 ~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~---L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~  478 (517)
T PRK10153        402 ALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAID---LEMSWLNYVLLGKVYELKGDNRLAADAYST  478 (517)
T ss_pred             HHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            222222222211 1222334444443333344555555555555543   234555555555555555555555555554


Q ss_pred             C
Q 048142          167 M  167 (352)
Q Consensus       167 m  167 (352)
                      .
T Consensus       479 A  479 (517)
T PRK10153        479 A  479 (517)
T ss_pred             H
Confidence            3

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.44  E-value=0.0026  Score=50.72  Aligned_cols=94  Identities=12%  Similarity=-0.071  Sum_probs=67.0

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHH
Q 048142          140 SIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD----HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILS  214 (352)
Q Consensus       140 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li  214 (352)
                      ....|..+...+...|++++|...|++. ...|+    ..+|..+...+...|+.++|...++......|....++..+.
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la  113 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHH
Confidence            3455666667777778888888887776 22222    346777778888888888888888888777777777777777


Q ss_pred             HHHh-------hcCChHHHHHHHHHH
Q 048142          215 NRYS-------SSRKWKKVKRIRELM  233 (352)
Q Consensus       215 ~~~~-------~~g~~~~a~~~~~~m  233 (352)
                      ..+.       ..|+++.|...+++-
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            7776       777887666666543

>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=97.43  E-value=0.00075  Score=44.80  Aligned_cols=64  Identities=17%  Similarity=0.098  Sum_probs=54.0

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcC-ChHHHHHHHHHHHh
Q 048142          172 DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSR-KWKKVKRIRELMAE  235 (352)
Q Consensus       172 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~  235 (352)
                      ++.+|..+...+...|++++|+..|++..+..|.++..|..+..+|...| ++++|.+.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            45678888888888899999999999988888888888888888888888 68888888887654

...

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.42  E-value=0.0077  Score=57.85  Aligned_cols=162  Identities=17%  Similarity=0.102  Sum_probs=94.6

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC
Q 048142            5 SACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG   84 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g   84 (352)
                      |.+++|+.+|++-++.         ..|=..|...|.|++|.++-+.=-+--+            -.||-.....+-..+
T Consensus       814 gMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHL------------r~Tyy~yA~~Lear~  872 (1416)
T KOG3617|consen  814 GMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHL------------RNTYYNYAKYLEARR  872 (1416)
T ss_pred             hhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceeh------------hhhHHHHHHHHHhhc
Confidence            4555666666555442         2222334556666666665443222111            135555556666667


Q ss_pred             ChHHHHHHHHHHH----------HcC---------CCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH
Q 048142           85 QGNKALEYFYEMQ----------IRG---------VKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG  145 (352)
Q Consensus        85 ~~~~A~~~~~~m~----------~~g---------~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~  145 (352)
                      +.+.|++.|++-.          ...         -.-|...|.---..+-..|+.+.|+.+|...+.          |-
T Consensus       873 Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D----------~f  942 (1416)
T KOG3617|consen  873 DIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD----------YF  942 (1416)
T ss_pred             cHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh----------hh
Confidence            7777777776431          110         012333333344444557777777777776653          55


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048142          146 CLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLL  200 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  200 (352)
                      ++++..|-.|+.++|-++-++-|   |....-.|.+.|-..|++.+|..+|.+..
T Consensus       943 s~VrI~C~qGk~~kAa~iA~esg---d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  943 SMVRIKCIQGKTDKAARIAEESG---DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             hheeeEeeccCchHHHHHHHhcc---cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            66666777777777777777665   54555567777888888888888877754

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.40  E-value=0.0086  Score=47.68  Aligned_cols=95  Identities=17%  Similarity=0.152  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      ...|..+...+...|++++|...+++.......+.       ....+|..+...|...|++++|+..+++.... .+...
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~-------~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~-~~~~~  106 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPY-------DRSYILYNIGLIHTSNGEHTKALEYYFQALER-NPFLP  106 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccch-------hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CcCcH
Confidence            44556666666667777777777777765432210       12346677777777777777777777776653 12223


Q ss_pred             hHHHHHHHHHh-------ccCCHHHHHHHH
Q 048142          106 ITFVGVLVACS-------HAGLVDERISHF  128 (352)
Q Consensus       106 ~t~~~ll~~~~-------~~g~~~~a~~~~  128 (352)
                      .++..+...+.       ..|+++.|...+
T Consensus       107 ~~~~~la~i~~~~~~~~~~~g~~~~A~~~~  136 (168)
T CHL00033        107 QALNNMAVICHYRGEQAIEQGDSEIAEAWF  136 (168)
T ss_pred             HHHHHHHHHHHHhhHHHHHcccHHHHHHHH
Confidence            44455555555       455555444333

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

Probab=97.38  E-value=0.013  Score=58.20  Aligned_cols=149  Identities=8%  Similarity=0.014  Sum_probs=94.5

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHH-HHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-------
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITF-VGVLVACSHAGLVDERISHFNLMSEKYGIRP-------  139 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~-~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-------  139 (352)
                      .+...|..|+..|...+++++|.++.++-.+  ..|+...+ -.+...+.+.++.+++..+  .+.....-..       
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~--~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~  104 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLK--EHKKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEH  104 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCCcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHHH
Confidence            5667899999999999999999999997666  45655432 2222255566666666554  3332111111       


Q ss_pred             ----------ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 048142          140 ----------SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG  207 (352)
Q Consensus       140 ----------~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  207 (352)
                                +...+-.+..+|-+.|+.++|..+++++ ...| |+.+.|.+...|... +.++|.+++.+....     
T Consensus       105 ~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~-----  178 (906)
T PRK14720        105 ICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR-----  178 (906)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH-----
Confidence                      1244555666777778888888888776 3344 466777777777777 788887777776543     


Q ss_pred             chHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          208 GSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       208 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                               |...+++..+.++|.++..
T Consensus       179 ---------~i~~kq~~~~~e~W~k~~~  197 (906)
T PRK14720        179 ---------FIKKKQYVGIEEIWSKLVH  197 (906)
T ss_pred             ---------HHhhhcchHHHHHHHHHHh
Confidence                     3344455555555555544

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.34  E-value=0.0086  Score=53.95  Aligned_cols=88  Identities=7%  Similarity=-0.082  Sum_probs=53.6

Q ss_pred             HHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHH
Q 048142           35 ACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVA  114 (352)
Q Consensus        35 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  114 (352)
                      .+...|+++.|.+.|+++++...          .+...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..+
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~~P----------~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~   79 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDLDP----------NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTA   79 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence            34456666677776666666443          344556666666666677777776666666531 2234456666666


Q ss_pred             HhccCCHHHHHHHHHHhhH
Q 048142          115 CSHAGLVDERISHFNLMSE  133 (352)
Q Consensus       115 ~~~~g~~~~a~~~~~~m~~  133 (352)
                      |...|++++|...|++..+
T Consensus        80 ~~~lg~~~eA~~~~~~al~   98 (356)
T PLN03088         80 CMKLEEYQTAKAALEKGAS   98 (356)
T ss_pred             HHHhCCHHHHHHHHHHHHH
Confidence            6666666666666666653

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.30  E-value=0.18  Score=49.22  Aligned_cols=219  Identities=13%  Similarity=0.070  Sum_probs=134.0

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH--hccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLAC--THLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~--~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      ..+++..|+.....+.+.  .|+.. |..++.++  .+.|+.++|..+++.....+.          .|..|-..+-.+|
T Consensus        21 d~~qfkkal~~~~kllkk--~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~----------~D~~tLq~l~~~y   87 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKK--HPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKG----------TDDLTLQFLQNVY   87 (932)
T ss_pred             hhHHHHHHHHHHHHHHHH--CCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCC----------CchHHHHHHHHHH
Confidence            356788888888877764  45543 34445554  678888888877777665544          4556888888888


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCC----
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGR----  156 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~----  156 (352)
                      ...++.++|..+|++...  .-|+..-...+..+|.+.+.+.+-.++--++-+.  ++-.+..+=++++.+...-.    
T Consensus        88 ~d~~~~d~~~~~Ye~~~~--~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~--~pk~~yyfWsV~Slilqs~~~~~~  163 (932)
T KOG2053|consen   88 RDLGKLDEAVHLYERANQ--KYPSEELLYHLFMAYVREKSYKKQQKAALQLYKN--FPKRAYYFWSVISLILQSIFSENE  163 (932)
T ss_pred             HHHhhhhHHHHHHHHHHh--hCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCcccchHHHHHHHHHHhccCCcc
Confidence            899999999999988776  4667777777888888888776655544444432  22233333344444443211    


Q ss_pred             ------HHHHHHHHHhCCCCC----cHHHHHHHHHHHHhcCCHHHHHHHHHH-HHHh-CCCCcchHHHHHHHHhhcCChH
Q 048142          157 ------IAKAEELIKNMPMAL----DHFVLGGLLGACRIHDNLEAAERAAQQ-LLEL-LPDNGGSYVILSNRYSSSRKWK  224 (352)
Q Consensus       157 ------~~~A~~~~~~m~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~-~~~~-~~~~~~~~~~li~~~~~~g~~~  224 (352)
                            +.-|.+.++.+-..+    +..-.-.-+..+-..|++++|..++.. ..+. .+.+...-+.-++.+...++|.
T Consensus       164 ~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~  243 (932)
T KOG2053|consen  164 LLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQ  243 (932)
T ss_pred             cccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChH
Confidence                  122444444441111    122222223344566778888888743 3332 3334444455666777777787


Q ss_pred             HHHHHHHHHHhcCC
Q 048142          225 KVKRIRELMAERNI  238 (352)
Q Consensus       225 ~a~~~~~~m~~~g~  238 (352)
                      +..++-.++..+|-
T Consensus       244 ~l~~l~~~Ll~k~~  257 (932)
T KOG2053|consen  244 ELFELSSRLLEKGN  257 (932)
T ss_pred             HHHHHHHHHHHhCC
Confidence            77777777766654

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.28  E-value=0.062  Score=48.05  Aligned_cols=167  Identities=19%  Similarity=0.161  Sum_probs=95.3

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCCCH
Q 048142           29 MVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM---CGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        29 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      ...++-+|-...+++...++.+.+....-. +.  .   .+...--...-++.+   .|+.++|++++..+....-.++.
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~p~~-~~--~---~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~  217 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEALPTC-DV--A---NQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDP  217 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhccCcc-ch--h---cchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCCh
Confidence            345555788899999999999999875211 00  0   122222344456666   89999999999997766677888


Q ss_pred             hHHHHHHHHHhc---------cCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH----HHHH---HhC--
Q 048142          106 ITFVGVLVACSH---------AGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA----EELI---KNM--  167 (352)
Q Consensus       106 ~t~~~ll~~~~~---------~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A----~~~~---~~m--  167 (352)
                      .||..+...|-.         ...+++|...|.+-   +.+.|+...--.+...+...|.-.+.    .++-   ..+  
T Consensus       218 d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kg---Fe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg  294 (374)
T PF13281_consen  218 DTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKG---FEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLG  294 (374)
T ss_pred             HHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHH---HcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHH
Confidence            888887766632         22456666666654   34445544333333334444432221    1111   110  


Q ss_pred             -----CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          168 -----PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       168 -----~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                           .-..|---+.+++.++.-.|+.++|.+..++|.+..|
T Consensus       295 ~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~  336 (374)
T PF13281_consen  295 RKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKP  336 (374)
T ss_pred             hhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Confidence                 1123344455566666666666666666666655533

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.27  E-value=0.00093  Score=43.75  Aligned_cols=54  Identities=19%  Similarity=0.173  Sum_probs=30.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          181 GACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       181 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      ..+...|++++|...|+.+.+..|.+...+..+..++...|++++|...|++..
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344555555555555555555555555555555555555555555555555554

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.26  E-value=0.034  Score=54.74  Aligned_cols=180  Identities=10%  Similarity=-0.098  Sum_probs=124.2

Q ss_pred             ChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC
Q 048142            6 ACEEALLLFREVQHKGLTGD-KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG   84 (352)
Q Consensus         6 ~~~~A~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g   84 (352)
                      +...|+..|-+..+.  .|+ ...|..|-.-|...-+...|..-|+...+.+.          .+...+......|++..
T Consensus       473 ~~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDa----------tdaeaaaa~adtyae~~  540 (1238)
T KOG1127|consen  473 NSALALHALIRALRL--DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDA----------TDAEAAAASADTYAEES  540 (1238)
T ss_pred             hHHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc----------hhhhhHHHHHHHhhccc
Confidence            345556555444442  333 45677777777777777888888888766443          57778999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHhHHH--HHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHH
Q 048142           85 QGNKALEYFYEMQIRGVKPDAITFV--GVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        85 ~~~~A~~~~~~m~~~g~~p~~~t~~--~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      +++.|..+.-.--+. -+.-...++  -.--.|...++..+|...|+...   .+.| |...|..+..+|.++|++..|.
T Consensus       541 ~we~a~~I~l~~~qk-a~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsAL---R~dPkD~n~W~gLGeAY~~sGry~~Al  616 (1238)
T KOG1127|consen  541 TWEEAFEICLRAAQK-APAFACKENWVQRGPYYLEAHNLHGAVCEFQSAL---RTDPKDYNLWLGLGEAYPESGRYSHAL  616 (1238)
T ss_pred             cHHHHHHHHHHHhhh-chHHHHHhhhhhccccccCccchhhHHHHHHHHh---cCCchhHHHHHHHHHHHHhcCceehHH
Confidence            999999984332221 111111222  23334567788889988888876   4566 7889999999999999999999


Q ss_pred             HHHHhC-CCCCcHHHHHHHH-HHHHhcCCHHHHHHHHHHHHH
Q 048142          162 ELIKNM-PMALDHFVLGGLL-GACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       162 ~~~~~m-~~~p~~~~~~~li-~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      ++|.+. ..+|+..--.-.. ...+..|.+++|...+.....
T Consensus       617 KvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  617 KVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            999988 4556532211122 245778999999998888754

>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=97.25  E-value=0.0039  Score=50.59  Aligned_cols=88  Identities=20%  Similarity=0.258  Sum_probs=65.2

Q ss_pred             CcHHHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccC----------------CHHHHHH
Q 048142           68 KDVMTLTALIVVLAMC-----GQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAG----------------LVDERIS  126 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g----------------~~~~a~~  126 (352)
                      .|-.+|..+|..|.+.     |..+=....+..|.+-|+.-|..+|+.||+.+=+..                +-+-|++
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            5667888888888654     667777778888889999999999999998886522                2355777


Q ss_pred             HHHHhhHhcCCCCChhHHHHHHHHHHHcCC
Q 048142          127 HFNLMSEKYGIRPSIEHYGCLVYILGRAGR  156 (352)
Q Consensus       127 ~~~~m~~~~g~~p~~~~~~~li~~~~~~g~  156 (352)
                      ++++|... |+.||..++..|++.+++.+.
T Consensus       125 lL~qME~~-gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  125 LLEQMENN-GVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHc-CCCCcHHHHHHHHHHhccccH
Confidence            77777764 777777777777777665543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.24  E-value=0.0021  Score=42.04  Aligned_cols=60  Identities=20%  Similarity=0.065  Sum_probs=42.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 048142          147 LVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN  206 (352)
Q Consensus       147 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  206 (352)
                      +...+.+.|++++|...|+++ ...| +...|..+...+...|++++|...|++..+..|.+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~   64 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDN   64 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            345677788888888888877 4445 46677777777888888888888888887776654

>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=97.24  E-value=0.0013  Score=51.02  Aligned_cols=69  Identities=25%  Similarity=0.259  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH-----hcCCCCCCc
Q 048142          175 VLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA-----ERNIKKPPG  243 (352)
Q Consensus       175 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~~  243 (352)
                      +...++..+...|+++.|.++.+.+....|.+...|..+|.+|...|+..+|.++|+++.     +.|+.|++.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~  137 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPE  137 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHH
Confidence            445566777888999999999999999999999999999999999999999999888774     468888654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.23  E-value=0.0056  Score=45.97  Aligned_cols=28  Identities=25%  Similarity=0.292  Sum_probs=21.3

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEM   96 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m   96 (352)
                      |..++.++|.++++.|+.+....+++..
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~   28 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSV   28 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHh
Confidence            3457788888888888888887777654

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.22  E-value=0.0048  Score=52.40  Aligned_cols=97  Identities=10%  Similarity=0.078  Sum_probs=53.3

Q ss_pred             hccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHH
Q 048142           37 THLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVAC  115 (352)
Q Consensus        37 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~  115 (352)
                      .+.+++.+|...|.+.++...          .|.+-|..=..+|++.|.++.|++=.+....  +.|. ..+|..|-.+|
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~P----------~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~  159 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELDP----------TNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAY  159 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcCC----------CcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHH
Confidence            455666666666666655332          3444555555666666666666655555444  3333 33566666666


Q ss_pred             hccCCHHHHHHHHHHhhHhcCCCCChhHHHHHH
Q 048142          116 SHAGLVDERISHFNLMSEKYGIRPSIEHYGCLV  148 (352)
Q Consensus       116 ~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li  148 (352)
                      ...|++++|.+.|++..   .+.|+-.+|-.=+
T Consensus       160 ~~~gk~~~A~~aykKaL---eldP~Ne~~K~nL  189 (304)
T KOG0553|consen  160 LALGKYEEAIEAYKKAL---ELDPDNESYKSNL  189 (304)
T ss_pred             HccCcHHHHHHHHHhhh---ccCCCcHHHHHHH
Confidence            66666666666655554   3455544444333

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.17  E-value=0.043  Score=50.47  Aligned_cols=174  Identities=10%  Similarity=0.035  Sum_probs=126.9

Q ss_pred             hhHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCC
Q 048142            7 CEEALLLFREVQHK-GLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQ   85 (352)
Q Consensus         7 ~~~A~~~~~~m~~~-g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~   85 (352)
                      .+...+.++++... .+.|+ .+|...|+.--+...++.|+.+|.+..+.+..+        ..+..++++|..||. ++
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~--------hhVfVa~A~mEy~cs-kD  416 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTR--------HHVFVAAALMEYYCS-KD  416 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCc--------chhhHHHHHHHHHhc-CC
Confidence            34445555555543 34444 468888999899999999999999999988763        377899999999985 67


Q ss_pred             hHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC--hhHHHHHHHHHHHcCCHHHHHHH
Q 048142           86 GNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS--IEHYGCLVYILGRAGRIAKAEEL  163 (352)
Q Consensus        86 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~  163 (352)
                      .+-|.++|+-=.+. ..-+..--..-++.+...++=..+..+|++.... ++.|+  ...|..+|+.=..-|++..+.++
T Consensus       417 ~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s-~l~~~ks~~Iw~r~l~yES~vGdL~si~~l  494 (656)
T KOG1914|consen  417 KETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTS-VLSADKSKEIWDRMLEYESNVGDLNSILKL  494 (656)
T ss_pred             hhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhc-cCChhhhHHHHHHHHHHHHhcccHHHHHHH
Confidence            88999999875543 3323333456788888999999999999999987 77774  67899999999999999999998


Q ss_pred             HHhC----C--CCCcHHHHHHHHHHHHhcCCHHHH
Q 048142          164 IKNM----P--MALDHFVLGGLLGACRIHDNLEAA  192 (352)
Q Consensus       164 ~~~m----~--~~p~~~~~~~li~~~~~~g~~~~a  192 (352)
                      -+++    +  ..|....-..+++-|.-.+...--
T Consensus       495 ekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~  529 (656)
T KOG1914|consen  495 EKRRFTAFPADQEYEGNETALFVDRYGILDLYPCS  529 (656)
T ss_pred             HHHHHHhcchhhcCCCChHHHHHHHHhhccccccc
Confidence            7765    2  222222333455555555544433

>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=97.16  E-value=0.00078  Score=44.53  Aligned_cols=51  Identities=16%  Similarity=0.291  Sum_probs=31.9

Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          185 IHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       185 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..|++++|++.|+.+.+..|.+...+..+..+|.+.|++++|.++++.+..
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            456666666666666666666666666666666666666666666665544

...

>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=97.16  E-value=0.0026  Score=41.98  Aligned_cols=47  Identities=26%  Similarity=0.309  Sum_probs=22.1

Q ss_pred             cCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142          118 AGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       118 ~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      .|++++|..+|+.+...   .| +...+..+..+|.+.|++++|..+++++
T Consensus         4 ~~~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQR---NPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             TTHHHHHHHHHHHHHHH---TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             ccCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34455555555554432   22 3444444555555555555555555554

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.15  E-value=0.006  Score=51.82  Aligned_cols=88  Identities=19%  Similarity=0.146  Sum_probs=44.7

Q ss_pred             ccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHH
Q 048142          117 HAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAE  193 (352)
Q Consensus       117 ~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~  193 (352)
                      +.+++.+|...|.+..   .+.| |.+-|-.-..+|.+.|.++.|.+=.+.. .+.|. ..+|..|-.+|...|++++|+
T Consensus        93 ~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~  169 (304)
T KOG0553|consen   93 KNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             HhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHH
Confidence            3455555555555554   2344 3444444455555555555554444333 33333 445555555555555555555


Q ss_pred             HHHHHHHHhCCCCc
Q 048142          194 RAAQQLLELLPDNG  207 (352)
Q Consensus       194 ~~~~~~~~~~~~~~  207 (352)
                      +.|++.++.+|.+.
T Consensus       170 ~aykKaLeldP~Ne  183 (304)
T KOG0553|consen  170 EAYKKALELDPDNE  183 (304)
T ss_pred             HHHHhhhccCCCcH
Confidence            55555555555554

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.15  E-value=0.05  Score=49.93  Aligned_cols=209  Identities=12%  Similarity=0.051  Sum_probs=129.1

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHH-------HH
Q 048142            5 SACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTA-------LI   77 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~-------li   77 (352)
                      .++..|++-+.......  -+..-++..-.++...|........-+...+.|-.          ...-|+.       +.
T Consensus       238 k~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre----------~rad~klIak~~~r~g  305 (539)
T KOG0548|consen  238 KDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE----------LRADYKLIAKALARLG  305 (539)
T ss_pred             hhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH----------HHHHHHHHHHHHHHhh
Confidence            45667777776666543  33444455666788888888877777776666643          1122333       33


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCCh-hHHHHHHHHHHHcCC
Q 048142           78 VVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSI-EHYGCLVYILGRAGR  156 (352)
Q Consensus        78 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~-~~~~~li~~~~~~g~  156 (352)
                      .+|.+.++++.|+..|.+....-..||..         .+....+++....+...   =+.|.. .-.-.-.+.+.+.|+
T Consensus       306 ~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~gd  373 (539)
T KOG0548|consen  306 NAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKGD  373 (539)
T ss_pred             hhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhccC
Confidence            46666788999999998866554444432         22233334433333322   122321 111111445667788


Q ss_pred             HHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          157 IAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       157 ~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      +.+|...+.++ ...| |...|..-..+|.+.|.+..|+.-.+...+..|+....|..=..++....+++.|.+.|++-.
T Consensus       374 y~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  374 YPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888776 3334 467778888888888888888877777777777777667666666666777777777777666


Q ss_pred             hcC
Q 048142          235 ERN  237 (352)
Q Consensus       235 ~~g  237 (352)
                      +..
T Consensus       454 e~d  456 (539)
T KOG0548|consen  454 ELD  456 (539)
T ss_pred             hcC
Confidence            544

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.15  E-value=0.0096  Score=44.70  Aligned_cols=97  Identities=15%  Similarity=0.163  Sum_probs=60.1

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      |..++.++|.++++.|+++....+.+..-  |+..+....                  .+.         --......|+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~~------------------~~~---------~~~~spl~Pt   51 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKKK------------------EGD---------YPPSSPLYPT   51 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCccc------------------cCc---------cCCCCCCCCC
Confidence            56788999999999999999988886554  333222100                  000         1112345666


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI  150 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  150 (352)
                      ..+..+++.+|+..|++..|.++.+...+.|+++.+..+|..|+.=
T Consensus        52 ~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   52 SRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            6666666666666666666666666666666655566666666553

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.11  E-value=0.12  Score=43.74  Aligned_cols=186  Identities=10%  Similarity=0.027  Sum_probs=112.1

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...+-.....+.+.|++++|.+.|+++...-..+..       -....-.+..+|.+.+++++|...|++..+.--.-.
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~-------a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~  103 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPY-------SQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHP  103 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChH-------HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCC
Confidence            3444444555567899999999999999886443110       011123466888899999999999999987532222


Q ss_pred             HhHHHHHHHHHhc--c---------------CC---HHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHH
Q 048142          105 AITFVGVLVACSH--A---------------GL---VDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELI  164 (352)
Q Consensus       105 ~~t~~~ll~~~~~--~---------------g~---~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  164 (352)
                      ...|...+.+.+.  .               .+   ..+|...|+.+.++                |=...-..+|..-+
T Consensus       104 ~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~----------------yP~S~ya~~A~~rl  167 (243)
T PRK10866        104 NIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG----------------YPNSQYTTDATKRL  167 (243)
T ss_pred             chHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH----------------CcCChhHHHHHHHH
Confidence            2344444444432  1               11   23455555555544                22223344444444


Q ss_pred             HhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc---chHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          165 KNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG---GSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       165 ~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      ..+..+.-..-+ .+..-|.+.|.+..|..-++.+.+..|.+.   .....++.+|...|..++|.++...+.
T Consensus       168 ~~l~~~la~~e~-~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        168 VFLKDRLAKYEL-SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHHH-HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            333211111111 344557788888888888888888666544   344567788888999998888776654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.11  E-value=0.25  Score=48.37  Aligned_cols=192  Identities=18%  Similarity=0.107  Sum_probs=127.3

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .|.|+.++|..+++.....+.. |..|...+-..|-..++.++|..+|+...+..           |+...-..+..+|.
T Consensus        54 ~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~-----------P~eell~~lFmayv  121 (932)
T KOG2053|consen   54 FRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQKY-----------PSEELLYHLFMAYV  121 (932)
T ss_pred             HHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhhC-----------CcHHHHHHHHHHHH
Confidence            3678999999888887765443 88899999999999999999999999998754           66667777888888


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccC----------CHHHHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAG----------LVDERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g----------~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      +.+++.+-.+.=-+|-+. ++-+.+.|=++++.....-          -+.-|...++.+.++-|-.-+..-...-...+
T Consensus       122 R~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL  200 (932)
T KOG2053|consen  122 REKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLIL  200 (932)
T ss_pred             HHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHH
Confidence            887776544433333332 3334555445554443211          23456677777776633222222222233445


Q ss_pred             HHcCCHHHHHHHHHh-C-CC--CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 048142          152 GRAGRIAKAEELIKN-M-PM--ALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN  206 (352)
Q Consensus       152 ~~~g~~~~A~~~~~~-m-~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  206 (352)
                      ...|++++|.+++.. . ..  ..+...-+--+..+...+++.+..++..++....++|
T Consensus       201 ~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~Dd  259 (932)
T KOG2053|consen  201 ELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGNDD  259 (932)
T ss_pred             HhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCcc
Confidence            678899999999843 2 11  1223333455667778888999999988888877776

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.10  E-value=0.058  Score=53.31  Aligned_cols=177  Identities=13%  Similarity=0.068  Sum_probs=101.1

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      +..|+.+..+-.+.|.+.+|.+.|-+.               .|...|.-.|....+.|.+++-.+.+.-..+..-+|..
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyika---------------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i 1168 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKA---------------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI 1168 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHhc---------------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc
Confidence            456777777777777777776655332               23346777777777777777777777655555555554


Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCC-----------------
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMP-----------------  168 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-----------------  168 (352)
                      .+  .||-+|++.+++.+-.+++        .-|+......+.+-|-..+.++.|.-+|....                 
T Consensus      1169 d~--eLi~AyAkt~rl~elE~fi--------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~ 1238 (1666)
T KOG0985|consen 1169 DS--ELIFAYAKTNRLTELEEFI--------AGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQG 1238 (1666)
T ss_pred             hH--HHHHHHHHhchHHHHHHHh--------cCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence            43  5677777777766544422        12344444444444444455554444443220                 


Q ss_pred             ------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcchHHHHHHHHhhcCChHHHHHHHHH
Q 048142          169 ------MALDHFVLGGLLGACRIHDNLEAAERAAQQLLEL-LPDNGGSYVILSNRYSSSRKWKKVKRIREL  232 (352)
Q Consensus       169 ------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  232 (352)
                            ...+..||.-+-.+|...+.+..|.     |... ..-...-..-|+..|...|-+++...+++.
T Consensus      1239 AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQ-----iCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea 1304 (1666)
T KOG0985|consen 1239 AVDAARKANSTKTWKEVCFACVDKEEFRLAQ-----ICGLNIIVHADELEELIEYYQDRGYFEELISLLEA 1304 (1666)
T ss_pred             HHHHhhhccchhHHHHHHHHHhchhhhhHHH-----hcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHh
Confidence                  0114555665555555544433321     1111 001122345789999999999999888764

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.10  E-value=0.024  Score=42.10  Aligned_cols=91  Identities=15%  Similarity=0.144  Sum_probs=60.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCC--HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHH
Q 048142           76 LIVVLAMCGQGNKALEYFYEMQIRGVKPD--AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILG  152 (352)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~  152 (352)
                      +..++-..|+.++|+.+|++....|...+  ...+..+-..+...|++++|..++++....+.-.+ +......+..++.
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            34556678888888888888888876655  33566677778888888888888888776521111 1222222334566


Q ss_pred             HcCCHHHHHHHHHh
Q 048142          153 RAGRIAKAEELIKN  166 (352)
Q Consensus       153 ~~g~~~~A~~~~~~  166 (352)
                      ..|+.++|+..+-.
T Consensus        87 ~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   87 NLGRPKEALEWLLE  100 (120)
T ss_pred             HCCCHHHHHHHHHH
Confidence            77888888877644

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.08  E-value=0.016  Score=56.90  Aligned_cols=160  Identities=12%  Similarity=-0.071  Sum_probs=109.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHH--HH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYG--CL  147 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~--~l  147 (352)
                      ..|..|...|+...+...|...|+...+-. .-|......+...|+...+++.|..+.-...+   ..| ....+|  -.
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~q---ka~a~~~k~nW~~r  568 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQ---KAPAFACKENWVQR  568 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhh---hchHHHHHhhhhhc
Confidence            467888888887778888888888877642 22455677788888888888888887333322   122 122222  23


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHH
Q 048142          148 VYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKK  225 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  225 (352)
                      .-.|-+.++...|..-|+.. ...| |...|..+..+|...|.+..|.++|.+.....|.+...--...-.-+..|++.+
T Consensus       569 G~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYke  648 (1238)
T KOG1127|consen  569 GPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKE  648 (1238)
T ss_pred             cccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHH
Confidence            33456677778888777765 4444 678888899999999999999999988877777654333333444567788888


Q ss_pred             HHHHHHHHH
Q 048142          226 VKRIRELMA  234 (352)
Q Consensus       226 a~~~~~~m~  234 (352)
                      |...++...
T Consensus       649 ald~l~~ii  657 (1238)
T KOG1127|consen  649 ALDALGLII  657 (1238)
T ss_pred             HHHHHHHHH
Confidence            888777664

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.99  E-value=0.038  Score=48.09  Aligned_cols=201  Identities=11%  Similarity=0.013  Sum_probs=124.4

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHH----cCCC
Q 048142           27 VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI----RGVK  102 (352)
Q Consensus        27 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~  102 (352)
                      ..|......|-..+++++|.+.|.+....-...+...    .-...|......|.+. ++++|++.+++..+    .| .
T Consensus        36 ~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~----~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~  109 (282)
T PF14938_consen   36 DLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKF----EAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-R  109 (282)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HH----HHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--
T ss_pred             HHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHH----HHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-c
Confidence            4567777788888899999888887654221111000    2223466666666555 99999999988764    33 2


Q ss_pred             CC--HhHHHHHHHHHhcc-CCHHHHHHHHHHhhHhcCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHhCC-------
Q 048142          103 PD--AITFVGVLVACSHA-GLVDERISHFNLMSEKYGIRPS----IEHYGCLVYILGRAGRIAKAEELIKNMP-------  168 (352)
Q Consensus       103 p~--~~t~~~ll~~~~~~-g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~-------  168 (352)
                      |+  ...+..+...|-.. |++++|...|++...-+.-..+    ..++..+...+.+.|++++|.++|++..       
T Consensus       110 ~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~  189 (282)
T PF14938_consen  110 FSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENN  189 (282)
T ss_dssp             HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHC
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhccc
Confidence            33  33577788888888 9999999999988764332222    3456677788999999999999999861       


Q ss_pred             -CCCcHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-----CcchHHHHHHHHhh--cCChHHHHHHHHHH
Q 048142          169 -MALDHF-VLGGLLGACRIHDNLEAAERAAQQLLELLPD-----NGGSYVILSNRYSS--SRKWKKVKRIRELM  233 (352)
Q Consensus       169 -~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~li~~~~~--~g~~~~a~~~~~~m  233 (352)
                       .+.++. .|-..+-.+...||+..|.+.+++....+|.     .......|+.+|-.  ...++++..-|+.+
T Consensus       190 l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  190 LLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             TTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTS
T ss_pred             ccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHccc
Confidence             122332 2333344666789999999999998776542     12344566666632  23345555555433

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.94  E-value=0.12  Score=39.71  Aligned_cols=125  Identities=18%  Similarity=0.128  Sum_probs=73.6

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHH
Q 048142           30 VSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFV  109 (352)
Q Consensus        30 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  109 (352)
                      ..++..+...+.......+++.+...+.          .+...+|.+|..|++.+ .++.++.+..      .++.+...
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~----------~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~   73 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS----------ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIE   73 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc----------cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHH
Confidence            4556666666777777777777776652          34456777777777653 3444455442      12344445


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHc-CCHHHHHHHHHhCCCCCcHHHHHHHHHHHH
Q 048142          110 GVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRA-GRIAKAEELIKNMPMALDHFVLGGLLGACR  184 (352)
Q Consensus       110 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~p~~~~~~~li~~~~  184 (352)
                      .++..|.+.+.++++..++..+..          |...++.+... ++++.|.+++.+-.   +...|..++..+.
T Consensus        74 ~~~~~c~~~~l~~~~~~l~~k~~~----------~~~Al~~~l~~~~d~~~a~~~~~~~~---~~~lw~~~~~~~l  136 (140)
T smart00299       74 KVGKLCEKAKLYEEAVELYKKDGN----------FKDAIVTLIEHLGNYEKAIEYFVKQN---NPELWAEVLKALL  136 (140)
T ss_pred             HHHHHHHHcCcHHHHHHHHHhhcC----------HHHHHHHHHHcccCHHHHHHHHHhCC---CHHHHHHHHHHHH
Confidence            567777777777777776666532          22233333333 66777777766532   4556666665554

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.94  E-value=0.098  Score=38.88  Aligned_cols=108  Identities=19%  Similarity=0.118  Sum_probs=75.3

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---H-h
Q 048142           31 SLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD---A-I  106 (352)
Q Consensus        31 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~-~  106 (352)
                      .+..++-..|+.++|..+|++....|.....       -...+-.+.+.|...|++++|+.+|++....  .|+   . .
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~-------~~~a~i~lastlr~LG~~deA~~~L~~~~~~--~p~~~~~~~   76 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGAD-------RRRALIQLASTLRNLGRYDEALALLEEALEE--FPDDELNAA   76 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchH-------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHH
Confidence            3455677899999999999999998876321       1235667778899999999999999998875  243   1 1


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHH
Q 048142          107 TFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILG  152 (352)
Q Consensus       107 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~  152 (352)
                      ....+..++...|+.++|...+-.....     +..-|.-=|..|+
T Consensus        77 l~~f~Al~L~~~gr~~eAl~~~l~~la~-----~~~~y~ra~~~ya  117 (120)
T PF12688_consen   77 LRVFLALALYNLGRPKEALEWLLEALAE-----TLPRYRRAIRFYA  117 (120)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHH-----HHHHHHHHHHHHH
Confidence            2222334677889999999887665542     3335555555554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.93  E-value=0.0044  Score=41.51  Aligned_cols=57  Identities=16%  Similarity=0.122  Sum_probs=44.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          181 GACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       181 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ..+.+.+++++|.+.++.+....|.++..|......+.+.|++++|.+.++...+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            456777888888888888888788888888888888888888888888888776544

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.92  E-value=0.021  Score=48.75  Aligned_cols=102  Identities=19%  Similarity=0.110  Sum_probs=82.2

Q ss_pred             CC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHH---hcCCHHHHHHHHHHHHHhCCCCcchHH
Q 048142          138 RP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACR---IHDNLEAAERAAQQLLELLPDNGGSYV  211 (352)
Q Consensus       138 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~---~~g~~~~a~~~~~~~~~~~~~~~~~~~  211 (352)
                      .| |...|-.|...|.+.|+++.|..-|.+. ...| ++..+..+..++.   ......++..+|+++...+|.|+.+-.
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            44 8899999999999999999999999887 3333 3444444444432   333467899999999999999999999


Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHhcCCC
Q 048142          212 ILSNRYSSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       212 ~li~~~~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      .|...+...|++.+|...|+.|.+..-.
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            9999999999999999999999876654

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

Probab=96.92  E-value=0.25  Score=43.18  Aligned_cols=194  Identities=15%  Similarity=0.098  Sum_probs=136.9

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHH---HHHHHhcCChHHHHHHHHHHHHcCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTAL---IVVLAMCGQGNKALEYFYEMQIRGV  101 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~g~  101 (352)
                      +..-..-+-+.+...|++..|+.-|...++.+.             ..|-++   ...|...|+...|+.=|.+..+  .
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~dp-------------~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--l  101 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGDP-------------NNYQAIFRRATVYLAMGKSKAALQDLSRVLE--L  101 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCc-------------hhHHHHHHHHHHHhhhcCCccchhhHHHHHh--c
Confidence            344445566777778888888888888776432             234444   3567777888888888888777  6


Q ss_pred             CCCHhHH-HHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC--------------hhHHH--HHHHHHHHcCCHHHHHHHH
Q 048142          102 KPDAITF-VGVLVACSHAGLVDERISHFNLMSEKYGIRPS--------------IEHYG--CLVYILGRAGRIAKAEELI  164 (352)
Q Consensus       102 ~p~~~t~-~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~--------------~~~~~--~li~~~~~~g~~~~A~~~~  164 (352)
                      +||-..- ..--..+.+.|.++.|..=|+.+.+.   .|+              ...++  ..+..+.-.|+...|+...
T Consensus       102 KpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~---~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i  178 (504)
T KOG0624|consen  102 KPDFMAARIQRGVVLLKQGELEQAEADFDQVLQH---EPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMI  178 (504)
T ss_pred             CccHHHHHHHhchhhhhcccHHHHHHHHHHHHhc---CCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHH
Confidence            7885432 22334567889999999999888763   231              11111  1223344578888888888


Q ss_pred             HhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          165 KNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       165 ~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      ..+ .+.| |...|..=..+|...|++..|+.=++...+...++..++--+...+...|+.+.++...++-.+.
T Consensus       179 ~~llEi~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl  252 (504)
T KOG0624|consen  179 THLLEIQPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL  252 (504)
T ss_pred             HHHHhcCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc
Confidence            776 4444 66677777788999999999998888888887888888888888889999999998887776553

>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=96.91  E-value=0.0071  Score=39.97  Aligned_cols=61  Identities=20%  Similarity=0.170  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccC-CHHHHHHHHHHhh
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAG-LVDERISHFNLMS  132 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g-~~~~a~~~~~~m~  132 (352)
                      ..|..+...+...|++++|+..|++..+.. +-+...|..+-.++...| ++++|+..+++..
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            344444444455555555555555444431 112334444444444444 3455554444443

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.82  E-value=0.17  Score=44.67  Aligned_cols=113  Identities=14%  Similarity=0.105  Sum_probs=72.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCC
Q 048142          143 HYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRK  222 (352)
Q Consensus       143 ~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  222 (352)
                      +.+.-|.-+...|+...|.++..+..+ ||..-|-..+.+++..++|++-.++...     ...+.-|..++.+|.+.|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv-~dkrfw~lki~aLa~~~~w~eL~~fa~s-----kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKV-PDKRFWWLKIKALAENKDWDELEKFAKS-----KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC-----CCCCCChHHHHHHHHHCCC
Confidence            344445556667777777777777764 6777777777788877777766665432     2344677777777777777


Q ss_pred             hHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHH
Q 048142          223 WKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEE  275 (352)
Q Consensus       223 ~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~  275 (352)
                      ..+|..+...+..              ..-+..|.+.|.+.+|.+......+.
T Consensus       253 ~~eA~~yI~k~~~--------------~~rv~~y~~~~~~~~A~~~A~~~kd~  291 (319)
T PF04840_consen  253 KKEASKYIPKIPD--------------EERVEMYLKCGDYKEAAQEAFKEKDI  291 (319)
T ss_pred             HHHHHHHHHhCCh--------------HHHHHHHHHCCCHHHHHHHHHHcCCH
Confidence            7777777776221              12344466777777776665444443

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

>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=96.82  E-value=0.012  Score=45.60  Aligned_cols=72  Identities=21%  Similarity=0.201  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhH----hcCCCCChhHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSE----KYGIRPSIEHY  144 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~----~~g~~p~~~~~  144 (352)
                      ....++..+...|++++|+++.+.+... -+-|...|..+|.++...|+..+|.++|+.+.+    ..|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~-dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALAL-DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            5566777777788888888888888776 466888888888888888888888888776543    35788877654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.79  E-value=0.19  Score=39.97  Aligned_cols=131  Identities=15%  Similarity=-0.015  Sum_probs=66.6

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCL  147 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  147 (352)
                      |++..--.|..++...|++.+|...|++...--..-|....-.+.++....+++..|...++.+.+...---++.+.-.+
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            55555555666666666666666666665543344455555566666666666666666666655421000022233344


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          148 VYILGRAGRIAKAEELIKNM-PMALDHFVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      ...|...|+..+|+.-|+.. ..-|+...---.-..+.+.|+.+++..-+..
T Consensus       167 aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            55566666666666666554 2233332222222233444544444433333

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.78  E-value=0.019  Score=49.13  Aligned_cols=96  Identities=10%  Similarity=0.006  Sum_probs=64.1

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchH---HHH
Q 048142          142 EHYGCLVYILGRAGRIAKAEELIKNM-PMALD----HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSY---VIL  213 (352)
Q Consensus       142 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---~~l  213 (352)
                      ..|..-+..+.+.|++++|...|+.. ...|+    ...+--+...|...|++++|...|+.+.+..|.+....   -.+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            34555555556678888888888776 22233    23444566777888888888888888877666554443   344


Q ss_pred             HHHHhhcCChHHHHHHHHHHHhcC
Q 048142          214 SNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       214 i~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ...+...|+.++|.++|+.+.+.-
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC
Confidence            556777888888888888776543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.76  E-value=0.28  Score=41.58  Aligned_cols=178  Identities=10%  Similarity=-0.009  Sum_probs=97.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHH---HHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITF---VGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~---~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      .....+.+.|++++|++.|+++...-..+ ..+-   -.+..++-+.+++++|...+++..+.+.-.|+. -|...+.++
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~-~~a~Y~~g~  114 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNI-DYVLYMRGL  114 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCch-HHHHHHHHH
Confidence            34455567899999999999998853222 2222   346678889999999999999999875555543 222333333


Q ss_pred             HH--cC---------------C---HHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHH
Q 048142          152 GR--AG---------------R---IAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYV  211 (352)
Q Consensus       152 ~~--~g---------------~---~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  211 (352)
                      +.  .+               +   ..+|...|+++            +.-|-...-.++|...+..+.....   ..--
T Consensus       115 ~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~l------------i~~yP~S~ya~~A~~rl~~l~~~la---~~e~  179 (243)
T PRK10866        115 TNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKL------------VRGYPNSQYTTDATKRLVFLKDRLA---KYEL  179 (243)
T ss_pred             hhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHH------------HHHCcCChhHHHHHHHHHHHHHHHH---HHHH
Confidence            21  11               1   22344444444            2222222334444444443332110   1112


Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhc
Q 048142          212 ILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFD  271 (352)
Q Consensus       212 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~  271 (352)
                      .+...|.+.|.+..|..=++.+.+.=  |+....--.+..+...+...|..+.+.++...
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Y--p~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~  237 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDY--PDTQATRDALPLMENAYRQLQLNAQADKVAKI  237 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHC--CCCchHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            45556777777777777777776532  22111111122344557777777777665543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.72  E-value=0.14  Score=42.99  Aligned_cols=132  Identities=14%  Similarity=0.024  Sum_probs=97.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC---CCCCcHHHHH-----HH
Q 048142          108 FVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM---PMALDHFVLG-----GL  179 (352)
Q Consensus       108 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~-----~l  179 (352)
                      .++++..+...|.+.-....+++..++ .-+.++.....|.+.-.+.|+.+.|...|++.   .-+.|..+.+     +.
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~-~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            456677777788888888889888875 54557888888888888999999999999855   1122333333     33


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCC
Q 048142          180 LGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKK  240 (352)
Q Consensus       180 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  240 (352)
                      ...+.-.+++-.|.+.+.+....++.|+..-|+=.-...-.|+..+|.+..+.|...-..|
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence            3456667788889999999988888887776654444445789999999999998765443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.67  E-value=0.064  Score=46.70  Aligned_cols=162  Identities=15%  Similarity=0.041  Sum_probs=94.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcC--CCCC--hhH
Q 048142           73 LTALIVVLAMCGQGNKALEYFYEMQIR----GVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYG--IRPS--IEH  143 (352)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g--~~p~--~~~  143 (352)
                      |......|-..+++++|.+.|.+..+.    +-..+ ...|.....+|.+. ++++|...+++...-+-  -.|+  ...
T Consensus        38 y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~  116 (282)
T PF14938_consen   38 YEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKC  116 (282)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHH
T ss_pred             HHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            344445555666677776666665321    11111 12344444444444 77777777666554221  1121  335


Q ss_pred             HHHHHHHHHHc-CCHHHHHHHHHhC-------CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc------
Q 048142          144 YGCLVYILGRA-GRIAKAEELIKNM-------PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG------  207 (352)
Q Consensus       144 ~~~li~~~~~~-g~~~~A~~~~~~m-------~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~------  207 (352)
                      +..+...|... |++++|.+.|++.       + .+.  ..++..+...+.+.|++++|.++|+++......+.      
T Consensus       117 ~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~  195 (282)
T PF14938_consen  117 LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSA  195 (282)
T ss_dssp             HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhH
Confidence            55666677777 8999988888876       2 222  45566777889999999999999999876422211      


Q ss_pred             -chHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          208 -GSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       208 -~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                       ..|...+-.+...||...|.+.+++....
T Consensus       196 ~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  196 KEYFLKAILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence             12333444566789999999999988654

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.66  E-value=0.022  Score=50.57  Aligned_cols=236  Identities=17%  Similarity=0.109  Sum_probs=149.7

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhccCChHHHHHHHHH--HHHc--CC-----CCCccccccC
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDK----VTMVSLLLACTHLGALEVGMWLHPY--IMKK--NI-----EVDVGLGMAL   67 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~--m~~~--g~-----~~~~~~~~~l   67 (352)
                      +|+.|+.+..+.+|+...+.|.. |.    ..|..|-++|.-.+++++|++++..  .+.+  |-     +...-++|++
T Consensus        27 Lck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtl  105 (639)
T KOG1130|consen   27 LCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTL  105 (639)
T ss_pred             HHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchh
Confidence            36789999999999999998754 43    3466677788888899999987653  2211  11     1122233333


Q ss_pred             ---------------------------CcHHHHHHHHHHHHhcCC--------------------hHHHHHHHHHHHH--
Q 048142           68 ---------------------------KDVMTLTALIVVLAMCGQ--------------------GNKALEYFYEMQI--   98 (352)
Q Consensus        68 ---------------------------~~~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m~~--   98 (352)
                                                 .....+-.|...|...|+                    ++.|.++|.+=.+  
T Consensus       106 Kv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~  185 (639)
T KOG1130|consen  106 KVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELS  185 (639)
T ss_pred             hhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence                                       112233334444544331                    2334444433211  


Q ss_pred             --cCCC-CCHhHHHHHHHHHhccCCHHHHHHHHHHhh---HhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC----
Q 048142           99 --RGVK-PDAITFVGVLVACSHAGLVDERISHFNLMS---EKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM----  167 (352)
Q Consensus        99 --~g~~-p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~---~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----  167 (352)
                        .|-. .--..|..|-+.|--.|+++.|+..++.-.   +.+|-.. ....++.|.+++.-.|+++.|.+.|+..    
T Consensus       186 ~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LA  265 (639)
T KOG1130|consen  186 EKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLA  265 (639)
T ss_pred             HHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHH
Confidence              1100 011335555566666789999987765432   2344333 4567888899999999999999988764    


Q ss_pred             ---CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh------CCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          168 ---PMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLEL------LPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       168 ---~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                         +.+ ....+.-+|-+.|--..++++|+..+.+-+..      .......|-+|..+|...|..++|+.+.+.-.+..
T Consensus       266 ielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~s  345 (639)
T KOG1130|consen  266 IELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRSS  345 (639)
T ss_pred             HHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence               322 23556677888888888899999988874331      23345678899999999999999998877665433

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.58  E-value=0.069  Score=45.77  Aligned_cols=102  Identities=13%  Similarity=0.082  Sum_probs=74.2

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCC-cHHHHHHH
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM----PMAL-DHFVLGGL  179 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~l  179 (352)
                      ..|...+....+.|++++|...|+.+.+.+.-.+ ....+-.+...|...|++++|...|+.+    +..| ....+-.+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            3466666555667899999999999987632211 1356677888899999999999999887    2222 23444455


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 048142          180 LGACRIHDNLEAAERAAQQLLELLPDNG  207 (352)
Q Consensus       180 i~~~~~~g~~~~a~~~~~~~~~~~~~~~  207 (352)
                      ...+...|+.+.|...++.+.+..|.+.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            6677789999999999999988777654

>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=96.51  E-value=0.014  Score=39.66  Aligned_cols=67  Identities=19%  Similarity=0.136  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcC--CCCCccccccCCc-HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKN--IEVDVGLGMALKD-VMTLTALIVVLAMCGQGNKALEYFYEMQI   98 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~~~~~~~~~l~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~   98 (352)
                      ..+|+.+...+...|++++|+..+++..+..  ..++.      |+ ..+++.|..+|...|++++|++.+++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~------~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDH------PDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHH------HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCC------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4578889999999999999999999987641  22122      43 67899999999999999999999988653

...

>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=96.50  E-value=0.0079  Score=40.89  Aligned_cols=21  Identities=19%  Similarity=0.264  Sum_probs=8.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHH
Q 048142          145 GCLVYILGRAGRIAKAEELIK  165 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~  165 (352)
                      +.+...|...|++++|++.|+
T Consensus         9 ~~la~~~~~~~~~~~A~~~~~   29 (78)
T PF13424_consen    9 NNLARVYRELGRYDEALDYYE   29 (78)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHH
Confidence            333334444444444444333

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.48  E-value=0.13  Score=45.48  Aligned_cols=110  Identities=19%  Similarity=0.089  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      +-+.-|.-+...|+...|.++-.+.+    .||-.-|-..+.+++..++|++-..+...       .-++..|-..+.++
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s-------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS-------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-------CCCCCChHHHHHHH
Confidence            34455666677888888888876653    46888888999999999999987765432       12567888999999


Q ss_pred             HHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048142          152 GRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQL  199 (352)
Q Consensus       152 ~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  199 (352)
                      .+.|+..+|..++.+++.       ..-+..|.+.|++.+|.+...+.
T Consensus       248 ~~~~~~~eA~~yI~k~~~-------~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKIPD-------EERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHCCCHHHHHHHHHhCCh-------HHHHHHHHHCCCHHHHHHHHHHc
Confidence            999999999999988532       44566778899999887765544

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

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.45  E-value=0.4  Score=39.46  Aligned_cols=174  Identities=11%  Similarity=0.036  Sum_probs=96.9

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHH
Q 048142           30 VSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFV  109 (352)
Q Consensus        30 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  109 (352)
                      -.....+...|++++|...|+.+........       --....-.++.++.+.|++++|...|++..+.--.-....+.
T Consensus         9 Y~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~-------~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A   81 (203)
T PF13525_consen    9 YQKALEALQQGDYEEAIKLFEKLIDRYPNSP-------YAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYA   81 (203)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHHH-TTST-------THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCCh-------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhH
Confidence            3344455678888888888888887643221       122344566788888888888888888887642111122233


Q ss_pred             HHHHHHhccCC-------------HHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHH
Q 048142          110 GVLVACSHAGL-------------VDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVL  176 (352)
Q Consensus       110 ~ll~~~~~~g~-------------~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~  176 (352)
                      ..+.+.+....             ..+|..                .+..++.-|=.+....+|...+..+....-..- 
T Consensus        82 ~Y~~g~~~~~~~~~~~~~~~D~~~~~~A~~----------------~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e-  144 (203)
T PF13525_consen   82 LYMLGLSYYKQIPGILRSDRDQTSTRKAIE----------------EFEELIKRYPNSEYAEEAKKRLAELRNRLAEHE-  144 (203)
T ss_dssp             HHHHHHHHHHHHHHHH-TT---HHHHHHHH----------------HHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHhCccchhcccChHHHHHHHH----------------HHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHH-
Confidence            33333322111             122222                333444444455555555555544421111111 


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcch---HHHHHHHHhhcCChHHHH
Q 048142          177 GGLLGACRIHDNLEAAERAAQQLLELLPDNGGS---YVILSNRYSSSRKWKKVK  227 (352)
Q Consensus       177 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~a~  227 (352)
                      -.+..-|.+.|.+..|..-++.+.+..|.+...   ...++.+|.+.|..+.+.
T Consensus       145 ~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  145 LYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            124556888999999999999998887766543   456778888888887544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.40  E-value=0.49  Score=39.87  Aligned_cols=135  Identities=7%  Similarity=-0.013  Sum_probs=103.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH-
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY-  149 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~-  149 (352)
                      ..-++++..+.-.|.+.-.+.++++..+..-+-++.-...|.+.--+.|+.+.|...|++..+. .-..|..+.+.++. 
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 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHh
Confidence            3557788888888999999999999998766667877888888888999999999999988875 44445445544443 


Q ss_pred             ----HHHHcCCHHHHHHHHHhCCCC--CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 048142          150 ----ILGRAGRIAKAEELIKNMPMA--LDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN  206 (352)
Q Consensus       150 ----~~~~~g~~~~A~~~~~~m~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  206 (352)
                          .|.-..++.+|...|.++...  .|++.-|+-.-+..-.|+...|.+..+.+....|.-
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~  319 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRH  319 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence                355577899999999888322  345555666656666789999999999998876643

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.39  E-value=0.028  Score=51.46  Aligned_cols=102  Identities=14%  Similarity=0.078  Sum_probs=63.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHcCC
Q 048142           78 VVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRAGR  156 (352)
Q Consensus        78 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~  156 (352)
                      ++.+..|+++.|+.+|.+.... -++|.+-|+.=..+|++.|++++|.+=-.+-.   .+.|+ +..|+-...++.-.|+
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l-~p~nhvlySnrsaa~a~~~~~~~al~da~k~~---~l~p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIML-SPTNHVLYSNRSAAYASLGSYEKALKDATKTR---RLNPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHcc-CCCccchhcchHHHHHHHhhHHHHHHHHHHHH---hcCCchhhHHHHhHHHHHhccc
Confidence            4455677777777777776664 23466667777777777777777765333332   44553 5667777777777777


Q ss_pred             HHHHHHHHHhC-CCCCc-HHHHHHHHHHH
Q 048142          157 IAKAEELIKNM-PMALD-HFVLGGLLGAC  183 (352)
Q Consensus       157 ~~~A~~~~~~m-~~~p~-~~~~~~li~~~  183 (352)
                      +++|..-|.+- ...|+ ...++.+..++
T Consensus        86 ~~eA~~ay~~GL~~d~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKDPSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHHHHhhcCCchHHHHHhHHHhh
Confidence            77777777653 33444 44555555554

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.27  E-value=0.048  Score=46.12  Aligned_cols=89  Identities=19%  Similarity=0.188  Sum_probs=60.9

Q ss_pred             CCCHHHHHHHHHHHhcc-----CChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC-------------
Q 048142           23 TGDKVTMVSLLLACTHL-----GALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG-------------   84 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g-------------   84 (352)
                      +.|..+|...+..+...     +.++-....++.|.+.|++         +|..+|+.||+.+=+..             
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVe---------rDl~vYk~LlnvfPKgkfiP~nvfQ~~F~H  134 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVE---------RDLDVYKGLLNVFPKGKFIPQNVFQKVFLH  134 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcch---------hhHHHHHHHHHhCcccccccHHHHHHHHhh
Confidence            45777888888777543     4667777778889999999         88899999998876532             


Q ss_pred             ---ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCC
Q 048142           85 ---QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGL  120 (352)
Q Consensus        85 ---~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~  120 (352)
                         +-+-+++++++|...|+.||-.+-..|++++.+.+-
T Consensus       135 YP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  135 YPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             CchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence               223355666666666666666666666666655443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.26  E-value=0.04  Score=36.70  Aligned_cols=54  Identities=13%  Similarity=-0.028  Sum_probs=30.4

Q ss_pred             HHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048142           35 ACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI   98 (352)
Q Consensus        35 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~   98 (352)
                      .+.+.++++.|.++++.+.+.+.          .+...|......+.+.|++++|.+.|++..+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p----------~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDP----------DDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCc----------ccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            44555666666666666655432          2334455555556666666666666666554

>PRK15331 chaperone protein SicA; Provisional

Probab=96.24  E-value=0.19  Score=39.31  Aligned_cols=85  Identities=19%  Similarity=0.216  Sum_probs=62.2

Q ss_pred             HHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHH
Q 048142          151 LGRAGRIAKAEELIKNM-PMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKR  228 (352)
Q Consensus       151 ~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  228 (352)
                      +-..|++++|..+|.-+ -.. -+..-|..|..++-..+++++|+..|.......+.|+..+-.....|...|+.+.|..
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~~  126 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQ  126 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHHH
Confidence            34578888888888776 111 2344566677777778888888888888766666777777777788888888888888


Q ss_pred             HHHHHHh
Q 048142          229 IRELMAE  235 (352)
Q Consensus       229 ~~~~m~~  235 (352)
                      .|....+
T Consensus       127 ~f~~a~~  133 (165)
T PRK15331        127 CFELVNE  133 (165)
T ss_pred             HHHHHHh
Confidence            8887766

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.17  E-value=0.16  Score=45.88  Aligned_cols=131  Identities=13%  Similarity=0.127  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhH-HHHHH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRG-VKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEH-YGCLV  148 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~-~~~li  148 (352)
                      ..|.+.|+...+..-++.|..+|-+..+.| +.|+.+.++++|..++ .|+...|..+|+.=...   -||... -+-.+
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~---f~d~~~y~~kyl  473 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK---FPDSTLYKEKYL  473 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh---CCCchHHHHHHH
Confidence            467777877777777888888888887777 6677777887776655 45667777777664442   233333 34456


Q ss_pred             HHHHHcCCHHHHHHHHHhC--CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 048142          149 YILGRAGRIAKAEELIKNM--PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLPD  205 (352)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~m--~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  205 (352)
                      ..+.+-++-+.|..+|+..  .+..+  ...|..+|.--...|+...+..+-+++.+..|.
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQ  534 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQ  534 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCc
Confidence            6677778888888888754  22223  567888888888888888887777777666553

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.14  E-value=0.51  Score=43.40  Aligned_cols=77  Identities=12%  Similarity=0.064  Sum_probs=53.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCC--CCc--HHHHHHHHHH
Q 048142          107 TFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPM--ALD--HFVLGGLLGA  182 (352)
Q Consensus       107 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~p~--~~~~~~li~~  182 (352)
                      +-.-+..++-+.|+.++|.+.+++|.+.....-.......|+.+|...+.+.++..++.+-..  -|.  ...|+..+--
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLk  340 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLK  340 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHH
Confidence            334566667788999999999999987532222455677889999999999999999887731  132  4566665543


Q ss_pred             H
Q 048142          183 C  183 (352)
Q Consensus       183 ~  183 (352)
                      .
T Consensus       341 a  341 (539)
T PF04184_consen  341 A  341 (539)
T ss_pred             H
Confidence            3

The molecular function of this protein is uncertain.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.04  E-value=1.1  Score=40.36  Aligned_cols=162  Identities=10%  Similarity=0.004  Sum_probs=103.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcC-C-CC-CHhHHHHHHHHHhc---cCCHHHHHHHHHHhhHhcCCCCChhHHHHHH
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIRG-V-KP-DAITFVGVLVACSH---AGLVDERISHFNLMSEKYGIRPSIEHYGCLV  148 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~g-~-~p-~~~t~~~ll~~~~~---~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li  148 (352)
                      .|+-+|....+++..+++.+.|...- + .+ ....-....-++.+   .|+.++|.+++..+... .-.+++.+|..+.
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~-~~~~~~d~~gL~G  224 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES-DENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc-cCCCChHHHHHHH
Confidence            45556999999999999999998641 1 11 11111233445556   89999999999996654 6677888888887


Q ss_pred             HHHHH---------cCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHHhcCC----HHHHHHHH---HH-HH-Hh---CCCC
Q 048142          149 YILGR---------AGRIAKAEELIKNM-PMALDHFVLGGLLGACRIHDN----LEAAERAA---QQ-LL-EL---LPDN  206 (352)
Q Consensus       149 ~~~~~---------~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~----~~~a~~~~---~~-~~-~~---~~~~  206 (352)
                      ..|-.         ....++|...|.+. ..+||..+--++...+...|.    ..+..++-   .. +. ++   ...+
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~d  304 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQD  304 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccccc
Confidence            77653         12467788888776 445553322222222222332    12222222   11 11 11   2335


Q ss_pred             cchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          207 GGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       207 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      -.-+.++..++.-.|+.+.|.+..++|....
T Consensus       305 YWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  305 YWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            5667799999999999999999999998764

>PRK15331 chaperone protein SicA; Provisional

Probab=96.04  E-value=0.12  Score=40.26  Aligned_cols=87  Identities=13%  Similarity=-0.024  Sum_probs=47.4

Q ss_pred             HhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHH
Q 048142           36 CTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVAC  115 (352)
Q Consensus        36 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~  115 (352)
                      +-..|++++|..+|..+...+.          -+..-|..|..++-..+++++|+..|...-..+. -|+..+--.-.++
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~----------~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~  115 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDF----------YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQ  115 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCc----------CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHH
Confidence            3456666666666666655443          3334455555666666666666666655544322 2333344445555


Q ss_pred             hccCCHHHHHHHHHHhhH
Q 048142          116 SHAGLVDERISHFNLMSE  133 (352)
Q Consensus       116 ~~~g~~~~a~~~~~~m~~  133 (352)
                      ...|+.+.|...|.....
T Consensus       116 l~l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        116 LLMRKAAKARQCFELVNE  133 (165)
T ss_pred             HHhCCHHHHHHHHHHHHh
Confidence            566666666666655554

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.03  E-value=0.13  Score=49.00  Aligned_cols=53  Identities=15%  Similarity=0.119  Sum_probs=28.0

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          140 SIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       140 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      +....-.+.+++.+.|.-++|.+.|-+-+. |     ..-+..|...++|.+|.++.++
T Consensus       851 ~s~llp~~a~mf~svGMC~qAV~a~Lr~s~-p-----kaAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  851 DSELLPVMADMFTSVGMCDQAVEAYLRRSL-P-----KAAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             ccchHHHHHHHHHhhchHHHHHHHHHhccC-c-----HHHHHHHHHHHHHHHHHHHHHh
Confidence            344444556666666666666666554431 2     1233445555566666655544

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.99  E-value=0.44  Score=41.63  Aligned_cols=133  Identities=15%  Similarity=0.244  Sum_probs=90.7

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc--cC----ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            7 CEEALLLFREVQHKGLTGDKVTMVSLLLACTH--LG----ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         7 ~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~--~g----~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      +++.+++++.|.+.|+.-+..+|.+.......  ..    ....|..+|+.|++.-.-.+.      ++-..+..|+.. 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs------~~D~~~a~lLA~-  150 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTS------PEDYPFAALLAM-  150 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccC------ccchhHHHHHhc-
Confidence            46677899999999999988888764443332  22    346799999999986543333      666778777765 


Q ss_pred             HhcCC----hHHHHHHHHHHHHcCCCCCHh-HHHHHHHHHhcc-CC--HHHHHHHHHHhhHhcCCCCChhHHHHHH
Q 048142           81 AMCGQ----GNKALEYFYEMQIRGVKPDAI-TFVGVLVACSHA-GL--VDERISHFNLMSEKYGIRPSIEHYGCLV  148 (352)
Q Consensus        81 ~~~g~----~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~-g~--~~~a~~~~~~m~~~~g~~p~~~~~~~li  148 (352)
                       ..++    .+.+..+|+.+.+.|+..+.. -+.+-+-+++.. ..  ...+.++++.+.+. |+++....|..+.
T Consensus       151 -~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~-~~kik~~~yp~lG  224 (297)
T PF13170_consen  151 -TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN-GVKIKYMHYPTLG  224 (297)
T ss_pred             -ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc-CCccccccccHHH
Confidence             3333    456778888888888776543 233333344332 22  44788899999987 9999888876653

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.97  E-value=0.05  Score=49.45  Aligned_cols=98  Identities=12%  Similarity=0.024  Sum_probs=75.1

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHH
Q 048142          140 SIEHYGCLVYILGRAGRIAKAEELIKNM-PMALDH----FVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILS  214 (352)
Q Consensus       140 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li  214 (352)
                      +...++.+..+|.+.|++++|+..|++. ...|+.    .+|.++..+|...|+.++|+..+++..+...+   .|..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn~---~f~~i~  150 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYNL---KFSTIL  150 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcch---hHHHHH
Confidence            5788999999999999999999999985 667774    46999999999999999999999999885222   233221


Q ss_pred             H--HHhhcCChHHHHHHHHHHHhcCCCC
Q 048142          215 N--RYSSSRKWKKVKRIRELMAERNIKK  240 (352)
Q Consensus       215 ~--~~~~~g~~~~a~~~~~~m~~~g~~p  240 (352)
                      .  .+....+.++..++++.+...|...
T Consensus       151 ~DpdL~plR~~pef~eLlee~rk~G~~~  178 (453)
T PLN03098        151 NDPDLAPFRASPEFKELQEEARKGGEDI  178 (453)
T ss_pred             hCcchhhhcccHHHHHHHHHHHHhCCcc
Confidence            1  1223345567888888888888754

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.89  E-value=0.023  Score=33.73  Aligned_cols=40  Identities=28%  Similarity=0.289  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHH
Q 048142          175 VLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILS  214 (352)
Q Consensus       175 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li  214 (352)
                      +|..+...|...|++++|++++++..+..|.|+..+..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La   42 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhh
Confidence            5677888888899999999999998888888887776554

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.82  E-value=0.6  Score=35.70  Aligned_cols=128  Identities=10%  Similarity=0.023  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      ....+|..+.+.+.......+++.+...+. .+...++.++..|++.+ .++....+..       .++.......+..+
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~c   79 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKLC   79 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHHH
Confidence            345678888888899999999999988763 57778889999998764 3444444442       12333444578888


Q ss_pred             HHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh
Q 048142          152 GRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIH-DNLEAAERAAQQLLELLPDNGGSYVILSNRYSS  219 (352)
Q Consensus       152 ~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~  219 (352)
                      .+.+.++++.-++.+++...+      .+..+... ++++.|.+.+.+-     .++..|..++..+..
T Consensus        80 ~~~~l~~~~~~l~~k~~~~~~------Al~~~l~~~~d~~~a~~~~~~~-----~~~~lw~~~~~~~l~  137 (140)
T smart00299       80 EKAKLYEEAVELYKKDGNFKD------AIVTLIEHLGNYEKAIEYFVKQ-----NNPELWAEVLKALLD  137 (140)
T ss_pred             HHcCcHHHHHHHHHhhcCHHH------HHHHHHHcccCHHHHHHHHHhC-----CCHHHHHHHHHHHHc
Confidence            888999999999998874322      22223333 7888888887752     355677777776654

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.80  E-value=0.87  Score=37.43  Aligned_cols=162  Identities=16%  Similarity=0.122  Sum_probs=92.4

Q ss_pred             cCCChhHHHHHHHHHHHCCC--CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGL--TGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~--~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      +.|++.+|.+.|+.+...-.  +-.....-.+..++-+.|+++.|...++...+.-...        |. ..+...+.+.
T Consensus        17 ~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~--------~~-~~~A~Y~~g~   87 (203)
T PF13525_consen   17 QQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNS--------PK-ADYALYMLGL   87 (203)
T ss_dssp             HCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT---------TT-HHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCC--------cc-hhhHHHHHHH
Confidence            57999999999999987521  1124556678889999999999999999988754331        21 1233333332


Q ss_pred             HhcC-------------ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHH
Q 048142           81 AMCG-------------QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCL  147 (352)
Q Consensus        81 ~~~g-------------~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  147 (352)
                      +.-.             ...+|+..               |..++.-|=.....++|...+..+...     =...--.+
T Consensus        88 ~~~~~~~~~~~~~~D~~~~~~A~~~---------------~~~li~~yP~S~y~~~A~~~l~~l~~~-----la~~e~~i  147 (203)
T PF13525_consen   88 SYYKQIPGILRSDRDQTSTRKAIEE---------------FEELIKRYPNSEYAEEAKKRLAELRNR-----LAEHELYI  147 (203)
T ss_dssp             HHHHHHHHHH-TT---HHHHHHHHH---------------HHHHHHH-TTSTTHHHHHHHHHHHHHH-----HHHHHHHH
T ss_pred             HHHHhCccchhcccChHHHHHHHHH---------------HHHHHHHCcCchHHHHHHHHHHHHHHH-----HHHHHHHH
Confidence            2111             12233333               444555555556666666655555432     01111235


Q ss_pred             HHHHHHcCCHHHHHHHHHhC----CCCCc-HHHHHHHHHHHHhcCCHHHHH
Q 048142          148 VYILGRAGRIAKAEELIKNM----PMALD-HFVLGGLLGACRIHDNLEAAE  193 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m----~~~p~-~~~~~~li~~~~~~g~~~~a~  193 (352)
                      ...|.+.|.+..|..-++.+    |..+. ....-.++.++...|..+.+.
T Consensus       148 a~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  148 ARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            66688888888887777766    32222 345566777777777776443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.80  E-value=0.27  Score=44.55  Aligned_cols=131  Identities=15%  Similarity=0.060  Sum_probs=102.1

Q ss_pred             CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcC-CCCChhHHHHHHHHHHHcCCHHHHHHHHHh-CCCCCcHHHH-HHHH
Q 048142          104 DAITFVGVLVACSHAGLVDERISHFNLMSEKYG-IRPSIEHYGCLVYILGRAGRIAKAEELIKN-MPMALDHFVL-GGLL  180 (352)
Q Consensus       104 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~~~~~-~~li  180 (352)
                      =...|...+++-.+..-++.|..+|-+..+. | +.+++..++++|..++ .|+..-|..+|+- |..-||...| +-.+
T Consensus       396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~-~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl  473 (660)
T COG5107         396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKE-GIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYL  473 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhcc-CCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHH
Confidence            3467888999999999999999999999986 7 6789999999999887 5678889999975 3334676555 4456


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCC--cchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          181 GACRIHDNLEAAERAAQQLLELLPDN--GGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       181 ~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      .-+...++-..|..+|+...+....+  ...|..+|+.=++-|++..+..+-+.|.+.
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence            66778889999999999765433223  468999999989999998887776666543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.77  E-value=0.14  Score=46.65  Aligned_cols=62  Identities=16%  Similarity=0.155  Sum_probs=54.4

Q ss_pred             CCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCCh----hHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142          103 PDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSI----EHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       103 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      .+...++.+-.+|.+.|++++|...|++..+   +.|+.    .+|..+..+|...|++++|++.+++.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3567899999999999999999999999875   46763    35899999999999999999999987

>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=95.74  E-value=0.59  Score=35.03  Aligned_cols=140  Identities=11%  Similarity=0.101  Sum_probs=84.8

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  160 (352)
                      .-.|..++..++..+...+.   +..-+|-+|--....-+-+...++++.+-+.+.+.              .+|++...
T Consensus        13 ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis--------------~C~NlKrV   75 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDIS--------------KCGNLKRV   75 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GG--------------G-S-THHH
T ss_pred             HHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCch--------------hhcchHHH
Confidence            34677778888887776542   44456656655555556666666666654432222              23444444


Q ss_pred             HHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCC
Q 048142          161 EELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       161 ~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      ...+-.++  .+..-...-+..+...|.-|.-.+++..+.+...+++.....+..+|.+.|+..++-+++.+.-++|++
T Consensus        76 i~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   76 IECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            44444432  233444556778888999999999999987666778888899999999999999999999999998875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.70  E-value=0.23  Score=47.29  Aligned_cols=260  Identities=12%  Similarity=0.042  Sum_probs=146.2

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHH-cCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 048142           23 TGDKVTMVSLLLACTHLGALEVGMWLHPYIMK-KNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGV  101 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  101 (352)
                      .|.+..|..|.......-.++.|+..|-+... .|++.=..+... .+...-.+=|.+|  -|++++|.++|-+|.+.. 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i-~s~~~q~aei~~~--~g~feeaek~yld~drrD-  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTI-HSKEQQRAEISAF--YGEFEEAEKLYLDADRRD-  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhh-hhHHHHhHhHhhh--hcchhHhhhhhhccchhh-
Confidence            56777787777666666666666666544332 122100000000 1111122223333  477888888887776542 


Q ss_pred             CCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC----ChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHH
Q 048142          102 KPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP----SIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLG  177 (352)
Q Consensus       102 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~  177 (352)
                              ..|...-+.|++-...++++.=    |-..    -...++.+...++....|++|.+.+..-+..      .
T Consensus       765 --------LAielr~klgDwfrV~qL~r~g----~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~------e  826 (1189)
T KOG2041|consen  765 --------LAIELRKKLGDWFRVYQLIRNG----GSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT------E  826 (1189)
T ss_pred             --------hhHHHHHhhhhHHHHHHHHHcc----CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch------H
Confidence                    2445566677776666554331    2121    1456777778888888888888888776532      1


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhh
Q 048142          178 GLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV  257 (352)
Q Consensus       178 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~  257 (352)
                      ..+.++....++++-+.+.+    ..|.+....-.+..++.+.|.-++|.+.|-+   .+.+          .+.++...
T Consensus       827 ~~~ecly~le~f~~LE~la~----~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr---~s~p----------kaAv~tCv  889 (1189)
T KOG2041|consen  827 NQIECLYRLELFGELEVLAR----TLPEDSELLPVMADMFTSVGMCDQAVEAYLR---RSLP----------KAAVHTCV  889 (1189)
T ss_pred             hHHHHHHHHHhhhhHHHHHH----hcCcccchHHHHHHHHHhhchHHHHHHHHHh---ccCc----------HHHHHHHH
Confidence            24455555444544444333    3455666777788888888888888876643   3332          23445555


Q ss_pred             hcCcccCchhhhhcCCHHHHhhhhhhhhHHHHHHHhhhCCCCCCcEEEEcccccccCccchhHHHhhhhcce
Q 048142          258 KAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYNRE  329 (352)
Q Consensus       258 ~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~l~~~~~~~~a~~~~~~~~~~~  329 (352)
                      ....+.+|.++.....-......+..+.      ..++......  .-|...|++|..-+|.+|+++|.+|+
T Consensus       890 ~LnQW~~avelaq~~~l~qv~tliak~a------aqll~~~~~~--eaIe~~Rka~~~~daarll~qmae~e  953 (1189)
T KOG2041|consen  890 ELNQWGEAVELAQRFQLPQVQTLIAKQA------AQLLADANHM--EAIEKDRKAGRHLDAARLLSQMAERE  953 (1189)
T ss_pred             HHHHHHHHHHHHHhccchhHHHHHHHHH------HHHHhhcchH--HHHHHhhhcccchhHHHHHHHHhHHH
Confidence            6666666666655443332333332222      1222221111  23456788999999999999999884

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.68  E-value=0.55  Score=40.31  Aligned_cols=111  Identities=23%  Similarity=0.100  Sum_probs=70.7

Q ss_pred             CCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHc-C--CHHHHHHHHHhC-CCCCc-HHHH
Q 048142          102 KPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRA-G--RIAKAEELIKNM-PMALD-HFVL  176 (352)
Q Consensus       102 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~-g--~~~~A~~~~~~m-~~~p~-~~~~  176 (352)
                      +-|...|-.|-.+|...|+.+.|..-|....+-.|-  ++..+..+..++... |  ...++.++|+++ ...|+ +.+-
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~--n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD--NPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            346677888888888888888888888777653222  444455555544332 2  244677777776 44454 4444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHH
Q 048142          177 GGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSN  215 (352)
Q Consensus       177 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~  215 (352)
                      ..|...+...|++.+|...++.|.+..|++. .+..+|.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~-~rr~~ie  268 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADD-PRRSLIE  268 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCC-chHHHHH
Confidence            4455677888888888888888888777664 4444444

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=95.67  E-value=0.85  Score=36.42  Aligned_cols=151  Identities=13%  Similarity=0.081  Sum_probs=96.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCC-CCChhHHHHHHHHHHHc
Q 048142           76 LIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGI-RPSIEHYGCLVYILGRA  154 (352)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~-~p~~~~~~~li~~~~~~  154 (352)
                      +..+..+.=|++...+-..+-.  ...|+...--.|..+....|+..+|...|++...  |+ .-|....-.+.++....
T Consensus        62 ~~~a~~q~ldP~R~~Rea~~~~--~~ApTvqnr~rLa~al~elGr~~EA~~hy~qals--G~fA~d~a~lLglA~Aqfa~  137 (251)
T COG4700          62 LLMALQQKLDPERHLREATEEL--AIAPTVQNRYRLANALAELGRYHEAVPHYQQALS--GIFAHDAAMLLGLAQAQFAI  137 (251)
T ss_pred             HHHHHHHhcChhHHHHHHHHHH--hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc--cccCCCHHHHHHHHHHHHhh
Confidence            3344444444544443332222  2567777777788888888999899888888875  54 44677777777777778


Q ss_pred             CCHHHHHHHHHhC------CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHH
Q 048142          155 GRIAKAEELIKNM------PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKR  228 (352)
Q Consensus       155 g~~~~A~~~~~~m------~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  228 (352)
                      +++.+|...++++      +-.||  +.-.+...+...|....|+..|+...+--| +...-......+++.|+.+++..
T Consensus       138 ~~~A~a~~tLe~l~e~~pa~r~pd--~~Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         138 QEFAAAQQTLEDLMEYNPAFRSPD--GHLLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             ccHHHHHHHHHHHhhcCCccCCCC--chHHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHH
Confidence            8888888888877      12234  333456778888888888888888776433 22222223345567777766655


Q ss_pred             HHHHH
Q 048142          229 IRELM  233 (352)
Q Consensus       229 ~~~~m  233 (352)
                      -+.++
T Consensus       215 q~~~v  219 (251)
T COG4700         215 QYVAV  219 (251)
T ss_pred             HHHHH
Confidence            44444

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.51  E-value=1.8  Score=41.25  Aligned_cols=202  Identities=13%  Similarity=0.039  Sum_probs=111.5

Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHH-----HHHHHHhcCChH
Q 048142           13 LFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTA-----LIVVLAMCGQGN   87 (352)
Q Consensus        13 ~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~-----li~~~~~~g~~~   87 (352)
                      =+++|++.|-.|+...   +...|+-.|.+.+|-++|.+   .|.+.        +-...|+-     +..-|...|..+
T Consensus       622 EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~---~G~en--------RAlEmyTDlRMFD~aQE~~~~g~~~  687 (1081)
T KOG1538|consen  622 ELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR---SGHEN--------RALEMYTDLRMFDYAQEFLGSGDPK  687 (1081)
T ss_pred             HHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH---cCchh--------hHHHHHHHHHHHHHHHHHhhcCChH
Confidence            3456666676676643   33445667777777766643   33321        11122221     123344444444


Q ss_pred             HHHHHHHHHHHc--C-CCCCHhHHHHHHHHHhccCCHHHHHHHHHH-----hhHhcCCCC---ChhHHHHHHHHHHHcCC
Q 048142           88 KALEYFYEMQIR--G-VKPDAITFVGVLVACSHAGLVDERISHFNL-----MSEKYGIRP---SIEHYGCLVYILGRAGR  156 (352)
Q Consensus        88 ~A~~~~~~m~~~--g-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~-----m~~~~g~~p---~~~~~~~li~~~~~~g~  156 (352)
                      +-..+.++--+.  . -+|..     ....+..+|+.++|..+..+     |.-+.+-..   +..+...+..-+.+...
T Consensus       688 eKKmL~RKRA~WAr~~kePka-----AAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~  762 (1081)
T KOG1538|consen  688 EKKMLIRKRADWARNIKEPKA-----AAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDS  762 (1081)
T ss_pred             HHHHHHHHHHHHhhhcCCcHH-----HHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccc
Confidence            443333322110  1 12322     23344556776666554321     110001111   33444444555566777


Q ss_pred             HHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc----------chHHHHHHHHhhcCChHHH
Q 048142          157 IAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG----------GSYVILSNRYSSSRKWKKV  226 (352)
Q Consensus       157 ~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----------~~~~~li~~~~~~g~~~~a  226 (352)
                      +.-|-++|.+|+..      .+++......++|++|..+.++..+..+.--          .-|.-.-.+|.++|+-.+|
T Consensus       763 ~gLAaeIF~k~gD~------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA  836 (1081)
T KOG1538|consen  763 PGLAAEIFLKMGDL------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREA  836 (1081)
T ss_pred             cchHHHHHHHhccH------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHH
Confidence            88899999999733      3466677888999999999888766433222          2234455789999999999


Q ss_pred             HHHHHHHHhcCCC
Q 048142          227 KRIRELMAERNIK  239 (352)
Q Consensus       227 ~~~~~~m~~~g~~  239 (352)
                      .++++++....+.
T Consensus       837 ~~vLeQLtnnav~  849 (1081)
T KOG1538|consen  837 VQVLEQLTNNAVA  849 (1081)
T ss_pred             HHHHHHhhhhhhh
Confidence            9999998765544

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.37  E-value=0.016  Score=32.28  Aligned_cols=33  Identities=24%  Similarity=0.416  Sum_probs=28.2

Q ss_pred             HHHHHHhCCCCcchHHHHHHHHhhcCChHHHHH
Q 048142          196 AQQLLELLPDNGGSYVILSNRYSSSRKWKKVKR  228 (352)
Q Consensus       196 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  228 (352)
                      |++.++..|.++..|..+...|...|++++|.+
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            566778889999999999999999999998863

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.35  E-value=1.2  Score=36.10  Aligned_cols=219  Identities=22%  Similarity=0.128  Sum_probs=143.1

Q ss_pred             hhHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhccCChHHHHHHHHHHHHc-CCCCCccccccCCcHHHHHHHHHHHHhcC
Q 048142            7 CEEALLLFREVQHKGLT-GDKVTMVSLLLACTHLGALEVGMWLHPYIMKK-NIEVDVGLGMALKDVMTLTALIVVLAMCG   84 (352)
Q Consensus         7 ~~~A~~~~~~m~~~g~~-p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~l~~~~~~~~li~~~~~~g   84 (352)
                      ...+...+......... .....+......+...+.+..+...+...... ...         .....+..+...+...+
T Consensus        39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~  109 (291)
T COG0457          39 LAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLP---------NLAEALLNLGLLLEALG  109 (291)
T ss_pred             HHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhcc---------chHHHHHHHHHHHHHHh
Confidence            34444555444443221 12566677777778888888888887777653 111         44456777777777888


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHhHHHHHHH-HHhccCCHHHHHHHHHHhhHhcCC--CCChhHHHHHHHHHHHcCCHHHHH
Q 048142           85 QGNKALEYFYEMQIRGVKPDAITFVGVLV-ACSHAGLVDERISHFNLMSEKYGI--RPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        85 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~-~~~~~g~~~~a~~~~~~m~~~~g~--~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      ++..+.+.+.........+. ........ .+...|+++.|...+...... .-  ......+......+...++.++|.
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~  187 (291)
T COG0457         110 KYEEALELLEKALALDPDPD-LAEALLALGALYELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEAL  187 (291)
T ss_pred             hHHHHHHHHHHHHcCCCCcc-hHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHH
Confidence            88888888888877543331 22222223 678888999999888887432 21  123344444444566788888888


Q ss_pred             HHHHhC-CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          162 ELIKNM-PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       162 ~~~~~m-~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      ..+... ...++  ...+..+-..+...++.+.|...+.......+.....+..+...+...+.++++...+......
T Consensus       188 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         188 ELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HHHHHHHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888876 33333  5677777788888888888888888888776664445555555555667788888777776543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.22  E-value=0.23  Score=42.21  Aligned_cols=99  Identities=19%  Similarity=0.157  Sum_probs=77.5

Q ss_pred             CcHHHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccC----------------CHHHHHH
Q 048142           68 KDVMTLTALIVVLAMC-----GQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAG----------------LVDERIS  126 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g----------------~~~~a~~  126 (352)
                      +|-.+|-+++..+...     +.++=....++.|.+-|+.-|..+|+.||+.+=+..                .-+-++.
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            5667888888887643     567777778899999999999999999999987643                2345789


Q ss_pred             HHHHhhHhcCCCCChhHHHHHHHHHHHcCCH-HHHHHHHHhC
Q 048142          127 HFNLMSEKYGIRPSIEHYGCLVYILGRAGRI-AKAEELIKNM  167 (352)
Q Consensus       127 ~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~m  167 (352)
                      ++++|.. +|+.||..+-..|++++++.+.. .+..++.--|
T Consensus       145 vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  145 VLEQMEW-HGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HHHHHHH-cCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence            9999988 59999999999999999987763 3344443333

>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=95.20  E-value=0.00081  Score=52.02  Aligned_cols=127  Identities=19%  Similarity=0.182  Sum_probs=68.8

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHH
Q 048142           32 LLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGV  111 (352)
Q Consensus        32 li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  111 (352)
                      ++..+.+.+.+.....+++.+...+..         .+....+.++..|++.++.++.+++++.       .+.+-...+
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~---------~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~   76 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKE---------NNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKA   76 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC----------SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccc---------cCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHH
Confidence            455556666666666777777665543         3455677777777777666666666651       122333456


Q ss_pred             HHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcC
Q 048142          112 LVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHD  187 (352)
Q Consensus       112 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g  187 (352)
                      +..|.+.|.++++.-++.++..- .-.         +..+...+++++|.+++.+.   ++...|..++..|...+
T Consensus        77 ~~~c~~~~l~~~a~~Ly~~~~~~-~~a---------l~i~~~~~~~~~a~e~~~~~---~~~~l~~~l~~~~l~~~  139 (143)
T PF00637_consen   77 LRLCEKHGLYEEAVYLYSKLGNH-DEA---------LEILHKLKDYEEAIEYAKKV---DDPELWEQLLKYCLDSK  139 (143)
T ss_dssp             HHHHHTTTSHHHHHHHHHCCTTH-TTC---------SSTSSSTHCSCCCTTTGGGC---SSSHHHHHHHHHHCTST
T ss_pred             HHHHHhcchHHHHHHHHHHcccH-HHH---------HHHHHHHccHHHHHHHHHhc---CcHHHHHHHHHHHHhcC
Confidence            66666666666666655554321 111         11122334555555444444   24666777776665554

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.

>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=95.10  E-value=0.33  Score=44.95  Aligned_cols=133  Identities=16%  Similarity=0.107  Sum_probs=87.0

Q ss_pred             HHhcCChHHHHHHHHH-HHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHH
Q 048142           80 LAMCGQGNKALEYFYE-MQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA  158 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~-m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~  158 (352)
                      ..-.++++++.++... -.-..++  ..-.+.++..+-+.|..+.|+++...-..             -...-.+.|+++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~~-------------rFeLAl~lg~L~  335 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDPDH-------------RFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HHH-------------HHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCChHH-------------HhHHHHhcCCHH
Confidence            3457888888777751 1111122  33467888888889999999876544332             245566889999


Q ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          159 KAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       159 ~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      .|.++.++..   +...|..|.......|+++.|++.|++..        -|..|+-.|.-.|+.+.-.++-+....+|-
T Consensus       336 ~A~~~a~~~~---~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~--------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~  404 (443)
T PF04053_consen  336 IALEIAKELD---DPEKWKQLGDEALRQGNIELAEECYQKAK--------DFSGLLLLYSSTGDREKLSKLAKIAEERGD  404 (443)
T ss_dssp             HHHHHCCCCS---THHHHHHHHHHHHHTTBHHHHHHHHHHCT---------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHhcC---cHHHHHHHHHHHHHcCCHHHHHHHHHhhc--------CccccHHHHHHhCCHHHHHHHHHHHHHccC
Confidence            9998877664   77899999999999999999999988764        356677777888888777777776666654

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.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.09  E-value=0.15  Score=48.11  Aligned_cols=266  Identities=10%  Similarity=0.012  Sum_probs=146.8

Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCc--cccccCCcHHHHHHHHHHHHhcCC--hHHHHHHHHHHH
Q 048142           22 LTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDV--GLGMALKDVMTLTALIVVLAMCGQ--GNKALEYFYEMQ   97 (352)
Q Consensus        22 ~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~--~~~~~l~~~~~~~~li~~~~~~g~--~~~A~~~~~~m~   97 (352)
                      +.|..+.+.+-+..+...|.+++|.++-.    .|+..+.  .+.+...+...++.-=.+|.+-.+  +-+.+.-+++|+
T Consensus       552 i~~~evp~~~~m~q~Ieag~f~ea~~iac----lgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k  627 (1081)
T KOG1538|consen  552 ISAVEVPQSAPMYQYIERGLFKEAYQIAC----LGVTDTDWRELAMEALEALDFETARKAYIRVRDLRYLELISELEERK  627 (1081)
T ss_pred             eecccccccccchhhhhccchhhhhcccc----cceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            34455556666667778888877754311    1111000  000000233456666677776554  456666778888


Q ss_pred             HcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC----------
Q 048142           98 IRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM----------  167 (352)
Q Consensus        98 ~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----------  167 (352)
                      +.|-.|+...   +...|+-.|++.+|-++|.+-    |...      --+.+|.....+|.|.+++..-          
T Consensus       628 ~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~----G~en------RAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~R  694 (1081)
T KOG1538|consen  628 KRGETPNDLL---LADVFAYQGKFHEAAKLFKRS----GHEN------RALEMYTDLRMFDYAQEFLGSGDPKEKKMLIR  694 (1081)
T ss_pred             hcCCCchHHH---HHHHHHhhhhHHHHHHHHHHc----Cchh------hHHHHHHHHHHHHHHHHHhhcCChHHHHHHHH
Confidence            8998899864   445667789999999988764    3221      1233344444444444443322          


Q ss_pred             --------CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH----------HHHhCCCCcchHHHHHHHHhhcCChHHHHHH
Q 048142          168 --------PMALDHFVLGGLLGACRIHDNLEAAERAAQQ----------LLELLPDNGGSYVILSNRYSSSRKWKKVKRI  229 (352)
Q Consensus       168 --------~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~----------~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  229 (352)
                              -.+|-     +-...+.+.|+.++|..+.-.          ..+....+..+...+...+.+...+.-|.++
T Consensus       695 KRA~WAr~~kePk-----aAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeI  769 (1081)
T KOG1538|consen  695 KRADWARNIKEPK-----AAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEI  769 (1081)
T ss_pred             HHHHHhhhcCCcH-----HHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHH
Confidence                    01222     122334455665555544221          1112333445566666666777788888999


Q ss_pred             HHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHHHHhhhhhhhhHHHHHHHhhhCCCCCCcEEEEccc
Q 048142          230 RELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNL  309 (352)
Q Consensus       230 ~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~l  309 (352)
                      |.+|-+..             .++....+.|++++|..+.+...+ -.......|..-||..-.+        +..-|.+
T Consensus       770 F~k~gD~k-------------siVqlHve~~~W~eAFalAe~hPe-~~~dVy~pyaqwLAE~DrF--------eEAqkAf  827 (1081)
T KOG1538|consen  770 FLKMGDLK-------------SLVQLHVETQRWDEAFALAEKHPE-FKDDVYMPYAQWLAENDRF--------EEAQKAF  827 (1081)
T ss_pred             HHHhccHH-------------HHhhheeecccchHhHhhhhhCcc-ccccccchHHHHhhhhhhH--------HHHHHHH
Confidence            98885321             133335577888888877665542 1122222233333322111        1233578


Q ss_pred             ccccCccchhHHHhhhhcceEE
Q 048142          310 RVCNDCHTATNIISKVYNRETV  331 (352)
Q Consensus       310 ~~~~~~~~a~~~~~~~~~~~~~  331 (352)
                      .++|+..||..++.++.+..+.
T Consensus       828 hkAGr~~EA~~vLeQLtnnav~  849 (1081)
T KOG1538|consen  828 HKAGRQREAVQVLEQLTNNAVA  849 (1081)
T ss_pred             HHhcchHHHHHHHHHhhhhhhh
Confidence            8899999999999999887553

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.97  E-value=0.71  Score=41.31  Aligned_cols=95  Identities=16%  Similarity=0.039  Sum_probs=73.7

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHh
Q 048142          141 IEHYGCLVYILGRAGRIAKAEELIKNM-PMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS  218 (352)
Q Consensus       141 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~  218 (352)
                      ..+++.|..+|.+.+++.+|+..-++. ... +|+...--=-.++...|+++.|...|+++++..|.|-.+-+-|+..-.
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~  336 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQ  336 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            446777888899999999999887776 333 345544444568888999999999999999999999888888888777


Q ss_pred             hcCChHHH-HHHHHHHHh
Q 048142          219 SSRKWKKV-KRIRELMAE  235 (352)
Q Consensus       219 ~~g~~~~a-~~~~~~m~~  235 (352)
                      +..+..+. .++|..|-.
T Consensus       337 k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  337 KIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence            77766554 788888864

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=94.90  E-value=0.92  Score=40.75  Aligned_cols=167  Identities=13%  Similarity=0.018  Sum_probs=115.1

Q ss_pred             CcHHHHHHHH-HHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHh--ccCCHHHHHHHHHHhhHhcCCCCChhHH
Q 048142           68 KDVMTLTALI-VVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACS--HAGLVDERISHFNLMSEKYGIRPSIEHY  144 (352)
Q Consensus        68 ~~~~~~~~li-~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~--~~g~~~~a~~~~~~m~~~~g~~p~~~~~  144 (352)
                      |...+|-.|- .++.-.|++++|...--..++..  + ...+...+++.+  -.++.+.|...|++-+   .+.|+...-
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld--~-~n~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~s  239 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD--A-TNAEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKS  239 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc--c-chhHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhH
Confidence            4445555553 55667888888888776666532  1 223444555544  3678889999888876   456654332


Q ss_pred             HHH-------------HHHHHHcCCHHHHHHHHHhC-C-----CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 048142          145 GCL-------------VYILGRAGRIAKAEELIKNM-P-----MALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPD  205 (352)
Q Consensus       145 ~~l-------------i~~~~~~g~~~~A~~~~~~m-~-----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  205 (352)
                      -.+             .+-..+.|++.+|.+.+.+. .     .+|+...|........+.|+.++|+.-.++..+.++.
T Consensus       240 k~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~s  319 (486)
T KOG0550|consen  240 KSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSS  319 (486)
T ss_pred             HhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHH
Confidence            222             12345789999999999887 3     3455666777777888999999999999998887665


Q ss_pred             CcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCC
Q 048142          206 NGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKK  240 (352)
Q Consensus       206 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  240 (352)
                      -...|..-..++...++|++|.+-+++..+..-.+
T Consensus       320 yikall~ra~c~l~le~~e~AV~d~~~a~q~~~s~  354 (486)
T KOG0550|consen  320 YIKALLRRANCHLALEKWEEAVEDYEKAMQLEKDC  354 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence            55566666667788899999999999876554433

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.73  E-value=2.5  Score=36.43  Aligned_cols=143  Identities=12%  Similarity=0.023  Sum_probs=75.5

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHH
Q 048142           79 VLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIA  158 (352)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~  158 (352)
                      .....|++.+|..+|.......-. +...-..+..+|...|+.+.|..++..+..+ --........+-|..+.+.....
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQ-AQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCccc-chhhHHHHHHHHHHHHHHHhcCC
Confidence            344566677777777666654211 2334445666666777777777776666543 11111222223344455555555


Q ss_pred             HHHHHHHhCCCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCCCCcchHHHHHHHHhhcCCh
Q 048142          159 KAEELIKNMPMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLE--LLPDNGGSYVILSNRYSSSRKW  223 (352)
Q Consensus       159 ~A~~~~~~m~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~  223 (352)
                      +..++-.+..-.| |...--.+...+...|+.+.|.+.+-.+.+  ..-.|...-..|+..+.-.|.-
T Consensus       221 ~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~  288 (304)
T COG3118         221 EIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPA  288 (304)
T ss_pred             CHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCC
Confidence            4445544443344 344444555666666777766665555433  2333445556666666655533

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.43  E-value=0.46  Score=40.20  Aligned_cols=91  Identities=12%  Similarity=0.159  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC---cchHHH
Q 048142          143 HYGCLVYILGRAGRIAKAEELIKNM-------PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN---GGSYVI  212 (352)
Q Consensus       143 ~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~  212 (352)
                      .|+.-++.| +.|++.+|..-|...       ...|+..-|  |..++...|++++|...|..+.+..|..   +...-.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            466555443 456677777777665       234555555  7777777788888877777776654433   344555


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHhc
Q 048142          213 LSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       213 li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      |.....+.|+.++|..+|+++.++
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            666677777778888777777654

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.41  E-value=2.8  Score=39.36  Aligned_cols=165  Identities=17%  Similarity=0.052  Sum_probs=80.5

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcC-CCCCccccccCCcHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCC
Q 048142           30 VSLLLACTHLGALEVGMWLHPYIMKKN-IEVDVGLGMALKDVMTLTALIVVLAM----CGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        30 ~~li~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~~~~l~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      ..+++..+-.|+-+.+++.+.+..+.+ +....  .  .--...|...+..++.    ..+.+.|.+++..+...  -|+
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~l--a--~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~  265 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPL--A--ALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPN  265 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHH--H--HHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCC
Confidence            445555566778888888777655422 21000  0  0112334455544433    34566677777776653  455


Q ss_pred             HhHHHHH-HHHHhccCCHHHHHHHHHHhhHhc-CC-CCChhHHHHHHHHHHHcCCHHHHHHHHHhCC--CCCcHHHHHHH
Q 048142          105 AITFVGV-LVACSHAGLVDERISHFNLMSEKY-GI-RPSIEHYGCLVYILGRAGRIAKAEELIKNMP--MALDHFVLGGL  179 (352)
Q Consensus       105 ~~t~~~l-l~~~~~~g~~~~a~~~~~~m~~~~-g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~p~~~~~~~l  179 (352)
                      ..-|... -+.+...|++++|.+.|+...... .. +.....+--+.-.+.-.++|++|.+.|..+.  .+-+..+|.-+
T Consensus       266 s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~  345 (468)
T PF10300_consen  266 SALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYL  345 (468)
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHH
Confidence            5444322 333445667777777776543210 00 0112223333444555666666666666661  12233334333


Q ss_pred             HHH-HHhcCCH-------HHHHHHHHHHH
Q 048142          180 LGA-CRIHDNL-------EAAERAAQQLL  200 (352)
Q Consensus       180 i~~-~~~~g~~-------~~a~~~~~~~~  200 (352)
                      ..+ +...|+.       ++|.++|+++.
T Consensus       346 ~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  346 AAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            332 2334444       55555555543

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.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.29  E-value=4.4  Score=39.87  Aligned_cols=139  Identities=13%  Similarity=0.042  Sum_probs=76.7

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      +.|++++|...|-+-... +.|     ..+|.-|-.......--.+++.+.+.|+          .+...-+.|+.+|.+
T Consensus       380 ~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gl----------a~~dhttlLLncYiK  443 (933)
T KOG2114|consen  380 GKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGL----------ANSDHTTLLLNCYIK  443 (933)
T ss_pred             hcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHccc----------ccchhHHHHHHHHHH
Confidence            456666666666444332 222     2234445555555555566666666666          344556677777777


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      .++.++-.++.+.-. .|.-  ..-.-..+..|-+.+-.++|..+-....    .  .......   .+-..+++++|++
T Consensus       444 lkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~----~--he~vl~i---lle~~~ny~eAl~  511 (933)
T KOG2114|consen  444 LKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFK----K--HEWVLDI---LLEDLHNYEEALR  511 (933)
T ss_pred             hcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhc----c--CHHHHHH---HHHHhcCHHHHHH
Confidence            777776665554433 2211  0113345666666666666665443332    1  2222222   3445688999999


Q ss_pred             HHHhCCC
Q 048142          163 LIKNMPM  169 (352)
Q Consensus       163 ~~~~m~~  169 (352)
                      +++.+|.
T Consensus       512 yi~slp~  518 (933)
T KOG2114|consen  512 YISSLPI  518 (933)
T ss_pred             HHhcCCH
Confidence            9988863

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.26  E-value=0.31  Score=41.85  Aligned_cols=67  Identities=19%  Similarity=0.196  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh-----cCCCCC
Q 048142          175 VLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE-----RNIKKP  241 (352)
Q Consensus       175 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~  241 (352)
                      ++..++..+...|+.+.+...++++...+|-+...|..++.+|.+.|+...|...|+.+.+     .|+.|.
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~  226 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPA  226 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCcc
Confidence            4455667777788888888888888888888888888888888888888888888887753     677665

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.24  E-value=1.3  Score=33.19  Aligned_cols=88  Identities=18%  Similarity=0.097  Sum_probs=63.3

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhH---HHHHHHHHHHc
Q 048142           78 VVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEH---YGCLVYILGRA  154 (352)
Q Consensus        78 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~---~~~li~~~~~~  154 (352)
                      -+++..|+.+.|++.|.+.... .+-....||.-..++.-.|+.++|..=+++..+-.|-. +...   |-.-...|...
T Consensus        51 valaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHh
Confidence            3456789999999999988874 44467789999999999999999988888877643433 2222   22223356778


Q ss_pred             CCHHHHHHHHHhC
Q 048142          155 GRIAKAEELIKNM  167 (352)
Q Consensus       155 g~~~~A~~~~~~m  167 (352)
                      |+.++|..=|+..
T Consensus       129 g~dd~AR~DFe~A  141 (175)
T KOG4555|consen  129 GNDDAARADFEAA  141 (175)
T ss_pred             CchHHHHHhHHHH
Confidence            8888888877765

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.11  E-value=4.2  Score=36.52  Aligned_cols=220  Identities=14%  Similarity=0.081  Sum_probs=113.4

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHH--HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVT--MVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t--~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .|+++.|.+-|+.|...   |....  .-.|.-.--+.|+-+.|++.-+..-..-..          -.-.+.+.+...+
T Consensus       133 eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~----------l~WA~~AtLe~r~  199 (531)
T COG3898         133 EGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQ----------LPWAARATLEARC  199 (531)
T ss_pred             cCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccC----------CchHHHHHHHHHH
Confidence            47888888888888752   22111  122222335667777777766665543322          1246788889999


Q ss_pred             hcCChHHHHHHHHHHHHcC-CCCCHhH--HHHHHHHHhc---cCCHHHHHHHHHHhhHhcCCCCChhHHH-HHHHHHHHc
Q 048142           82 MCGQGNKALEYFYEMQIRG-VKPDAIT--FVGVLVACSH---AGLVDERISHFNLMSEKYGIRPSIEHYG-CLVYILGRA  154 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g-~~p~~~t--~~~ll~~~~~---~g~~~~a~~~~~~m~~~~g~~p~~~~~~-~li~~~~~~  154 (352)
                      ..|+++.|+++.+.-+... +.++..-  -..|+.+-..   ..+...|...-.+..   .+.||..--. .-..+|.+.
T Consensus       200 ~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~---KL~pdlvPaav~AAralf~d  276 (531)
T COG3898         200 AAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEAN---KLAPDLVPAAVVAARALFRD  276 (531)
T ss_pred             hcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHh---hcCCccchHHHHHHHHHHhc
Confidence            9999999999998776543 4444322  2233332221   123333433322222   3444432211 123456666


Q ss_pred             CCHHHHHHHHHhC-CCCCcHHHHHH---------------------------------HHHHHHhcCCHHHHHHHHHHHH
Q 048142          155 GRIAKAEELIKNM-PMALDHFVLGG---------------------------------LLGACRIHDNLEAAERAAQQLL  200 (352)
Q Consensus       155 g~~~~A~~~~~~m-~~~p~~~~~~~---------------------------------li~~~~~~g~~~~a~~~~~~~~  200 (352)
                      |++.++-.+++.+ +..|.+..+..                                 +..+-...|++..|..-.+...
T Consensus       277 ~~~rKg~~ilE~aWK~ePHP~ia~lY~~ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~  356 (531)
T COG3898         277 GNLRKGSKILETAWKAEPHPDIALLYVRARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA  356 (531)
T ss_pred             cchhhhhhHHHHHHhcCCChHHHHHHHHhcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh
Confidence            7777776666666 33444444422                                 2233333333333333333222


Q ss_pred             HhCCCCcchHHHHHHHHh-hcCChHHHHHHHHHHHhcCCCC
Q 048142          201 ELLPDNGGSYVILSNRYS-SSRKWKKVKRIRELMAERNIKK  240 (352)
Q Consensus       201 ~~~~~~~~~~~~li~~~~-~~g~~~~a~~~~~~m~~~g~~p  240 (352)
                      .. .|....|-.|.+.-. ..|+-.++.+.+.+-...--.|
T Consensus       357 r~-~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         357 RE-APRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             hh-CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            22 233355666655543 3477777777776665544444

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.11  E-value=1.2  Score=34.00  Aligned_cols=82  Identities=13%  Similarity=0.096  Sum_probs=42.9

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD---AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG  145 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~  145 (352)
                      ....|+.-...+ +.|++++|.+.|+.+... .+..   ..+--.|+.++.+.+++++|...+++..+-+--.|+ .-|.
T Consensus        10 ~~~ly~~a~~~l-~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa   86 (142)
T PF13512_consen   10 PQELYQEAQEAL-QKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYA   86 (142)
T ss_pred             HHHHHHHHHHHH-HhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHH
Confidence            333444333333 456677777777766654 2221   233445666666777777777777666654222222 3344


Q ss_pred             HHHHHHHH
Q 048142          146 CLVYILGR  153 (352)
Q Consensus       146 ~li~~~~~  153 (352)
                      ..+.+++.
T Consensus        87 ~Y~~gL~~   94 (142)
T PF13512_consen   87 YYMRGLSY   94 (142)
T ss_pred             HHHHHHHH
Confidence            44444443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.00  E-value=0.74  Score=41.18  Aligned_cols=93  Identities=13%  Similarity=0.050  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVY  149 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~  149 (352)
                      .+++.|.-+|.+.+++.+|++.-++....+ ++|.-..----.+|...|+++.|+..|+.+.+   +.|+ -..-+.|+.
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k---~~P~Nka~~~el~~  333 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK---LEPSNKAARAELIK  333 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH---hCCCcHHHHHHHHH
Confidence            367777788888888888888888877752 34555555566777788888888888888874   4664 344444544


Q ss_pred             HHHHcCCHHH-HHHHHHhC
Q 048142          150 ILGRAGRIAK-AEELIKNM  167 (352)
Q Consensus       150 ~~~~~g~~~~-A~~~~~~m  167 (352)
                      +-.+.....+ ..++|..|
T Consensus       334 l~~k~~~~~~kekk~y~~m  352 (397)
T KOG0543|consen  334 LKQKIREYEEKEKKMYANM  352 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444444433 46677766

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.00  E-value=5.5  Score=37.47  Aligned_cols=161  Identities=13%  Similarity=0.112  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCH-----hHHHHHHHHHhc----cCCHHHHHHHHHHhhHhcCCCCCh
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRG-VKPDA-----ITFVGVLVACSH----AGLVDERISHFNLMSEKYGIRPSI  141 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~-----~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~g~~p~~  141 (352)
                      ....+++..+=.||-+.+++++.+-.+.+ +.-..     .+|...+..++.    ....+.|.++++.+.++   -|+.
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s  266 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNS  266 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCc
Confidence            45667777777899999999998876532 22111     234444444443    45778899999999875   5666


Q ss_pred             hHHHHH-HHHHHHcCCHHHHHHHHHhCC-CC-----CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHH
Q 048142          142 EHYGCL-VYILGRAGRIAKAEELIKNMP-MA-----LDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILS  214 (352)
Q Consensus       142 ~~~~~l-i~~~~~~g~~~~A~~~~~~m~-~~-----p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li  214 (352)
                      ..|.-. .+.+...|++++|.+.|++.- .+     .....+--+.-.+....++++|.+.|..+.+....+..+|..+.
T Consensus       267 ~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~  346 (468)
T PF10300_consen  267 ALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLA  346 (468)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHH
Confidence            555433 345667899999999999752 11     11223333444567788999999999999886666666666555


Q ss_pred             HH-HhhcCCh-------HHHHHHHHHHHh
Q 048142          215 NR-YSSSRKW-------KKVKRIRELMAE  235 (352)
Q Consensus       215 ~~-~~~~g~~-------~~a~~~~~~m~~  235 (352)
                      .+ +...|+.       ++|.++|.+...
T Consensus       347 a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  347 AACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            44 4667878       888888887753

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.95  E-value=1  Score=38.14  Aligned_cols=101  Identities=19%  Similarity=0.109  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCC-CChhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCc-HHHHHHHH
Q 048142          107 TFVGVLVACSHAGLVDERISHFNLMSEKYGIR-PSIEHYGCLVYILGRAGRIAKAEELIKNM----PMALD-HFVLGGLL  180 (352)
Q Consensus       107 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~-~~~~~~li  180 (352)
                      .|+.-+.. .+.|++..|...|....+.|--. -....+--|...+...|++++|..+|..+    |..|- +.+.--|.
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            46666544 45566777777777777653211 12334555777777778888877777766    32222 34445555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCcc
Q 048142          181 GACRIHDNLEAAERAAQQLLELLPDNGG  208 (352)
Q Consensus       181 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~  208 (352)
                      ....+.|+.++|-..++++.+..|.+..
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~t~a  250 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPGTDA  250 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCCCHH
Confidence            6667777788888888877776665543

>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=93.93  E-value=2  Score=32.25  Aligned_cols=57  Identities=18%  Similarity=0.111  Sum_probs=25.1

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142          109 VGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       109 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      ...++++...|+-++-.+++.++.+  .-.+++...-.+..+|.+.|+..+|.+++.+.
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~k--n~~~~p~~L~kia~Ay~klg~~r~~~ell~~A  146 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKK--NEEINPEFLVKIANAYKKLGNTREANELLKEA  146 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhh--ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            3444455555555555555555443  22344444445555555555555555555443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>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=93.87  E-value=2.1  Score=34.27  Aligned_cols=97  Identities=13%  Similarity=-0.010  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH--H
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA--ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG--C  146 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~--~  146 (352)
                      ..+..+...|++.|+.++|++.|.++.+....|..  ..+-.+|......+++..+.....+.........|...-|  .
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            46888999999999999999999999887555553  3467788888889999999888877765311111222211  1


Q ss_pred             HHHH--HHHcCCHHHHHHHHHhC
Q 048142          147 LVYI--LGRAGRIAKAEELIKNM  167 (352)
Q Consensus       147 li~~--~~~~g~~~~A~~~~~~m  167 (352)
                      ...+  +...+++.+|-..|-+.
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHcc
Confidence            1111  23468899888888766

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.84  E-value=1.1  Score=38.58  Aligned_cols=79  Identities=22%  Similarity=0.290  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhH----hcCCCCChhHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSE----KYGIRPSIEHYGCL  147 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~----~~g~~p~~~~~~~l  147 (352)
                      ++..++..+...|+.+.+.+.++++... -+-|...|..++.+|.+.|+...|+..|+.+.+    ..|+.|.+.+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~-dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIEL-DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc-CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            5667777777777777777777777766 455777777777777777777777777766654    34777777776666


Q ss_pred             HHHH
Q 048142          148 VYIL  151 (352)
Q Consensus       148 i~~~  151 (352)
                      ....
T Consensus       234 ~~~~  237 (280)
T COG3629         234 EEIL  237 (280)
T ss_pred             HHHh
Confidence            5553

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.33  E-value=0.23  Score=27.89  Aligned_cols=26  Identities=27%  Similarity=0.353  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQ   97 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~   97 (352)
                      +|+.|...|.+.|++++|+++|++..
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            46777788888888888888888744

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.30  E-value=4.3  Score=34.04  Aligned_cols=218  Identities=11%  Similarity=0.042  Sum_probs=117.4

Q ss_pred             hhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            7 CEEALLLFREVQHKGLTGD----KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         7 ~~~A~~~~~~m~~~g~~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      ..+|.+....-... ..||    ...|-....+|-...++++|..-+.+..+. .+-+...+   .-.-+|...+-..-.
T Consensus         9 i~ea~e~~a~t~~~-wkad~dgaas~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslf---hAAKayEqaamLake   83 (308)
T KOG1585|consen    9 ISEADEMTALTLTR-WKADWDGAASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLF---HAAKAYEQAAMLAKE   83 (308)
T ss_pred             HHHHHHHHHHHhhc-cCCCchhhHHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHH---HHHHHHHHHHHHHHH
Confidence            34444444433322 3444    455666777777888888887766665531 11111000   011123333333333


Q ss_pred             cCChHHHHHHHHHHH----HcCCCCCHhHHHH-HHHHHhccCCHHHHHHHHHHhhHhcCC----CCChhHHHHHHHHHHH
Q 048142           83 CGQGNKALEYFYEMQ----IRGVKPDAITFVG-VLVACSHAGLVDERISHFNLMSEKYGI----RPSIEHYGCLVYILGR  153 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~----~~g~~p~~~t~~~-ll~~~~~~g~~~~a~~~~~~m~~~~g~----~p~~~~~~~li~~~~~  153 (352)
                      ...+.++..++++..    +.| .||+..... -..-.....++++|+++|++-..-...    ..-...+..+-..|.+
T Consensus        84 ~~klsEvvdl~eKAs~lY~E~G-spdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVr  162 (308)
T KOG1585|consen   84 LSKLSEVVDLYEKASELYVECG-SPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVR  162 (308)
T ss_pred             HHHhHHHHHHHHHHHHHHHHhC-CcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhh
Confidence            344556666665543    223 334332210 011112345667777777665432111    1113345556667777


Q ss_pred             cCCHHHHHHHHHhCC-------CCCcH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH----hCCCCcchHHHHHHHHhhcC
Q 048142          154 AGRIAKAEELIKNMP-------MALDH-FVLGGLLGACRIHDNLEAAERAAQQLLE----LLPDNGGSYVILSNRYSSSR  221 (352)
Q Consensus       154 ~g~~~~A~~~~~~m~-------~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~~li~~~~~~g  221 (352)
                      ..++++|-..|.+-+       ..|+. ..|-+.|-.+.-..++..|++.++.-.+    ..+.+..+...|+.+| ..|
T Consensus       163 l~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~g  241 (308)
T KOG1585|consen  163 LEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEG  241 (308)
T ss_pred             hHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccC
Confidence            788888766665542       12232 3345555566667789999999988543    2466778889999988 678


Q ss_pred             ChHHHHHHHH
Q 048142          222 KWKKVKRIRE  231 (352)
Q Consensus       222 ~~~~a~~~~~  231 (352)
                      +.+++.++..
T Consensus       242 D~E~~~kvl~  251 (308)
T KOG1585|consen  242 DIEEIKKVLS  251 (308)
T ss_pred             CHHHHHHHHc
Confidence            8888877644

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.27  E-value=4  Score=37.96  Aligned_cols=155  Identities=15%  Similarity=0.026  Sum_probs=100.0

Q ss_pred             hccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHh
Q 048142           37 THLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACS  116 (352)
Q Consensus        37 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~  116 (352)
                      .-.++++.+.++...   ..+.|.+      | ....+.++.-+-+.|..+.|+.+-..         ..   .-.....
T Consensus       272 v~~~d~~~v~~~i~~---~~ll~~i------~-~~~~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl  329 (443)
T PF04053_consen  272 VLRGDFEEVLRMIAA---SNLLPNI------P-KDQGQSIARFLEKKGYPELALQFVTD---------PD---HRFELAL  329 (443)
T ss_dssp             HHTT-HHH-----HH---HHTGGG---------HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHH
T ss_pred             HHcCChhhhhhhhhh---hhhcccC------C-hhHHHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHH
Confidence            456788877665531   1122222      3 34588899999999999999877543         22   2334456


Q ss_pred             ccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 048142          117 HAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAA  196 (352)
Q Consensus       117 ~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~  196 (352)
                      +.|+++.|.++.++       .++...|..|.+...+.|+++-|.+.|++.+      -|..|+-.|...|+.+.-.++.
T Consensus       330 ~lg~L~~A~~~a~~-------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~------d~~~L~lLy~~~g~~~~L~kl~  396 (443)
T PF04053_consen  330 QLGNLDIALEIAKE-------LDDPEKWKQLGDEALRQGNIELAEECYQKAK------DFSGLLLLYSSTGDREKLSKLA  396 (443)
T ss_dssp             HCT-HHHHHHHCCC-------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT-------HHHHHHHHHHCT-HHHHHHHH
T ss_pred             hcCCHHHHHHHHHh-------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc------CccccHHHHHHhCCHHHHHHHH
Confidence            78999999875332       3477899999999999999999999999986      2556777788889988877777


Q ss_pred             HHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHH
Q 048142          197 QQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       197 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      +......     -++....++.-.|+.++..+++.
T Consensus       397 ~~a~~~~-----~~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  397 KIAEERG-----DINIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HHHHHTT------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HHHHHcc-----CHHHHHHHHHHcCCHHHHHHHHH
Confidence            6665432     24555555666677777776665

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.

>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=93.26  E-value=5.1  Score=34.75  Aligned_cols=226  Identities=10%  Similarity=-0.022  Sum_probs=121.9

Q ss_pred             cCCChhHHHHHHHHHHHCC--CCCCH------HHHHHHHHHHhccCChHHHHHHHHHHHHc----C-CCCCccccccCCc
Q 048142            3 EDSACEEALLLFREVQHKG--LTGDK------VTMVSLLLACTHLGALEVGMWLHPYIMKK----N-IEVDVGLGMALKD   69 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g--~~p~~------~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g-~~~~~~~~~~l~~   69 (352)
                      +.|+.+.|..++.+....-  ..|+.      ..|+.-.+.+.+..+++.|...+++..+.    + ......-+.. .-
T Consensus         5 ~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~e-lr   83 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSE-LR   83 (278)
T ss_pred             hhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHH-HH
Confidence            6799999999999887632  34433      23444444443333787777766655443    1 1111100000 12


Q ss_pred             HHHHHHHHHHHHhcCChH---HHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHH
Q 048142           70 VMTLTALIVVLAMCGQGN---KALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGC  146 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~  146 (352)
                      ..+...|+.+|...+..+   +|..+++.+... ..-....|..-+..+.+.++.+.+.+++.+|...  +......+..
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~--~~~~e~~~~~  160 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS--VDHSESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh--cccccchHHH
Confidence            245677888888877655   456666666543 2222455656677777799999999999999975  3323334444


Q ss_pred             HHHHH---HHcCCHHHHHHHHHhC---CCCCcHHHH--HHHHHH---HHhcCC------HHHHHHHHHHHHH--hCCCCc
Q 048142          147 LVYIL---GRAGRIAKAEELIKNM---PMALDHFVL--GGLLGA---CRIHDN------LEAAERAAQQLLE--LLPDNG  207 (352)
Q Consensus       147 li~~~---~~~g~~~~A~~~~~~m---~~~p~~~~~--~~li~~---~~~~g~------~~~a~~~~~~~~~--~~~~~~  207 (352)
                      .+..+   .... .+.|...+..+   .+.|....|  ..++.-   ....++      ++....+++.+.+  ..+.+.
T Consensus       161 ~l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~  239 (278)
T PF08631_consen  161 ILHHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSA  239 (278)
T ss_pred             HHHHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCH
Confidence            44444   4433 34455555444   233333212  111111   112111      4444555554333  233333


Q ss_pred             chHHHH-------HHHHhhcCChHHHHHHHHHH
Q 048142          208 GSYVIL-------SNRYSSSRKWKKVKRIRELM  233 (352)
Q Consensus       208 ~~~~~l-------i~~~~~~g~~~~a~~~~~~m  233 (352)
                      .+-..+       ...+.+.+++++|.+.|+--
T Consensus       240 ~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  240 EAASAIHTLLWNKGKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence            333222       23466889999999998743

It is also involved in sporulation [].

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.56  E-value=6.3  Score=34.01  Aligned_cols=150  Identities=13%  Similarity=0.044  Sum_probs=96.5

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      ...++.. .......|++.+|..+|+........          +...--.|+.+|...|+.+.|..++..+...--...
T Consensus       134 ~e~~~~~-~~~~~~~e~~~~a~~~~~~al~~~~~----------~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~  202 (304)
T COG3118         134 EEEALAE-AKELIEAEDFGEAAPLLKQALQAAPE----------NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKA  202 (304)
T ss_pred             HHHHHHH-hhhhhhccchhhHHHHHHHHHHhCcc----------cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhH
Confidence            3444333 33457889999999999998876542          334566788999999999999999998765432223


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-----CCCCcHHHHHH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-----PMALDHFVLGG  178 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-----~~~p~~~~~~~  178 (352)
                      ......-|..+.+.....+...+-.+.-    -.| |...--.+...|...|+.++|.+.+-.+     +. -|...=..
T Consensus       203 ~~~l~a~i~ll~qaa~~~~~~~l~~~~a----adPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~-~d~~~Rk~  277 (304)
T COG3118         203 AHGLQAQIELLEQAAATPEIQDLQRRLA----ADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGF-EDGEARKT  277 (304)
T ss_pred             HHHHHHHHHHHHHHhcCCCHHHHHHHHH----hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc-cCcHHHHH
Confidence            3332333445555555554444444443    245 6667777888899999999998876554     22 24444555


Q ss_pred             HHHHHHhcCCHH
Q 048142          179 LLGACRIHDNLE  190 (352)
Q Consensus       179 li~~~~~~g~~~  190 (352)
                      |+..+-..|..|
T Consensus       278 lle~f~~~g~~D  289 (304)
T COG3118         278 LLELFEAFGPAD  289 (304)
T ss_pred             HHHHHHhcCCCC
Confidence            666555555333

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=92.26  E-value=4.1  Score=31.14  Aligned_cols=52  Identities=19%  Similarity=0.216  Sum_probs=25.2

Q ss_pred             HcCCHHHHHHHHHhC----CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          153 RAGRIAKAEELIKNM----PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       153 ~~g~~~~A~~~~~~m----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                      +.|++++|.+.|+.+    |..| ....--.|+.++.+.+++++|...+++..++.|
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP   78 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHP   78 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            445555555555554    1111 123333455555555555555555555555444

>PRK11906 transcriptional regulator; Provisional

Probab=92.23  E-value=9.4  Score=35.25  Aligned_cols=145  Identities=14%  Similarity=0.080  Sum_probs=84.6

Q ss_pred             hhHHHHHHHHHHH-CCCCCC-HHHHHHHHHHHhc---------cCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHH
Q 048142            7 CEEALLLFREVQH-KGLTGD-KVTMVSLLLACTH---------LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTA   75 (352)
Q Consensus         7 ~~~A~~~~~~m~~-~g~~p~-~~t~~~li~~~~~---------~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~   75 (352)
                      .+.|+.+|.+... ..+.|+ ...|..+..++..         ..+..+|.++-+...+.+.          .|...-..
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~----------~Da~a~~~  343 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITT----------VDGKILAI  343 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCC----------CCHHHHHH
Confidence            4677888888772 235554 3344333333221         1233455666666665543          45555556


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC---hhHHHHHHHHH
Q 048142           76 LIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS---IEHYGCLVYIL  151 (352)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~---~~~~~~li~~~  151 (352)
                      +..++.-.++++.|..+|++...  +.|| +.+|...--.+.-.|+.++|.+.+++..+   +.|.   .......++.|
T Consensus       344 ~g~~~~~~~~~~~a~~~f~rA~~--L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr---LsP~~~~~~~~~~~~~~~  418 (458)
T PRK11906        344 MGLITGLSGQAKVSHILFEQAKI--HSTDIASLYYYRALVHFHNEKIEEARICIDKSLQ---LEPRRRKAVVIKECVDMY  418 (458)
T ss_pred             HHHHHHhhcchhhHHHHHHHHhh--cCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc---cCchhhHHHHHHHHHHHH
Confidence            66666667778888888888776  4555 33444444445567888888888877543   3453   33333445566


Q ss_pred             HHcCCHHHHHHHHHhC
Q 048142          152 GRAGRIAKAEELIKNM  167 (352)
Q Consensus       152 ~~~g~~~~A~~~~~~m  167 (352)
                      +.. .+++|..++-+-
T Consensus       419 ~~~-~~~~~~~~~~~~  433 (458)
T PRK11906        419 VPN-PLKNNIKLYYKE  433 (458)
T ss_pred             cCC-chhhhHHHHhhc
Confidence            654 477777776543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=92.07  E-value=8.4  Score=34.33  Aligned_cols=224  Identities=13%  Similarity=0.073  Sum_probs=134.2

Q ss_pred             cCCChhHHHHHHHHHHHC--CCCCCHHHHHHHHHHHhccCChHHHHHHHH-HHHH-cCCCCCccccccCCcHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHK--GLTGDKVTMVSLLLACTHLGALEVGMWLHP-YIMK-KNIEVDVGLGMALKDVMTLTALIV   78 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~--g~~p~~~t~~~li~~~~~~g~~~~a~~~~~-~m~~-~g~~~~~~~~~~l~~~~~~~~li~   78 (352)
                      +..+.++|+..+.+-..+  ....--.+|..+..+.++.|.+++++..-- +|.- ...+...      .-...|-.+-.
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~------~~~ea~lnlar   91 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSD------FLLEAYLNLAR   91 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHH
Confidence            355677787777666542  111123567778888888888877654322 1111 0011000      22345666666


Q ss_pred             HHHhcCChHHHHHHHHHHHH-cCCCCC---HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCC--CC--ChhHHHHHHHH
Q 048142           79 VLAMCGQGNKALEYFYEMQI-RGVKPD---AITFVGVLVACSHAGLVDERISHFNLMSEKYGI--RP--SIEHYGCLVYI  150 (352)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~-~g~~p~---~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~--~p--~~~~~~~li~~  150 (352)
                      ++-+.-++.+++.+-..-.. .|..|-   -....++-.++...+-++++.+.|+...+...-  .|  ...+|-.|-..
T Consensus        92 ~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgsl  171 (518)
T KOG1941|consen   92 SNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSL  171 (518)
T ss_pred             HHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHH
Confidence            66666666666665554332 233331   123345666777778899999988887653111  12  35678889999


Q ss_pred             HHHcCCHHHHHHHHHhC-------CCCCcHHHHHHH-----HHHHHhcCCHHHHHHHHHHHHH--hCCCCcchH----HH
Q 048142          151 LGRAGRIAKAEELIKNM-------PMALDHFVLGGL-----LGACRIHDNLEAAERAAQQLLE--LLPDNGGSY----VI  212 (352)
Q Consensus       151 ~~~~g~~~~A~~~~~~m-------~~~p~~~~~~~l-----i~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~----~~  212 (352)
                      |.+..++++|.-+..+.       ++.--..-|..+     .-++...|....|.+..++..+  ....|..+|    -.
T Consensus       172 f~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~  251 (518)
T KOG1941|consen  172 FAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLC  251 (518)
T ss_pred             HHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHH
Confidence            99999998876655443       332112333333     3467788888888888888544  233344444    46


Q ss_pred             HHHHHhhcCChHHHHHHHHH
Q 048142          213 LSNRYSSSRKWKKVKRIREL  232 (352)
Q Consensus       213 li~~~~~~g~~~~a~~~~~~  232 (352)
                      +.+.|-..|+.|.|..-|+.
T Consensus       252 ~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  252 FADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHHHHHhcccHhHHHHHHHH
Confidence            77889999999988776664

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.94  E-value=7.4  Score=34.30  Aligned_cols=117  Identities=13%  Similarity=-0.027  Sum_probs=49.2

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHH--HHHHh
Q 048142            5 SACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALI--VVLAM   82 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li--~~~~~   82 (352)
                      |++-+|-..++++.+. .+.|..+++-.=++|.-.|+...-...++++... ..++.      | ..+|-.=|  -++..
T Consensus       117 g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dl------p-~~sYv~GmyaFgL~E  187 (491)
T KOG2610|consen  117 GKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADL------P-CYSYVHGMYAFGLEE  187 (491)
T ss_pred             ccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCC------c-HHHHHHHHHHhhHHH
Confidence            4444444444444443 2334445555555555555555554444444322 11111      1 11222111  22334


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHh
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLM  131 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  131 (352)
                      .|-+++|.+.-++..+-+ +.|.-+-.++...+-..|++.++.++..+-
T Consensus       188 ~g~y~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  188 CGIYDDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             hccchhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence            555555555544444321 123333344444444555555555544433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=91.76  E-value=0.54  Score=42.16  Aligned_cols=193  Identities=15%  Similarity=0.061  Sum_probs=109.2

Q ss_pred             HHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHH--H--cCCC-CCHhHHH
Q 048142           35 ACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQ--I--RGVK-PDAITFV  109 (352)
Q Consensus        35 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~--~g~~-p~~~t~~  109 (352)
                      -+|+.|+...+..+|+..++.|-+ |..     .-..+|..|.++|.-.+++++|++.-..=.  .  .|-+ -.+.+-.
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTe-Dl~-----tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssg   99 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTE-DLS-----TLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSG   99 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcch-HHH-----HHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccc
Confidence            479999999999999999998853 211     223568888999999999999998643210  0  0110 0112222


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhhH---hcCCC-CChhHHHHHHHHHHHcCC--------------------HHHHHHHHH
Q 048142          110 GVLVACSHAGLVDERISHFNLMSE---KYGIR-PSIEHYGCLVYILGRAGR--------------------IAKAEELIK  165 (352)
Q Consensus       110 ~ll~~~~~~g~~~~a~~~~~~m~~---~~g~~-p~~~~~~~li~~~~~~g~--------------------~~~A~~~~~  165 (352)
                      .|-+.+--.|.+++|.-...+-..   ..|-. .....+-.|...|...|+                    ++.|.++|.
T Consensus       100 NLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~  179 (639)
T KOG1130|consen  100 NLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYM  179 (639)
T ss_pred             cccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHH
Confidence            333333344555555433222111   01111 122333344555544332                    233444443


Q ss_pred             h-------CCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----C-CCCcchHHHHHHHHhhcCChHHHHHHHH
Q 048142          166 N-------MPMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLEL-----L-PDNGGSYVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       166 ~-------m~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~-~~~~~~~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      +       ++.. .-...|.+|-+.|.-.|+++.|+...+.-+..     + ......+..+.+++.-.|+++.|.+.|+
T Consensus       180 eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK  259 (639)
T KOG1130|consen  180 ENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYK  259 (639)
T ss_pred             HHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHH
Confidence            2       1211 11345666777777788888888877763321     1 1234567788888888888888888777


Q ss_pred             HH
Q 048142          232 LM  233 (352)
Q Consensus       232 ~m  233 (352)
                      .-
T Consensus       260 ~t  261 (639)
T KOG1130|consen  260 LT  261 (639)
T ss_pred             HH
Confidence            54

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.66  E-value=0.9  Score=26.72  Aligned_cols=28  Identities=18%  Similarity=0.061  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIR   99 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~   99 (352)
                      +|..+...|...|++++|.++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5666777777788888888888877774

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.66  E-value=5.6  Score=31.43  Aligned_cols=89  Identities=17%  Similarity=0.139  Sum_probs=38.6

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCL  147 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  147 (352)
                      |+...|..+|+.+.+.|++..    +.++...++-||.......+-.+..  ....+.++--+|.++.+.     .+..+
T Consensus        27 ~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkRL~~-----~~~~i   95 (167)
T PF07035_consen   27 VQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKRLGT-----AYEEI   95 (167)
T ss_pred             CCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHHhhh-----hHHHH
Confidence            444455555555555554332    3334444455555444433322221  222233333333332110     13344


Q ss_pred             HHHHHHcCCHHHHHHHHHhC
Q 048142          148 VYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m  167 (352)
                      +..+...|++-+|+++.++.
T Consensus        96 ievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   96 IEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             HHHHHhCCCHHHHHHHHHHc
Confidence            45555555555555555543

>PRK11906 transcriptional regulator; Provisional

Probab=91.63  E-value=11  Score=34.80  Aligned_cols=162  Identities=12%  Similarity=0.011  Sum_probs=100.9

Q ss_pred             HHH--HHHHHHHhcc-----CChHHHHHHHHHHHHc-CCCCCccccccCCcHHHHHHHHHHHHh---------cCChHHH
Q 048142           27 VTM--VSLLLACTHL-----GALEVGMWLHPYIMKK-NIEVDVGLGMALKDVMTLTALIVVLAM---------CGQGNKA   89 (352)
Q Consensus        27 ~t~--~~li~~~~~~-----g~~~~a~~~~~~m~~~-g~~~~~~~~~~l~~~~~~~~li~~~~~---------~g~~~~A   89 (352)
                      ..|  ...+.+....     ...+.|..+|.+.... ..+|+        ....|..+..++..         ..+..+|
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~--------~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a  323 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTL--------KTECYCLLAECHMSLALHGKSELELAAQKA  323 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcc--------cHHHHHHHHHHHHHHHHhcCCCchHHHHHH
Confidence            455  5566665442     2456788889988832 23321        22334444333322         2345567


Q ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHh-C
Q 048142           90 LEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRAGRIAKAEELIKN-M  167 (352)
Q Consensus        90 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~-m  167 (352)
                      .++-++..+.+ .-|+.....+-.+....++++.|...|++..   .+.|| ..+|....-...-+|+.++|.+.+++ +
T Consensus       324 ~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~---~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~al  399 (458)
T PRK11906        324 LELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAK---IHSTDIASLYYYRALVHFHNEKIEEARICIDKSL  399 (458)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHh---hcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            77777777653 3367777777777777888999999999986   45674 34444444455668999999999998 4


Q ss_pred             CCCCc---HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048142          168 PMALD---HFVLGGLLGACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       168 ~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      ...|.   .......+..|+.++ .+.|++++-+-.+
T Consensus       400 rLsP~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  435 (458)
T PRK11906        400 QLEPRRRKAVVIKECVDMYVPNP-LKNNIKLYYKETE  435 (458)
T ss_pred             ccCchhhHHHHHHHHHHHHcCCc-hhhhHHHHhhccc
Confidence            54554   344444555666554 7888887765443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.56  E-value=15  Score=36.02  Aligned_cols=128  Identities=14%  Similarity=0.071  Sum_probs=94.1

Q ss_pred             HHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          125 ISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       125 ~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                      +.+.+.+..++|.....-+.+--+.-+...|+-.+|.++-.+.. -||-..|-.-+.+++..+++++-+++.+..+    
T Consensus       668 l~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-ipdKr~~wLk~~aLa~~~kweeLekfAkskk----  742 (829)
T KOG2280|consen  668 LKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-IPDKRLWWLKLTALADIKKWEELEKFAKSKK----  742 (829)
T ss_pred             HHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-CcchhhHHHHHHHHHhhhhHHHHHHHHhccC----
Confidence            34445555555654444445555667778899999999999987 4799999899999999999998777655443    


Q ss_pred             CCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhc
Q 048142          205 DNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFD  271 (352)
Q Consensus       205 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~  271 (352)
                       .+.-|...+.+|.+.|+.++|.+++-+.....             ..+..+.+.|.+.+|.++..+
T Consensus       743 -sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l~-------------ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  743 -SPIGYLPFVEACLKQGNKDEAKKYIPRVGGLQ-------------EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             -CCCCchhHHHHHHhcccHHHHhhhhhccCChH-------------HHHHHHHHhccHHHHHHHHHH
Confidence             25788999999999999999999987553211             244557788888877776543

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.32  E-value=0.63  Score=25.41  Aligned_cols=31  Identities=29%  Similarity=0.080  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          174 FVLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       174 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                      .+|..+...+...|++++|+..|++.++..|
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p   32 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCc
Confidence            3556666666667777777777766666554

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 ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.29  E-value=0.62  Score=25.44  Aligned_cols=28  Identities=21%  Similarity=0.135  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQI   98 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~   98 (352)
                      .+|..+..+|...|++++|+..|++..+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            4677888888888888888888888776

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 ....

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.12  E-value=3.3  Score=36.41  Aligned_cols=157  Identities=10%  Similarity=0.007  Sum_probs=105.3

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCCh----hHHHHHHHHHHHcCCH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSI----EHYGCLVYILGRAGRI  157 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~----~~~~~li~~~~~~g~~  157 (352)
                      -.|+..+|-..++++.+. .+-|..++.-.=.+|.-.|+.+.-...++++...  ..||.    .+...+.-++..+|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            467777888888888775 6667778888888888899988888888887753  34444    3333444556678999


Q ss_pred             HHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC----CcchHHHHHHHHhhcCChHHHHHHHH
Q 048142          158 AKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPD----NGGSYVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       158 ~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      ++|++.-++. .++| |.-.-.++...+-.+|+.+++.++..+-.+....    -...|-...-.+...+.++.|+++|+
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9999888876 4443 5566667777777888888888877665442211    11122223334566689999999998


Q ss_pred             HHHhcCCCCC
Q 048142          232 LMAERNIKKP  241 (352)
Q Consensus       232 ~m~~~g~~p~  241 (352)
                      .=.-.....+
T Consensus       272 ~ei~k~l~k~  281 (491)
T KOG2610|consen  272 REIWKRLEKD  281 (491)
T ss_pred             HHHHHHhhcc
Confidence            7544334333

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=90.89  E-value=5.5  Score=29.96  Aligned_cols=51  Identities=16%  Similarity=-0.008  Sum_probs=27.8

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMK   54 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~   54 (352)
                      ..|+.+.|++.|.+.... .+-....||.-..++--.|+.++|++=+++..+
T Consensus        55 E~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~Ale  105 (175)
T KOG4555|consen   55 EAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALE  105 (175)
T ss_pred             hccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence            345566666666555542 122455566666666556666666555555544

>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=90.78  E-value=6.9  Score=30.91  Aligned_cols=137  Identities=13%  Similarity=0.159  Sum_probs=94.5

Q ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcC--CHHHHHHHHHhC
Q 048142           90 LEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAG--RIAKAEELIKNM  167 (352)
Q Consensus        90 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m  167 (352)
                      ++.++.+.+.|++|+...+..+++.+.+.|.+..-..    +.. +++-+|.......+-.+....  -..-|++.+.++
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~q----llq-~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL   88 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQ----LLQ-YHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRL   88 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH----HHh-hcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHh
Confidence            4566667778999999999999999999998765444    445 477777666555554433322  144567777777


Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCC
Q 048142          168 PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       168 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      +.     .+..++..+...|++-+|.++.+......   ......++.+-.+.+|...-..+++-..+++.+
T Consensus        89 ~~-----~~~~iievLL~~g~vl~ALr~ar~~~~~~---~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n~~  152 (167)
T PF07035_consen   89 GT-----AYEEIIEVLLSKGQVLEALRYARQYHKVD---SVPARKFLEAAANSNDDQLFYAVFRFFEERNLR  152 (167)
T ss_pred             hh-----hHHHHHHHHHhCCCHHHHHHHHHHcCCcc---cCCHHHHHHHHHHcCCHHHHHHHHHHHHHhhHh
Confidence            52     34557778889999999999988764322   223356777777788877777777777665543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.58  E-value=12  Score=37.17  Aligned_cols=80  Identities=19%  Similarity=0.195  Sum_probs=36.9

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHH
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~  159 (352)
                      +.+.|++++|...|-+-... +.|.     .+|.-|..+.+...-..+++.+.+. |+.- ..+-..|+.+|.+.++.++
T Consensus       378 Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~-gla~-~dhttlLLncYiKlkd~~k  449 (933)
T KOG2114|consen  378 LYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKK-GLAN-SDHTTLLLNCYIKLKDVEK  449 (933)
T ss_pred             HHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHc-cccc-chhHHHHHHHHHHhcchHH
Confidence            34556666666655544332 2222     2333444444444444455555543 4332 2223345555555555555


Q ss_pred             HHHHHHhC
Q 048142          160 AEELIKNM  167 (352)
Q Consensus       160 A~~~~~~m  167 (352)
                      -.++.+.-
T Consensus       450 L~efI~~~  457 (933)
T KOG2114|consen  450 LTEFISKC  457 (933)
T ss_pred             HHHHHhcC
Confidence            44444433

>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=90.57  E-value=6.9  Score=30.57  Aligned_cols=65  Identities=17%  Similarity=0.234  Sum_probs=34.4

Q ss_pred             hccCCHHHHHHHHHHhhHhcCCCCC---hhHHHHHHHHHHHcCCHHHHHHHHHhCC-CCCcHHHHHHHHHHHHh
Q 048142          116 SHAGLVDERISHFNLMSEKYGIRPS---IEHYGCLVYILGRAGRIAKAEELIKNMP-MALDHFVLGGLLGACRI  185 (352)
Q Consensus       116 ~~~g~~~~a~~~~~~m~~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~li~~~~~  185 (352)
                      .+.++.+++..++..+..   +.|.   ..++..+  .+.+.|++++|..+|+++. -.|....-..|+..|..
T Consensus        21 l~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~--l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~   89 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRV---LRPEFPELDLFDGW--LHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLY   89 (160)
T ss_pred             HccCChHHHHHHHHHHHH---hCCCchHHHHHHHH--HHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHH
Confidence            345566677766666653   3443   2222222  3556777777777777762 22333344445544443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.54  E-value=1.2  Score=24.12  Aligned_cols=31  Identities=29%  Similarity=0.097  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 048142          175 VLGGLLGACRIHDNLEAAERAAQQLLELLPD  205 (352)
Q Consensus       175 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  205 (352)
                      .|..+-..+...|++++|.+.+++..+..|.
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            3445555666666666666666666655543

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 ....

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=90.52  E-value=2.7  Score=29.92  Aligned_cols=61  Identities=13%  Similarity=0.138  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH
Q 048142           88 KALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI  150 (352)
Q Consensus        88 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  150 (352)
                      +..+-++.+....+.|++....+.+++|.+.+++..|.++|+.++.+.|  +....|..+++-
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lqE   88 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQE   88 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHHH
Confidence            5566666666777899999999999999999999999999999987533  333377777654

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 ....

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.41  E-value=0.81  Score=25.58  Aligned_cols=23  Identities=26%  Similarity=0.172  Sum_probs=11.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 048142          176 LGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       176 ~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      |+.|...|.+.|++++|+.++++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44455555555555555555555

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=90.32  E-value=13  Score=38.28  Aligned_cols=169  Identities=14%  Similarity=0.056  Sum_probs=80.9

Q ss_pred             CCCCHHHHHHHHHHHhccC--ChHHHHHHHHHHHHcCCCCCccccccC-------CcHHHHHHHH----------HHHHh
Q 048142           22 LTGDKVTMVSLLLACTHLG--ALEVGMWLHPYIMKKNIEVDVGLGMAL-------KDVMTLTALI----------VVLAM   82 (352)
Q Consensus        22 ~~p~~~t~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~l-------~~~~~~~~li----------~~~~~   82 (352)
                      ..|+ .-.-.+|.++.+.+  .++.+++...+......  ....-.++       +....||+-+          -+-..
T Consensus       787 ~~~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~~~~--~~~ad~al~hll~Lvdvn~lfn~ALgtYDl~Lal~VAq~S  863 (1265)
T KOG1920|consen  787 RAPD-KFNLFILTSYVKSNPPEIEEALQKIKELQLAQV--AVSADEALKHLLFLVDVNELFNSALGTYDLDLALLVAQKS  863 (1265)
T ss_pred             cCcc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHHhccc--chhHHHHHHHHHhhccHHHHHHhhhcccchHHHHHHHHHh
Confidence            3566 33457888888888  77778777776664211  11111111       3333454433          33445


Q ss_pred             cCChHHHHHHHHHHHHc-----CCCCCHh--HHHHHHHHHhccC--CHHHHHHHHHHhhHh-cC---CCCChhHHHHHHH
Q 048142           83 CGQGNKALEYFYEMQIR-----GVKPDAI--TFVGVLVACSHAG--LVDERISHFNLMSEK-YG---IRPSIEHYGCLVY  149 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~-----g~~p~~~--t~~~ll~~~~~~g--~~~~a~~~~~~m~~~-~g---~~p~~~~~~~li~  149 (352)
                      +.|+.+=+-++++++..     .++.|.+  -|...+.-+...|  -+++...+.++-..- .+   ..|+...+.....
T Consensus       864 qkDPkEyLP~L~el~~m~~~~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~  943 (1265)
T KOG1920|consen  864 QKDPKEYLPFLNELKKMETLLRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALALYKPDSEKQKVIYE  943 (1265)
T ss_pred             ccChHHHHHHHHHHhhchhhhhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhheeccCHHHHHHHHH
Confidence            67777777777777631     1222222  2334444444444  455555443332110 00   2456555544443


Q ss_pred             HH----HHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048142          150 IL----GRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQL  199 (352)
Q Consensus       150 ~~----~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  199 (352)
                      +|    ...+.+++|.-.|+..|..      .--+.+|...|+|.+|..+..++
T Consensus       944 ~ya~hL~~~~~~~~Aal~Ye~~Gkl------ekAl~a~~~~~dWr~~l~~a~ql  991 (1265)
T KOG1920|consen  944 AYADHLREELMSDEAALMYERCGKL------EKALKAYKECGDWREALSLAAQL  991 (1265)
T ss_pred             HHHHHHHHhccccHHHHHHHHhccH------HHHHHHHHHhccHHHHHHHHHhh
Confidence            33    3445555555555554310      11234444455555555444433

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.26  E-value=9.3  Score=31.56  Aligned_cols=160  Identities=16%  Similarity=0.080  Sum_probs=93.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      ..||-|.-.+...|+++.|.+.|+...+.  .|. ..++..---++--.|++.-|.+-+-..-+.-.-.|-...|--++ 
T Consensus       100 ~vfNyLG~Yl~~a~~fdaa~eaFds~~EL--Dp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~-  176 (297)
T COG4785         100 EVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLN-  176 (297)
T ss_pred             HHHHHHHHHHHhcccchHHHHHhhhHhcc--CCcchHHHhccceeeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHH-
Confidence            46888888888999999999999998874  332 22222222233346888888776665543212223233332222 


Q ss_pred             HHHHcCCHHHHHHHH-HhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC-------cchHHHHHHHHhhcC
Q 048142          150 ILGRAGRIAKAEELI-KNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN-------GGSYVILSNRYSSSR  221 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~-~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-------~~~~~~li~~~~~~g  221 (352)
                        -+.-+..+|..-+ ++.. ..|..-|...|-.+.--.-.+  +.+++++......+       ..||-.|...|...|
T Consensus       177 --E~k~dP~~A~tnL~qR~~-~~d~e~WG~~iV~~yLgkiS~--e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G  251 (297)
T COG4785         177 --EQKLDPKQAKTNLKQRAE-KSDKEQWGWNIVEFYLGKISE--ETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLG  251 (297)
T ss_pred             --HhhCCHHHHHHHHHHHHH-hccHhhhhHHHHHHHHhhccH--HHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhccc
Confidence              2233455555443 3332 345566666555443222111  23444444433222       357888889999999


Q ss_pred             ChHHHHHHHHHHHhcCC
Q 048142          222 KWKKVKRIRELMAERNI  238 (352)
Q Consensus       222 ~~~~a~~~~~~m~~~g~  238 (352)
                      +.++|..+|+-....++
T Consensus       252 ~~~~A~~LfKLaiannV  268 (297)
T COG4785         252 DLDEATALFKLAVANNV  268 (297)
T ss_pred             cHHHHHHHHHHHHHHhH
Confidence            99999999998776554

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=90.18  E-value=11  Score=32.46  Aligned_cols=171  Identities=17%  Similarity=0.037  Sum_probs=117.1

Q ss_pred             cHHHHHHHHHHHHh------cC-----ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhh-----
Q 048142           69 DVMTLTALIVVLAM------CG-----QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMS-----  132 (352)
Q Consensus        69 ~~~~~~~li~~~~~------~g-----~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~-----  132 (352)
                      ...+|.+.|+++..      +|     ...+|+++|.-+.+..  --.++-.-++.++-...+..+|...+....     
T Consensus       121 ~eee~~~~iscfgg~ev~~rqg~~vkWis~KA~ELFayLv~hk--gk~v~~~~~ie~lwpe~D~kka~s~lhTtvyqlRK  198 (361)
T COG3947         121 AEEESGTQISCFGGTEVVLRQGQQVKWISRKALELFAYLVEHK--GKEVTSWEAIEALWPEKDEKKASSLLHTTVYQLRK  198 (361)
T ss_pred             chhccCeeeEeccceeeeccCCceeeehhhHHHHHHHHHHHhc--CCcccHhHHHHHHccccchhhHHHHHHHHHHHHHH
Confidence            34567777777762      11     3568999999988752  233555667788888888777766654322     


Q ss_pred             --Hhc------------------CCCCChhHHHHHHHHHHH-cCCHHHHHHHHHhC-C-CCC--------c-----HHHH
Q 048142          133 --EKY------------------GIRPSIEHYGCLVYILGR-AGRIAKAEELIKNM-P-MAL--------D-----HFVL  176 (352)
Q Consensus       133 --~~~------------------g~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m-~-~~p--------~-----~~~~  176 (352)
                        ...                  +...|..-|-..+.-..+ +-.++++.++.... | .-|        |     ..+|
T Consensus       199 aLs~L~~ne~vts~d~~Ykld~~~~k~Dv~e~es~~rqi~~inltide~kelv~~ykgdyl~e~~y~Waedererle~ly  278 (361)
T COG3947         199 ALSRLNANEAVTSQDRKYKLDAGLPKYDVQEYESLARQIEAINLTIDELKELVGQYKGDYLPEADYPWAEDERERLEQLY  278 (361)
T ss_pred             HhchhccCceEEEcCCceEEecCCccccHHHHHHHhhhhhccccCHHHHHHHHHHhcCCcCCccccccccchHHHHHHHH
Confidence              210                  123456666666655433 34577777777665 1 001        1     2345


Q ss_pred             HHHH----HHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH-----hcCCCCC
Q 048142          177 GGLL----GACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA-----ERNIKKP  241 (352)
Q Consensus       177 ~~li----~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~  241 (352)
                      ..++    ..|..+|.+.+|.++.++.+..+|.+...|..|+..++..|+--.|.+-++.+.     +-|+..+
T Consensus       279 ~kllgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vd  352 (361)
T COG3947         279 MKLLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVD  352 (361)
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcc
Confidence            4444    688999999999999999999999999999999999999999888888888774     4566544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.06  E-value=2.4  Score=29.84  Aligned_cols=63  Identities=13%  Similarity=0.150  Sum_probs=47.8

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           85 QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        85 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      |.-++.+-++.+....+.|++....+.+++|.+.+++..|.++|+..+.+  +..+...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K--~~~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK--CGAHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--ccCchhhHHHHHH
Confidence            44466667777777788999999999999999999999999999988754  3334456666654

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.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.89  E-value=0.98  Score=25.80  Aligned_cols=28  Identities=25%  Similarity=0.179  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQI   98 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~   98 (352)
                      .+++.|...|...|++++|..++++...
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            4677777888888888888888777654

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=89.40  E-value=8.5  Score=30.81  Aligned_cols=102  Identities=12%  Similarity=-0.014  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      ...+..+..-|.+.|+.+.|.+.|.++.+....+.       .-...+-.+|....-.+++..+.....+....--.+..
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~-------~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d  108 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPG-------HKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGD  108 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHH-------HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccch
Confidence            35678899999999999999999999988654422       23456788899999999999999998887654222222


Q ss_pred             hHHHHHHHHH-----hccCCHHHHHHHHHHhhHh
Q 048142          106 ITFVGVLVAC-----SHAGLVDERISHFNLMSEK  134 (352)
Q Consensus       106 ~t~~~ll~~~-----~~~g~~~~a~~~~~~m~~~  134 (352)
                      ....+=+.++     ...+++.+|-+.|-+....
T Consensus       109 ~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t  142 (177)
T PF10602_consen  109 WERRNRLKVYEGLANLAQRDFKEAAELFLDSLST  142 (177)
T ss_pred             HHHHHHHHHHHHHHHHHhchHHHHHHHHHccCcC
Confidence            2222222222     2467888888888776543

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.

>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=89.35  E-value=0.19  Score=38.64  Aligned_cols=85  Identities=9%  Similarity=0.065  Sum_probs=42.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcC
Q 048142           76 LIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAG  155 (352)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g  155 (352)
                      +|..+.+.+.++....+++.+...+...+....+.++..|++.+..++...+++...   .     .-...+++.+.+.|
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            445555555556666666665554444445555566666666655555544443111   1     11223455555555


Q ss_pred             CHHHHHHHHHhCC
Q 048142          156 RIAKAEELIKNMP  168 (352)
Q Consensus       156 ~~~~A~~~~~~m~  168 (352)
                      .+++|.-++.+++
T Consensus        85 l~~~a~~Ly~~~~   97 (143)
T PF00637_consen   85 LYEEAVYLYSKLG   97 (143)
T ss_dssp             SHHHHHHHHHCCT
T ss_pred             hHHHHHHHHHHcc
Confidence            5555555555553

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=89.31  E-value=14  Score=32.33  Aligned_cols=124  Identities=10%  Similarity=0.150  Sum_probs=68.7

Q ss_pred             hHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc--cC----CHHHHHHHHHHhhHhcCC--CCChhHHHHHHHHHHHcCCH
Q 048142           86 GNKALEYFYEMQIRGVKPDAITFVGVLVACSH--AG----LVDERISHFNLMSEKYGI--RPSIEHYGCLVYILGRAGRI  157 (352)
Q Consensus        86 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~--~g----~~~~a~~~~~~m~~~~g~--~p~~~~~~~li~~~~~~g~~  157 (352)
                      +++.+++++.|.+.|++-+..+|.+.......  ..    ....|..+|+.|++.+.+  .++...+..|+..  ...++
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            45667788999999999888887764333332  22    345789999999998654  3445555555444  33333


Q ss_pred             H----HHHHHHHhC---CCCC-cHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHh-CCCCcchHH
Q 048142          158 A----KAEELIKNM---PMAL-DHFVLGGLLGACRIHDN---LEAAERAAQQLLEL-LPDNGGSYV  211 (352)
Q Consensus       158 ~----~A~~~~~~m---~~~p-~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~-~~~~~~~~~  211 (352)
                      +    .++.+|+.+   ++.. |..-+.+-+-++.....   ...+.++++.+.+. .+.....|.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp  221 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYP  221 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCcccccccc
Confidence            3    344444444   4443 33334333333332222   33556666666553 333333343

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=89.23  E-value=18  Score=33.36  Aligned_cols=217  Identities=13%  Similarity=0.038  Sum_probs=131.3

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHH------HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKV------TMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTAL   76 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~------t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~l   76 (352)
                      +.+++.+|.++|.+.-.+- ..+..      .-+.+|++|. ..+++.....+.++.+....            ..|-.|
T Consensus        18 kq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAff-l~nld~Me~~l~~l~~~~~~------------s~~l~L   83 (549)
T PF07079_consen   18 KQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFF-LNNLDLMEKQLMELRQQFGK------------SAYLPL   83 (549)
T ss_pred             HHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHH-HhhHHHHHHHHHHHHHhcCC------------chHHHH
Confidence            4688999999999887642 22322      2346777764 45667666666666654221            245555


Q ss_pred             HHHH--HhcCChHHHHHHHHHHHHc--CCCC------------CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhc---CC
Q 048142           77 IVVL--AMCGQGNKALEYFYEMQIR--GVKP------------DAITFVGVLVACSHAGLVDERISHFNLMSEKY---GI  137 (352)
Q Consensus        77 i~~~--~~~g~~~~A~~~~~~m~~~--g~~p------------~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---g~  137 (352)
                      ..++  -+.+.+.+|++.|..-.+.  +-+|            |..-=+..+.++...|++.+|+.+++++..+.   ..
T Consensus        84 F~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~  163 (549)
T PF07079_consen   84 FKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKREC  163 (549)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhh
Confidence            5443  4678899999988877665  3222            22222456778889999999999998887641   23


Q ss_pred             CCChhHHHHHHHHHHHcCCHHH--------HHHHH-------HhC-----------------------------------
Q 048142          138 RPSIEHYGCLVYILGRAGRIAK--------AEELI-------KNM-----------------------------------  167 (352)
Q Consensus       138 ~p~~~~~~~li~~~~~~g~~~~--------A~~~~-------~~m-----------------------------------  167 (352)
                      ..+..+|+-++-+|+++--++-        +-+.+       ++|                                   
T Consensus       164 ~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~  243 (549)
T PF07079_consen  164 EWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPP  243 (549)
T ss_pred             cccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccH
Confidence            4688888887766665422111        11111       111                                   


Q ss_pred             -----------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----CCCCcchHHHHHHHHhhcCChHHHHHHH
Q 048142          168 -----------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLEL-----LPDNGGSYVILSNRYSSSRKWKKVKRIR  230 (352)
Q Consensus       168 -----------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~a~~~~  230 (352)
                                 -+.|+ ......|+..+.+  +.+++..+.+.+...     ...-..++..++....+.++...|.+.+
T Consensus       244 ~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l  321 (549)
T PF07079_consen  244 LMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYL  321 (549)
T ss_pred             HHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence                       02232 1222333333333  455555555554332     2223467888899999999999999998


Q ss_pred             HHHHh
Q 048142          231 ELMAE  235 (352)
Q Consensus       231 ~~m~~  235 (352)
                      .-+.-
T Consensus       322 ~lL~~  326 (549)
T PF07079_consen  322 ALLKI  326 (549)
T ss_pred             HHHHh
Confidence            87764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.15  E-value=3.5  Score=40.03  Aligned_cols=106  Identities=17%  Similarity=0.079  Sum_probs=58.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcC
Q 048142           76 LIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAG  155 (352)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g  155 (352)
                      -+.-+...|+-.+|.++-.+.+    -||-.-|-.-+.+++..+++++-+++-+.++       ++..|.-.+.+|.+.|
T Consensus       690 Tv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk-------sPIGy~PFVe~c~~~~  758 (829)
T KOG2280|consen  690 TVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK-------SPIGYLPFVEACLKQG  758 (829)
T ss_pred             HHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC-------CCCCchhHHHHHHhcc
Confidence            3344445566666665555443    3455555556666666666666555433332       2444555566666667


Q ss_pred             CHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          156 RIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       156 ~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      +.+||..++.+.+-.+      -...+|.+.|++.+|.++.-+
T Consensus       759 n~~EA~KYiprv~~l~------ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  759 NKDEAKKYIPRVGGLQ------EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             cHHHHhhhhhccCChH------HHHHHHHHhccHHHHHHHHHH
Confidence            7777777666663222      244455666666666555433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=89.02  E-value=13  Score=31.46  Aligned_cols=70  Identities=11%  Similarity=0.126  Sum_probs=51.0

Q ss_pred             cCCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKG--LTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g--~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      +.|++++|.+.|+.+....  -+-...+-..++.++-+.++.+.|....++..+.-...        || .-|-.-|.++
T Consensus        46 ~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~--------~n-~dY~~YlkgL  116 (254)
T COG4105          46 QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTH--------PN-ADYAYYLKGL  116 (254)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCC--------CC-hhHHHHHHHH
Confidence            5799999999999998642  11245666778888899999999999999988754331        33 3565556655


Q ss_pred             H
Q 048142           81 A   81 (352)
Q Consensus        81 ~   81 (352)
                      +
T Consensus       117 s  117 (254)
T COG4105         117 S  117 (254)
T ss_pred             H
Confidence            5

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=88.90  E-value=18  Score=32.91  Aligned_cols=161  Identities=17%  Similarity=0.153  Sum_probs=104.5

Q ss_pred             CCHHHHHHHHHHH-hccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH--hcCChHHHHHHHHHHHHcC
Q 048142           24 GDKVTMVSLLLAC-THLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA--MCGQGNKALEYFYEMQIRG  100 (352)
Q Consensus        24 p~~~t~~~li~~~-~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~g  100 (352)
                      |...+|-.|=.-| .-.|+.++|..+-....+....            -.+...+++.+  -.++.+.|...|++-..  
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~------------n~~al~vrg~~~yy~~~~~ka~~hf~qal~--  231 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDAT------------NAEALYVRGLCLYYNDNADKAINHFQQALR--  231 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccc------------hhHHHHhcccccccccchHHHHHHHhhhhc--
Confidence            5556666554444 6788999998887777765421            23444554433  46789999999998876  


Q ss_pred             CCCCHhHHHHH---HHH----------HhccCCHHHHHHHHHHhhHhcCCCCC-----hhHHHHHHHHHHHcCCHHHHHH
Q 048142          101 VKPDAITFVGV---LVA----------CSHAGLVDERISHFNLMSEKYGIRPS-----IEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus       101 ~~p~~~t~~~l---l~~----------~~~~g~~~~a~~~~~~m~~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      ..||...--.+   .+.          ..+.|++.+|.+.|.+..   ++.|+     ...|-....+..+.|+.++|+.
T Consensus       232 ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal---~idP~n~~~naklY~nra~v~~rLgrl~eais  308 (486)
T KOG0550|consen  232 LDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEAL---NIDPSNKKTNAKLYGNRALVNIRLGRLREAIS  308 (486)
T ss_pred             cChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhh---cCCccccchhHHHHHHhHhhhcccCCchhhhh
Confidence            45655443222   222          246789999999998886   45554     4455555566778899999998


Q ss_pred             HHHhCCCCCc-HHHHHHHH--HHHHhcCCHHHHHHHHHHHHHh
Q 048142          163 LIKNMPMALD-HFVLGGLL--GACRIHDNLEAAERAAQQLLEL  202 (352)
Q Consensus       163 ~~~~m~~~p~-~~~~~~li--~~~~~~g~~~~a~~~~~~~~~~  202 (352)
                      --+..- ..| ...+..+.  .++...++|++|.+-++...+.
T Consensus       309 dc~~Al-~iD~syikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  309 DCNEAL-KIDSSYIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             hhhhhh-hcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            877662 233 23333333  3456678888998888886553

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=88.70  E-value=11  Score=30.21  Aligned_cols=190  Identities=18%  Similarity=0.072  Sum_probs=138.5

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCHhHHHHHHHHHhc
Q 048142           39 LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR-GVKPDAITFVGVLVACSH  117 (352)
Q Consensus        39 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~~~~~  117 (352)
                      .+....+...+..........        .....+......+...++...+...+...... ........+......+..
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (291)
T COG0457          36 LGELAEALELLEEALELLPNS--------DLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEA  107 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccc--------cchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHH
Confidence            456666666666666544320        12467788888999999999999999988753 244456667777778888


Q ss_pred             cCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH-HHHHcCCHHHHHHHHHhC-CCCC----cHHHHHHHHHHHHhcCCHHH
Q 048142          118 AGLVDERISHFNLMSEKYGIRPSIEHYGCLVY-ILGRAGRIAKAEELIKNM-PMAL----DHFVLGGLLGACRIHDNLEA  191 (352)
Q Consensus       118 ~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~-~~~~~g~~~~A~~~~~~m-~~~p----~~~~~~~li~~~~~~g~~~~  191 (352)
                      .+....+...+...... ...+ ......... .+...|++++|...+++. ...|    ....+......+...++.+.
T Consensus       108 ~~~~~~~~~~~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  185 (291)
T COG0457         108 LGKYEEALELLEKALAL-DPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEE  185 (291)
T ss_pred             HhhHHHHHHHHHHHHcC-CCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHH
Confidence            88899999999888753 2222 122223333 788999999999999986 2222    23444444455778899999


Q ss_pred             HHHHHHHHHHhCCC-CcchHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          192 AERAAQQLLELLPD-NGGSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       192 a~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      +...+....+..+. ....+..+...+...++++.+...+........
T Consensus       186 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  233 (291)
T COG0457         186 ALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDP  233 (291)
T ss_pred             HHHHHHHHHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCc
Confidence            99999999988777 678889999999999999999999998876443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=88.60  E-value=21  Score=33.35  Aligned_cols=54  Identities=19%  Similarity=0.150  Sum_probs=25.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCC--CcchHHHHHHHHhhcCChHHHHHHHHH
Q 048142          179 LLGACRIHDNLEAAERAAQQLLELLPD--NGGSYVILSNRYSSSRKWKKVKRIREL  232 (352)
Q Consensus       179 li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~  232 (352)
                      +..++.+.|+.++|++.+++|.+..|.  +......|+.++...+.+.++..++.+
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~k  320 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAK  320 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            333344445555555555555443332  223444555555555555555555444

The molecular function of this protein is uncertain.

>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=88.60  E-value=6.4  Score=32.01  Aligned_cols=76  Identities=14%  Similarity=-0.001  Sum_probs=56.0

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChH
Q 048142            8 EEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGN   87 (352)
Q Consensus         8 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~   87 (352)
                      ++|++.|-.+...+.--|+.....|. .|-...+.+++..++-...+..-..+.      +|...+.+|++.|-+.|+++
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLA-tyY~krD~~Kt~~ll~~~L~l~~~~~~------~n~eil~sLas~~~~~~~~e  195 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALA-TYYTKRDPEKTIQLLLRALELSNPDDN------FNPEILKSLASIYQKLKNYE  195 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHH-HHHHccCHHHHHHHHHHHHHhcCCCCC------CCHHHHHHHHHHHHHhcchh
Confidence            57888888888877554555544444 444577889999998888775433223      78888999999999999998


Q ss_pred             HHH
Q 048142           88 KAL   90 (352)
Q Consensus        88 ~A~   90 (352)
                      .|.
T Consensus       196 ~AY  198 (203)
T PF11207_consen  196 QAY  198 (203)
T ss_pred             hhh
Confidence            875

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=88.20  E-value=4.8  Score=28.69  Aligned_cols=48  Identities=15%  Similarity=0.232  Sum_probs=33.3

Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHH
Q 048142          168 PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSN  215 (352)
Q Consensus       168 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~  215 (352)
                      ...|++.+..+.+.+|.+.+++..|.++++-++....+....|..++.
T Consensus        40 DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   40 DLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             SB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             ccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            566888888888888888888888888888887765555447766554

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=88.18  E-value=5.7  Score=34.63  Aligned_cols=96  Identities=14%  Similarity=0.104  Sum_probs=68.3

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHc---CCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEMQIR---GVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG  145 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~  145 (352)
                      .+.+-..++..-....++++++..+-++...   -..|+...+ +.++-|.+ =+.++++.++..=.+ ||+-||..++.
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 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLLK-YDPQKAIYTLVNPIQ-YGIFPDQFTFC  139 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHHc-cChHHHHHHHhCcch-hccccchhhHH
Confidence            3445556666666778899999988888753   123333222 23333332 366788888877776 69999999999


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC
Q 048142          146 CLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      .+|+.+.+.+++.+|..+...|
T Consensus       140 ~l~D~flk~~n~~~aa~vvt~~  161 (418)
T KOG4570|consen  140 LLMDSFLKKENYKDAASVVTEV  161 (418)
T ss_pred             HHHHHHHhcccHHHHHHHHHHH
Confidence            9999999999999998887766

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.08  E-value=1.5  Score=23.62  Aligned_cols=27  Identities=22%  Similarity=0.146  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQI   98 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~   98 (352)
                      .|..+...|...|++++|++.|++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            566777788888888888888888766

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 ....

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=88.08  E-value=15  Score=31.08  Aligned_cols=166  Identities=16%  Similarity=0.146  Sum_probs=110.4

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGV--KPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG  145 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~  145 (352)
                      |-...|+.-+..+ +.|++++|.+.|+.+...-.  +-...+--.++-++-+.++.++|...+++..+.++-.||. -|-
T Consensus        33 p~~~LY~~g~~~L-~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~-dY~  110 (254)
T COG4105          33 PASELYNEGLTEL-QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA-DYA  110 (254)
T ss_pred             CHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh-hHH
Confidence            4445566555544 68999999999999986521  1123455667778889999999999999999887777764 344


Q ss_pred             HHHHHHHHc-------CCHHHHHHHH---HhC----C---CCCcHHHH------------HHHHHHHHhcCCHHHHHHHH
Q 048142          146 CLVYILGRA-------GRIAKAEELI---KNM----P---MALDHFVL------------GGLLGACRIHDNLEAAERAA  196 (352)
Q Consensus       146 ~li~~~~~~-------g~~~~A~~~~---~~m----~---~~p~~~~~------------~~li~~~~~~g~~~~a~~~~  196 (352)
                      .-|.+++.-       .+...+.+-|   ++.    |   ..||+..-            ..+..-|.+.|.+..|..-+
T Consensus       111 ~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~  190 (254)
T COG4105         111 YYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRF  190 (254)
T ss_pred             HHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHH
Confidence            444444432       2223333333   332    2   33454321            12335678899999999999


Q ss_pred             HHHHHhCCCCcchH---HHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          197 QQLLELLPDNGGSY---VILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       197 ~~~~~~~~~~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ++|.+..+.+..+.   -.+..+|-..|-.++|.+.-.-+..
T Consensus       191 ~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         191 EEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            99988766555444   4667789999999999887666643

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.01  E-value=3  Score=36.22  Aligned_cols=103  Identities=14%  Similarity=0.081  Sum_probs=74.0

Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcC---CCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048142           21 GLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKN---IEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQ   97 (352)
Q Consensus        21 g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~   97 (352)
                      |......+...++..-.+..+++.+...+-++....   ..++       .+.++|--++    -.-++++++.++..=.
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~-------~~~~~~irll----lky~pq~~i~~l~npI  127 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRN-------WTIHTWIRLL----LKYDPQKAIYTLVNPI  127 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcc-------ccHHHHHHHH----HccChHHHHHHHhCcc
Confidence            444455566666666666778888887776665431   1111       2333443333    2346889999999999


Q ss_pred             HcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHh
Q 048142           98 IRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEK  134 (352)
Q Consensus        98 ~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  134 (352)
                      +.|+-||..|++.+|+.+.+.++..+|.++.-.|..+
T Consensus       128 qYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  128 QYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999999999999998888777764

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=87.97  E-value=7.9  Score=29.73  Aligned_cols=97  Identities=9%  Similarity=0.052  Sum_probs=63.6

Q ss_pred             HHCCCCCCHH--HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCC-hHHHHHHHH
Q 048142           18 QHKGLTGDKV--TMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQ-GNKALEYFY   94 (352)
Q Consensus        18 ~~~g~~p~~~--t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~-~~~A~~~~~   94 (352)
                      +..+..++..  ..|.++.-....+++.....+++.+...  .++.....  .+..+|.+++.+.++..- ---+..+|+
T Consensus        29 ~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l--~~~~~~~~--~~~ssf~~if~SlsnSsSaK~~~~~Lf~  104 (145)
T PF13762_consen   29 QEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFL--NTDNIIGW--LDNSSFHIIFKSLSNSSSAKLTSLTLFN  104 (145)
T ss_pred             hhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHh--hHHHHhhh--cccchHHHHHHHHccChHHHHHHHHHHH
Confidence            4445555543  3577888878888888888888777432  11100000  455578888888865554 345677888


Q ss_pred             HHHHcCCCCCHhHHHHHHHHHhcc
Q 048142           95 EMQIRGVKPDAITFVGVLVACSHA  118 (352)
Q Consensus        95 ~m~~~g~~p~~~t~~~ll~~~~~~  118 (352)
                      -|++.+.+++..-|..+|.++.+.
T Consensus       105 ~Lk~~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen  105 FLKKNDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHcC
Confidence            888777888888888888887654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=87.95  E-value=1  Score=24.83  Aligned_cols=23  Identities=13%  Similarity=0.143  Sum_probs=20.7

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKAL   90 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~   90 (352)
                      .|...|+.|...|...|++++|+
T Consensus        11 ~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   11 NNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCHHHHHHHHHHHHHCcCHHhhc
Confidence            57789999999999999999986

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=87.95  E-value=8.1  Score=29.75  Aligned_cols=47  Identities=11%  Similarity=0.283  Sum_probs=29.8

Q ss_pred             ccCCHHHHHHHHHHhhHhcCCCCC---hhHHHHHHHHHHHcCCHHHHHHHHHhCC
Q 048142          117 HAGLVDERISHFNLMSEKYGIRPS---IEHYGCLVYILGRAGRIAKAEELIKNMP  168 (352)
Q Consensus       117 ~~g~~~~a~~~~~~m~~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~  168 (352)
                      ..++++++..+++.|.-   +.|+   ..++...+  +...|++++|..+|+++.
T Consensus        22 ~~~d~~D~e~lLdALrv---LrP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~   71 (153)
T TIGR02561        22 RSADPYDAQAMLDALRV---LRPNLKELDMFDGWL--LIARGNYDEAARILRELL   71 (153)
T ss_pred             hcCCHHHHHHHHHHHHH---hCCCccccchhHHHH--HHHcCCHHHHHHHHHhhh
Confidence            46777777777777753   3443   33333333  557777888888887774

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=87.56  E-value=22  Score=32.24  Aligned_cols=37  Identities=16%  Similarity=0.036  Sum_probs=25.4

Q ss_pred             CCCCcHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          168 PMALDHF-VLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       168 ~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                      +..||.+ .--.-..++.+.|+..++-.+++.+-+..|
T Consensus       257 KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~eP  294 (531)
T COG3898         257 KLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEP  294 (531)
T ss_pred             hcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCC
Confidence            3556532 223334678899999999999999877544

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.20  E-value=13  Score=29.50  Aligned_cols=132  Identities=15%  Similarity=0.092  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      ..+|...+.. ++.+..++|+.-|..+.+.|...-       | +..---+.......|+-.+|...|.+.-...-.|-.
T Consensus        59 gd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~Y-------p-vLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~  129 (221)
T COG4649          59 GDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSY-------P-VLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQI  129 (221)
T ss_pred             hHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcc-------h-HHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcch
Confidence            4455555543 566666777777777777665421       1 122233445556677777777777777664444433


Q ss_pred             h-HHHHHH--HHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142          106 I-TFVGVL--VACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       106 ~-t~~~ll--~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      . -..-|=  -.+...|.+++.....+-+... +-+.-...-.+|--+-.+.|++.+|...|..+
T Consensus       130 ~rd~ARlraa~lLvD~gsy~dV~srvepLa~d-~n~mR~sArEALglAa~kagd~a~A~~~F~qi  193 (221)
T COG4649         130 GRDLARLRAAYLLVDNGSYDDVSSRVEPLAGD-GNPMRHSAREALGLAAYKAGDFAKAKSWFVQI  193 (221)
T ss_pred             hhHHHHHHHHHHHhccccHHHHHHHhhhccCC-CChhHHHHHHHHhHHHHhccchHHHHHHHHHH
Confidence            2 111121  1234567777776666666543 33334444555655566777777777777766

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=87.18  E-value=26  Score=32.87  Aligned_cols=177  Identities=11%  Similarity=0.035  Sum_probs=126.0

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048142           23 TGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVK  102 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  102 (352)
                      ..|.....+++..++..-.+.-.+.+-.+|...|           .+-..|-.++.+|..+ ..++-..+++++.+..+.
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~-----------e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn  130 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG-----------ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN  130 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc-----------chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch
Confidence            3477777888888888888888888999998877           4556888999999988 567888899988886432


Q ss_pred             CCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC------hhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCc
Q 048142          103 PDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS------IEHYGCLVYILGRAGRIAKAEELIKNM----PMALD  172 (352)
Q Consensus       103 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~------~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~  172 (352)
                       |.+.-..|..-|-+ ++...+..+|.....  .+.|.      ...|.-|+...  ..+.|.-+.+..++    +...-
T Consensus       131 -Dvv~~ReLa~~yEk-ik~sk~a~~f~Ka~y--rfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~  204 (711)
T COG1747         131 -DVVIGRELADKYEK-IKKSKAAEFFGKALY--RFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRG  204 (711)
T ss_pred             -hHHHHHHHHHHHHH-hchhhHHHHHHHHHH--HhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchH
Confidence             44444455555544 888888888888875  34442      23455544322  24566666666555    44455


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHH
Q 048142          173 HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY  217 (352)
Q Consensus       173 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~  217 (352)
                      .+.+.-+-.-|....++++|++++..+.+.+..|...-..++..+
T Consensus       205 ~Vl~qdv~~~Ys~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~l  249 (711)
T COG1747         205 SVLMQDVYKKYSENENWTEAIRILKHILEHDEKDVWARKEIIENL  249 (711)
T ss_pred             HHHHHHHHHHhccccCHHHHHHHHHHHhhhcchhhhHHHHHHHHH
Confidence            677777778889999999999999988887777766666665554

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=86.72  E-value=23  Score=31.60  Aligned_cols=185  Identities=9%  Similarity=0.007  Sum_probs=103.2

Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC---CCC-CHhHH
Q 048142           33 LLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRG---VKP-DAITF  108 (352)
Q Consensus        33 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p-~~~t~  108 (352)
                      ..+..+.|+|+...+.........           ++...|.++...  +.++++++....++....-   ..+ ....|
T Consensus         5 ~eaaWrl~~Wd~l~~~~~~~~~~~-----------~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~   71 (352)
T PF02259_consen    5 AEAAWRLGDWDLLEEYLSQSNEDS-----------PEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESY   71 (352)
T ss_pred             HHHHHhcCChhhHHHHHhhccCCC-----------hhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhH
Confidence            456778899888555444433211           445566666554  7889999988888776531   110 11122


Q ss_pred             HHHHHHHhc---cCCHHHHHHHHHHh--------------hHhc-CCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCC-C
Q 048142          109 VGVLVACSH---AGLVDERISHFNLM--------------SEKY-GIRPSIEHYGCLVYILGRAGRIAKAEELIKNMP-M  169 (352)
Q Consensus       109 ~~ll~~~~~---~g~~~~a~~~~~~m--------------~~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~  169 (352)
                      ........+   ...++++..+....              ..+. ...++..++..++..-.         -+++.+. .
T Consensus        72 ~~~y~~l~~lq~L~Elee~~~~~~~~~~~~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~---------~~l~~~~~~  142 (352)
T PF02259_consen   72 QRAYPSLVKLQQLVELEEIIELKSNLSQNPQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRR---------LVLSLILLP  142 (352)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHH---------HHHhcccch
Confidence            222222222   23333333333111              1110 11223333333222100         0111111 2


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC----CCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCC
Q 048142          170 ALDHFVLGGLLGACRIHDNLEAAERAAQQLLELL----PDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       170 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      .....+|..+...+.+.|.++.|...+..+.+..    ...+.....-.......|+.++|...++...+..+.
T Consensus       143 ~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~  216 (352)
T PF02259_consen  143 EELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLS  216 (352)
T ss_pred             hHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhh
Confidence            3456789999999999999999999999987643    113455556677788899999999999888774333

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=86.68  E-value=6.9  Score=30.59  Aligned_cols=74  Identities=23%  Similarity=0.214  Sum_probs=47.6

Q ss_pred             hHHHHHHHHH---HHcCCHHHHHHHHHhC-CCCCc---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHH
Q 048142          142 EHYGCLVYIL---GRAGRIAKAEELIKNM-PMALD---HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILS  214 (352)
Q Consensus       142 ~~~~~li~~~---~~~g~~~~A~~~~~~m-~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li  214 (352)
                      .+.+.||...   .+.++.+++..++..+ -.+|.   ..++...+  +...|++++|.++|+.+.+..|..+ .-..|+
T Consensus         8 ~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l--~i~r~~w~dA~rlLr~l~~~~~~~p-~~kALl   84 (160)
T PF09613_consen    8 EIVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWL--HIVRGDWDDALRLLRELEERAPGFP-YAKALL   84 (160)
T ss_pred             HHHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHH--HHHhCCHHHHHHHHHHHhccCCCCh-HHHHHH
Confidence            3444555544   3577999999999988 34454   44444333  6788999999999999866544333 334444


Q ss_pred             HHHh
Q 048142          215 NRYS  218 (352)
Q Consensus       215 ~~~~  218 (352)
                      ..|.
T Consensus        85 A~CL   88 (160)
T PF09613_consen   85 ALCL   88 (160)
T ss_pred             HHHH
Confidence            4443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=86.63  E-value=26  Score=32.33  Aligned_cols=31  Identities=10%  Similarity=-0.159  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcC
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKN   56 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g   56 (352)
                      ..+|..+++...+.++...|.+.+..+....
T Consensus       298 i~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ld  328 (549)
T PF07079_consen  298 IDRFGNLLSFKVKQVQTEEAKQYLALLKILD  328 (549)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC
Confidence            4578888999999999999988888777643

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=86.12  E-value=18  Score=35.37  Aligned_cols=217  Identities=14%  Similarity=0.108  Sum_probs=92.7

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      .|+++.|++.+-+  ..+...|.+.+.+.+.-++-.+-.....   ..+......  .      |....+..||..|.+.
T Consensus       271 tgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~--~------~~~ln~arLI~~Y~~~  337 (613)
T PF04097_consen  271 TGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPG--D------PPPLNFARLIGQYTRS  337 (613)
T ss_dssp             TT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT-----------------------------------HHHHHHHHHHT
T ss_pred             HhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCC--C------CCCcCHHHHHHHHHHH
Confidence            4677777776644  2334445555555554443322222111   222221110  0      2225688999999874


Q ss_pred             ---CChHHHHHHHHHHHHcCCCCCHh-HHHHHHHHH-hccCCHHHHHHHHHHhhHh--------------cCCCCChhHH
Q 048142           84 ---GQGNKALEYFYEMQIRGVKPDAI-TFVGVLVAC-SHAGLVDERISHFNLMSEK--------------YGIRPSIEHY  144 (352)
Q Consensus        84 ---g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~-~~~g~~~~a~~~~~~m~~~--------------~g~~p~~~~~  144 (352)
                         .+..+|++.|--+....- |+.. .+...+.-+ ...++++   .++..+..+              .++..+..-.
T Consensus       338 F~~td~~~Al~Y~~li~~~~~-~~~~~l~~~~l~eLvletref~---~LLG~i~~dG~r~~G~i~~~~~Li~~~~~~~~~  413 (613)
T PF04097_consen  338 FEITDPREALQYLYLICLFKD-PEQRNLFHECLRELVLETREFD---LLLGDINPDGSRTPGLIERRLSLIKFDDDEDFL  413 (613)
T ss_dssp             TTTT-HHHHHHHHHGGGGS-S-CCHHHHHHHHHHHHHHHH--HH---HHHEEE-TTS-EEE-HHHHTGGGGT-SSSSHHH
T ss_pred             HhccCHHHHHHHHHHHHHcCC-chHHHHHHHHHHHHHHccCCHH---HHCCCCCCCCccccceeeccccccCCCCcHHHH
Confidence               578888888877765422 2322 222222222 1122111   111111111              1233222222


Q ss_pred             HHHH----HHHHHcCCHHHHHHHHHhCCCCCc--HHHHHHHHHHHHhcC-C-----------HHHHHHHHHHHHHh----
Q 048142          145 GCLV----YILGRAGRIAKAEELIKNMPMALD--HFVLGGLLGACRIHD-N-----------LEAAERAAQQLLEL----  202 (352)
Q Consensus       145 ~~li----~~~~~~g~~~~A~~~~~~m~~~p~--~~~~~~li~~~~~~g-~-----------~~~a~~~~~~~~~~----  202 (352)
                      ..++    .-+...|++++|..+|.-.+ ..|  ....|.+++...... .           ...|..+.+.....    
T Consensus       414 ~~i~~~~A~~~e~~g~~~dAi~Ly~La~-~~d~vl~lln~~Ls~~l~~~~~~~~~~s~~~~l~~la~~i~~~y~~~~~~~  492 (613)
T PF04097_consen  414 REIIEQAAREAEERGRFEDAILLYHLAE-EYDKVLSLLNRLLSQVLSQPSSSSLSDSERERLIELAKEILERYKSNPHIS  492 (613)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHTT--HHHHHHHHHHHHHHHHHCSSTSSSSSTTTTSHHHHHHHHHHHHTTSHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHcCccccccccchhhhHHHHHHHHHHHHHhCcchH
Confidence            2222    33557899999999999886 333  334455554333222 2           33444444443221    


Q ss_pred             ---CCCCcchHHHHHHH-----HhhcCChHHHHHHHHHHHhcCCCCC
Q 048142          203 ---LPDNGGSYVILSNR-----YSSSRKWKKVKRIRELMAERNIKKP  241 (352)
Q Consensus       203 ---~~~~~~~~~~li~~-----~~~~g~~~~a~~~~~~m~~~g~~p~  241 (352)
                         .+.+..|+..|++.     +...|++++|++.++   +.++-|.
T Consensus       493 ~~~~~~~~~t~~~Ll~L~~ff~~~~~g~~~~AL~~i~---~L~liP~  536 (613)
T PF04097_consen  493 SKVSRKNRETFQLLLDLAEFFDLYHAGQYEQALDIIE---KLDLIPL  536 (613)
T ss_dssp             TTS-HHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHH---HTT-S-S
T ss_pred             hhccHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH---hCCCCCC
Confidence               12233455555543     577899999986666   4567773

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.12  E-value=6.4  Score=27.79  Aligned_cols=48  Identities=17%  Similarity=0.225  Sum_probs=30.4

Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHH
Q 048142          168 PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSN  215 (352)
Q Consensus       168 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~  215 (352)
                      ...|++.+..+-+.+|.+.+++..|.++++-++.....+...|..++.
T Consensus        37 DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~lq   84 (103)
T cd00923          37 DLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYILQ   84 (103)
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHHHH
Confidence            455677777777777777777777777777666544434445554443

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.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=85.86  E-value=22  Score=30.73  Aligned_cols=123  Identities=8%  Similarity=-0.004  Sum_probs=85.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH-cCCCCCHhHHHHHHHHHhc--cCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           73 LTALIVVLAMCGQGNKALEYFYEMQI-RGVKPDAITFVGVLVACSH--AGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~t~~~ll~~~~~--~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      |..|+.   ++....+|+.+|+...- ..+--|......+++....  ......-.++.+-+...++-.++..+...+|.
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            666653   34456788888873322 2355577777777777765  22344445555566665567788888888999


Q ss_pred             HHHHcCCHHHHHHHHHhC----CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          150 ILGRAGRIAKAEELIKNM----PMALDHFVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      .+++.+++.+-.++++..    +..-|...|..+|......|+..-...+..+
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            999999999999998876    1234678888899998888888776666554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=85.35  E-value=48  Score=34.49  Aligned_cols=51  Identities=14%  Similarity=0.094  Sum_probs=24.1

Q ss_pred             HHHHHHcCCHHHHHHHHHhCCCCCcHHH--HHHHHHHHHhcCCHHHHHHHHHH
Q 048142          148 VYILGRAGRIAKAEELIKNMPMALDHFV--LGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m~~~p~~~~--~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      +.+|..+|+|.+|+.+-.++....|...  -..|++-+...++.-+|-++..+
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e 1024 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLE 1024 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHH
Confidence            4445555556665555555532223221  24445555555554444444443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=84.74  E-value=6.4  Score=32.46  Aligned_cols=56  Identities=16%  Similarity=-0.008  Sum_probs=31.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHH
Q 048142           74 TALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNL  130 (352)
Q Consensus        74 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  130 (352)
                      +.-|+.+.+.+.+++|+...++-.+. -+.|..+-..+++.+|-.|++++|..-++-
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVka-kPtda~~RhflfqLlcvaGdw~kAl~Ql~l   60 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKA-KPTDAGGRHFLFQLLCVAGDWEKALAQLNL   60 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhc-CCccccchhHHHHHHhhcchHHHHHHHHHH
Confidence            34455566666666666666555543 122344455566666666666666554443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=84.51  E-value=2.7  Score=23.83  Aligned_cols=29  Identities=17%  Similarity=0.101  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMK   54 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~   54 (352)
                      ..+++.|...|...|++++|..++++...
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            46789999999999999999999998875

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=83.86  E-value=13  Score=34.45  Aligned_cols=127  Identities=10%  Similarity=0.060  Sum_probs=81.1

Q ss_pred             ccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCcHHHHHHHHHHHHhcCCHHHHHH
Q 048142          117 HAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-P-MALDHFVLGGLLGACRIHDNLEAAER  194 (352)
Q Consensus       117 ~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-~~p~~~~~~~li~~~~~~g~~~~a~~  194 (352)
                      ..|++-.|-+-+....+++.-.|+....-+.|  ....|.++.+...+... + +.....+-..++......|++++|..
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i--~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s  378 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLRSVI--FSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALS  378 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHHHHH--HHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHH
Confidence            34666555443333334345566655544444  45679999999988776 2 22346677888999999999999999


Q ss_pred             HHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCcee
Q 048142          195 AAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCI  245 (352)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  245 (352)
                      ....|+.....++.........--..|-++++.-.|+++..-+-..+.++.
T Consensus       379 ~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v  429 (831)
T PRK15180        379 TAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWV  429 (831)
T ss_pred             HHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccce
Confidence            999888754434333332222334557788888888888765554444443

>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=83.79  E-value=3.2  Score=22.37  Aligned_cols=29  Identities=21%  Similarity=0.029  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Q 048142          175 VLGGLLGACRIHDNLEAAERAAQQLLELL  203 (352)
Q Consensus       175 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~  203 (352)
                      +|..+-..+...|+.++|...|++..+..
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            34444555555666666666665555443

...

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=83.51  E-value=6.3  Score=32.05  Aligned_cols=87  Identities=15%  Similarity=0.149  Sum_probs=52.1

Q ss_pred             HHHcCCHHHHHHHHHhC----CCCC---cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCCh
Q 048142          151 LGRAGRIAKAEELIKNM----PMAL---DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKW  223 (352)
Q Consensus       151 ~~~~g~~~~A~~~~~~m----~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  223 (352)
                      +.++|++++|..-|...    +..+   -.+.|..=..++.+.+.++.|+.-..+.++..|........-..+|.+...+
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~  184 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKY  184 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhH
Confidence            44567777766666554    1111   1234444445666777777777777777666664444444445567777777


Q ss_pred             HHHHHHHHHHHhcC
Q 048142          224 KKVKRIRELMAERN  237 (352)
Q Consensus       224 ~~a~~~~~~m~~~g  237 (352)
                      ++|++=|..+.+..
T Consensus       185 eealeDyKki~E~d  198 (271)
T KOG4234|consen  185 EEALEDYKKILESD  198 (271)
T ss_pred             HHHHHHHHHHHHhC
Confidence            77777777776543

>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=82.76  E-value=23  Score=28.88  Aligned_cols=68  Identities=18%  Similarity=0.118  Sum_probs=32.7

Q ss_pred             HHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-----C-CCCcHHHHHHHHHHHHhcCCHHHH
Q 048142          123 ERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-----P-MALDHFVLGGLLGACRIHDNLEAA  192 (352)
Q Consensus       123 ~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-----~-~~p~~~~~~~li~~~~~~g~~~~a  192 (352)
                      .|.+.|-.+... +.--++.....|...|. ..+.++|..++.+.     + -.+|+..+.+|.+.+.+.|+.+.|
T Consensus       124 ~A~~~fL~~E~~-~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  124 EALRRFLQLEGT-PELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHcCC-CCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            344444444433 33334444444444444 33455555554443     1 245555555566555555555554

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=82.48  E-value=32  Score=29.83  Aligned_cols=126  Identities=8%  Similarity=0.005  Sum_probs=82.6

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHc-CCCCCccccccCCcHHHHHHHHHHHHh-cC-ChHHHHHHHHHHHH-cCCCCC
Q 048142           29 MVSLLLACTHLGALEVGMWLHPYIMKK-NIEVDVGLGMALKDVMTLTALIVVLAM-CG-QGNKALEYFYEMQI-RGVKPD  104 (352)
Q Consensus        29 ~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~l~~~~~~~~li~~~~~-~g-~~~~A~~~~~~m~~-~g~~p~  104 (352)
                      |..|+.   +...+.+|+.+|+..... .+-         .|..+-..|++.... .+ ....-.++.+-+.. .|-.++
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii---------~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~  201 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESII---------FDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLT  201 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCccccee---------eChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCC
Confidence            666653   344566777777733221 122         455566666666655 21 23333333333332 346777


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHh
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKN  166 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  166 (352)
                      ..+...+|..++..+++.+-.++++.-....+..-|...|...|......|+..-...+.++
T Consensus       202 ~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  202 RNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            78888899999999999999998888765323444788899999999999998888888765

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=81.32  E-value=21  Score=30.67  Aligned_cols=86  Identities=16%  Similarity=0.172  Sum_probs=57.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc--CCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHH-
Q 048142           77 IVVLAMCGQGNKALEYFYEMQIR--GVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGR-  153 (352)
Q Consensus        77 i~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~-  153 (352)
                      |.+++..+++.+++...-+--+.  .++|..  .-.-|-.|++.+.+..+.++-..-.+. .-.-+...|.++...|.. 
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkI--leLCILLysKv~Ep~amlev~~~WL~~-p~Nq~lp~y~~vaELyLl~  166 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKI--LELCILLYSKVQEPAAMLEVASAWLQD-PSNQSLPEYGTVAELYLLH  166 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHH--HHHHHHHHHHhcCHHHHHHHHHHHHhC-cccCCchhhHHHHHHHHHH
Confidence            68888888888888766554432  244433  334455678888888888877777664 223344457777776665 


Q ss_pred             ----cCCHHHHHHHHH
Q 048142          154 ----AGRIAKAEELIK  165 (352)
Q Consensus       154 ----~g~~~~A~~~~~  165 (352)
                          .|.++||+++..
T Consensus       167 VLlPLG~~~eAeelv~  182 (309)
T PF07163_consen  167 VLLPLGHFSEAEELVV  182 (309)
T ss_pred             HHhccccHHHHHHHHh
Confidence                588888888873

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>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=81.17  E-value=3.5  Score=20.98  Aligned_cols=20  Identities=30%  Similarity=0.356  Sum_probs=10.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHH
Q 048142          146 CLVYILGRAGRIAKAEELIK  165 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~  165 (352)
                      .+...+...|++++|..+++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            34445555555555555543

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

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=80.47  E-value=10  Score=29.28  Aligned_cols=60  Identities=22%  Similarity=0.286  Sum_probs=38.4

Q ss_pred             HHHHHHHHHH---HcCCHHHHHHHHHhC----CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          143 HYGCLVYILG---RAGRIAKAEELIKNM----PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       143 ~~~~li~~~~---~~g~~~~A~~~~~~m----~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                      +.+.||+...   ..++++++..+++.|    |..|...++...+  +...|++++|.++|+++.+..+
T Consensus         9 iv~gLi~~~~~aL~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~~~~~   75 (153)
T TIGR02561         9 LLGGLIEVLMYALRSADPYDAQAMLDALRVLRPNLKELDMFDGWL--LIARGNYDEAARILRELLSSAG   75 (153)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCccccchhHHHH--HHHcCCHHHHHHHHHhhhccCC
Confidence            3444444432   467888888888887    3333444554444  5677888888888888876543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.10  E-value=59  Score=31.42  Aligned_cols=118  Identities=14%  Similarity=0.030  Sum_probs=65.3

Q ss_pred             cCCChhHHHHHHHHHHH-------CCCCCCHHHHHHHHHHHhccC-----ChHHHHHHHHHHHHcCCCCCccccccCCcH
Q 048142            3 EDSACEEALLLFREVQH-------KGLTGDKVTMVSLLLACTHLG-----ALEVGMWLHPYIMKKNIEVDVGLGMALKDV   70 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~-------~g~~p~~~t~~~li~~~~~~g-----~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~   70 (352)
                      ...+++.|+..|+....       .|   +....+-+-.+|.+..     +.+.|..++.+.-+.|.          |+.
T Consensus       261 ~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~----------~~a  327 (552)
T KOG1550|consen  261 VTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGN----------PDA  327 (552)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCC----------chH
Confidence            45677778888777765       44   2234445555554432     55667777777777765          443


Q ss_pred             HHHHHHHHHHHh-cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHh--ccCCHHHHHHHHHHhhHh
Q 048142           71 MTLTALIVVLAM-CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACS--HAGLVDERISHFNLMSEK  134 (352)
Q Consensus        71 ~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~--~~g~~~~a~~~~~~m~~~  134 (352)
                      ...-..+.-... ..+...|.++|...-..|.. +..-+.+++-...  -..+.+.|..++.+..++
T Consensus       328 ~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~  393 (552)
T KOG1550|consen  328 QYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERNLELAFAYYKKAAEK  393 (552)
T ss_pred             HHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHc
Confidence            333222222222 24567788888877777644 2222222222222  234667777777777665

>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=80.09  E-value=6.2  Score=21.16  Aligned_cols=27  Identities=26%  Similarity=0.257  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQI   98 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~   98 (352)
                      +|..+...|...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            567777888888888888888887665

...

---

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	352
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-05

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 55.6 bits (132), Expect = 2e-08
 Identities = 24/226 (10%), Positives = 63/226 (27%), Gaps = 17/226 (7%)

Query: 18  QHKGLTGDKVTMVSLLLACTHLG----ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTL 73
               L+G +  +++    C        A  + +  H    K+ +            +   
Sbjct: 119 SQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL----------TLDMY 168

Query: 74  TALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSE 133
            A+++  A  G   + +   + ++  G+ PD +++   L            I        
Sbjct: 169 NAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMS 228

Query: 134 KYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAE 193
           + G++        L+    RA  +    ++    P       L   +   ++  ++ A +
Sbjct: 229 QEGLKLQALFTAVLLSEEDRATVLKAVHKV---KPTFSLPPQLPPPVNTSKLLRDVYAKD 285

Query: 194 RAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIK 239
                    LP      +     +        V  + +        
Sbjct: 286 GRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEV 331

>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 = 44.1 bits (103), Expect = 6e-05
 Identities = 26/199 (13%), Positives = 56/199 (28%), Gaps = 22/199 (11%)

Query: 155 GRIAKAEELIK---NMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYV 211
                 E +++    +   +D         +  I   + + +   ++LL+         +
Sbjct: 190 KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS-KPYENCLL 248

Query: 212 ILSNRYSSSRKWKKVK-RIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLF 270
           +L N   +++ W       + L+  R  +            +  +       P++ + L 
Sbjct: 249 VLLN-VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307

Query: 271 DMDEEEKETALNLHTEKLAITFGLVSP----MPGVLIRI----IKNLRVCNDCHTATNII 322
                     L+   + L       +P    +    IR       N +  N C   T II
Sbjct: 308 -------LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVN-CDKLTTII 359

Query: 323 SKVYNRETVVMDRNRFHHF 341
               N       R  F   
Sbjct: 360 ESSLNVLEPAEYRKMFDRL 378

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	352
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.92
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.9
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.84
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.83
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.81
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.8
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.77
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.75
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.74
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.74
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.73
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.73
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.71
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.71
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.71
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.69
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.68
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.68
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.65
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.65
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.65
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.64
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.64
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.64
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.64
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.63
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.62
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.62
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.61
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.61
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.6
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.6
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.59
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.56
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.55
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.55
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.55
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.53
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.53
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.53
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.5
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.49
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.45
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.45
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.44
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.44
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.39
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.37
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.36
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.35
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.35
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.33
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.33
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.33
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.33
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.33
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.32
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.32
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.29
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.27
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.26
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.25
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.25
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.23
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.21
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.16
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.15
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.15
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.14
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.13
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.12
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.12
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.12
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.11
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.09
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.07
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.06
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.06
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.06
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.04
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.03
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.03
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.02
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.0
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.0
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.0
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.99
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.99
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.99
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.94
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.94
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.91
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.9
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.9
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.9
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.9
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.88
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.88
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.86
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.85
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.83
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.81
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.8
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.76
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.76
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.75
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.74
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.74
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.73
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.73
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.71
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.71
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.67
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.66
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.66
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.65
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.63
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.63
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.6
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.6
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.58
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.58
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.57
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.57
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.57
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.56
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.55
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.55
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.54
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.52
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.51
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.51
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.51
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.5
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.48
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.47
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.45
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.43
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.43
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.43
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.4
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.4
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.39
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.38
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.37
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.35
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.35
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.35
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.34
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.32
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.3
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.3
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.3
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.29
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.29
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.29
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.28
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.28
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.27
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.27
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.26
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.25
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.25
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.23
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.19
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.17
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.15
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.15
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.11
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.11
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.1
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.08
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.05
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.04
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.03
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.03
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.02
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.01
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.0
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.98
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.96
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.9
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.89
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.86
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.85
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.84
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.82
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.77
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.63
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.63
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.63
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.6
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.58
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.57
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.55
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.48
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.45
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.44
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.43
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.39
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.38
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.36
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.35
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.21
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.13
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.88
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.77
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.75
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.56
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.43
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.4
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.32
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.28
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.94
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.94
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.86
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.84
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.59
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.1
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.5
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.44
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.32
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.17
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.04
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.91
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.36
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.98
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	91.77
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	91.4
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.21
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	90.37
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	90.12
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	90.02
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	89.86
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.6
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	89.08
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	88.66
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	87.85
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	86.74
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	84.2
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	83.03
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	82.42
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	81.12

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=3.6e-34  Score=266.58  Aligned_cols=219  Identities=18%  Similarity=0.238  Sum_probs=184.5

Q ss_pred             hHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCC-
Q 048142            8 EEALLLFREVQHKGLTGDK-VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQ-   85 (352)
Q Consensus         8 ~~A~~~~~~m~~~g~~p~~-~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~-   85 (352)
                      ..+..+++++++.+..+.+ ..++.+|++|++.|++++|.++|++|.+.|+.         ||.++||+||.+|++.+. 
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~---------pd~~tyn~Li~~c~~~~~~   77 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQ---------LSQYHYNVLLYVCSLAEAA   77 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCC---------CCHHHHHHHHHHHTTCCCC
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC---------CCHhHHHHHHHHHHhCCch
Confidence            4566777888888877654 46889999999999999999999999999999         899999999999998765 


Q ss_pred             --------hHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCH
Q 048142           86 --------GNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRI  157 (352)
Q Consensus        86 --------~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~  157 (352)
                              +++|.++|++|.+.|+.||..||++||.+|++.|++++|.++|++|.+. |+.||..+||+||.+|++.|++
T Consensus        78 ~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~-g~~Pd~~tyn~lI~~~~~~g~~  156 (501)
T 4g26_A           78 TESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAF-GIQPRLRSYGPALFGFCRKGDA  156 (501)
T ss_dssp             SSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-TCCCCHHHHHHHHHHHHHTTCH
T ss_pred             hhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCccceehHHHHHHHHCCCH
Confidence                    6889999999999999999999999999999999999999999999997 9999999999999999999999


Q ss_pred             HHHHHHHHhC---CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-hCCCCcchHHHHHHHHhhcC------ChHHHH
Q 048142          158 AKAEELIKNM---PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLE-LLPDNGGSYVILSNRYSSSR------KWKKVK  227 (352)
Q Consensus       158 ~~A~~~~~~m---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~li~~~~~~g------~~~~a~  227 (352)
                      ++|.++|++|   |+.||..||++||.+|++.|++++|.+++++|.+ +..|+..||+.++..|+..+      ...++.
T Consensus       157 ~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~a~~~g~~~~d~~  236 (501)
T 4g26_A          157 DKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEVATKTGVKKWDVK  236 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHHHHTCCBSCCCHH
T ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCcchhhhhhhhhhh
Confidence            9999999999   8999999999999999999999999999999987 67899999999999987643      222355


Q ss_pred             HHHHHHHhc
Q 048142          228 RIRELMAER  236 (352)
Q Consensus       228 ~~~~~m~~~  236 (352)
                      .+...+...
T Consensus       237 ~~~~~~~~~  245 (501)
T 4g26_A          237 KIRDAVVSG  245 (501)
T ss_dssp             HHHHHHHHH
T ss_pred             hhhhhHhcc
Confidence            555555543

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=1.3e-33  Score=262.93  Aligned_cols=176  Identities=15%  Similarity=0.167  Sum_probs=169.9

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCC---------hHHHHHHHHHHHHcCCCCCccccccCCcHH
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGA---------LEVGMWLHPYIMKKNIEVDVGLGMALKDVM   71 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~---------~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~   71 (352)
                      |++.|++++|+++|++|...|++||..|||+||.+|++.+.         ++.|.++|++|.+.|+.         ||.+
T Consensus        36 c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~---------Pd~~  106 (501)
T 4g26_A           36 CSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVV---------PNEA  106 (501)
T ss_dssp             TTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCC---------CCHH
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCC---------CCHH
Confidence            78999999999999999999999999999999999987664         68899999999999999         8999


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      +||+||.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+. |+.||..||++||.+|
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~-G~~Pd~~ty~~Li~~~  185 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVES-EVVPEEPELAALLKVS  185 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhc-CCCCCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999997 9999999999999999


Q ss_pred             HHcCCHHHHHHHHHhC---CCCCcHHHHHHHHHHHHhc
Q 048142          152 GRAGRIAKAEELIKNM---PMALDHFVLGGLLGACRIH  186 (352)
Q Consensus       152 ~~~g~~~~A~~~~~~m---~~~p~~~~~~~li~~~~~~  186 (352)
                      ++.|++++|.++|++|   +..|+..||+.++..++..
T Consensus       186 ~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          186 MDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999   8899999999999998764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.92  E-value=4.2e-25  Score=210.92  Aligned_cols=291  Identities=10%  Similarity=-0.066  Sum_probs=241.6

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      |.+.|++++|.++|++|...  +++..+|+.++.++.+.|++++|.++|+++.+.+.          .+..+|+.++.+|
T Consensus       282 ~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~  349 (597)
T 2xpi_A          282 TSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDP----------YNLDVYPLHLASL  349 (597)
T ss_dssp             TTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCCTTHHHHHHHH
T ss_pred             HcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCc----------ccHHHHHHHHHHH
Confidence            45678999999999999875  57999999999999999999999999999998764          3556899999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  160 (352)
                      .+.|++++|.++|+++.+. .+.+..+++.+...|.+.|++++|..+|+++.+.  .+.+..+|+.++.+|.+.|++++|
T Consensus       350 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  426 (597)
T 2xpi_A          350 HESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTM--DPQFGPAWIGFAHSFAIEGEHDQA  426 (597)
T ss_dssp             HHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999865 3557889999999999999999999999999864  233688999999999999999999


Q ss_pred             HHHHHhC-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhc--
Q 048142          161 EELIKNM-PMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAER--  236 (352)
Q Consensus       161 ~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--  236 (352)
                      .++|+++ ... .+..+|+.++.+|...|++++|.++|+++.+..|.++.+|+.++..|.+.|++++|.++|+++.+.  
T Consensus       427 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  506 (597)
T 2xpi_A          427 ISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVK  506 (597)
T ss_dssp             HHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhh
Confidence            9999987 333 478999999999999999999999999999999999999999999999999999999999999876  


Q ss_pred             --CCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHHHHhhhhhhhhHHHHHHHhhhCCCCCCcEEEEcccccccC
Q 048142          237 --NIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIKNLRVCND  314 (352)
Q Consensus       237 --g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~l~~~~~  314 (352)
                        +..|+.  ....+..+...+.+.|..++|..++..+.+....... .+ .                 .+...+...|+
T Consensus       507 ~~~~~p~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-~~-~-----------------~l~~~~~~~g~  565 (597)
T 2xpi_A          507 KTQSNEKP--WAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDAN-VH-T-----------------AIALVYLHKKI  565 (597)
T ss_dssp             HSCCCSGG--GHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHH-HH-H-----------------HHHHHHHHTTC
T ss_pred             ccccchhh--HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChH-HH-H-----------------HHHHHHHHhCC
Confidence              666652  1122334566688999999999999876543221110 00 0                 11123556788


Q ss_pred             ccchhHHHhhhhc
Q 048142          315 CHTATNIISKVYN  327 (352)
Q Consensus       315 ~~~a~~~~~~~~~  327 (352)
                      .++|.+.+.++..
T Consensus       566 ~~~A~~~~~~~l~  578 (597)
T 2xpi_A          566 PGLAITHLHESLA  578 (597)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            8999998887765

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.90  E-value=1.4e-21  Score=186.42  Aligned_cols=258  Identities=12%  Similarity=0.064  Sum_probs=215.8

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      |.+.|++++|+++|+++...+ +.+..+|+.++.++.+.|++++|.++++++.+...          .+..+|+.++..|
T Consensus       315 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~  383 (597)
T 2xpi_A          315 LFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHP----------EKAVTWLAVGIYY  383 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----------TSHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCc----------ccHHHHHHHHHHH
Confidence            357899999999999999765 34778899999999999999999999999987653          5678999999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  160 (352)
                      .+.|++++|.++|+++.+. .+.+..+|+.++.+|.+.|++++|..+|+++.+.  .+.+..+|+.++.+|.+.|++++|
T Consensus       384 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  460 (597)
T 2xpi_A          384 LCVNKISEARRYFSKSSTM-DPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARL--FQGTHLPYLFLGMQHMQLGNILLA  460 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TTTCSHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhccHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999875 2335779999999999999999999999999863  344788999999999999999999


Q ss_pred             HHHHHhC-C-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-----CCC--cchHHHHHHHHhhcCChHHHHHHHH
Q 048142          161 EELIKNM-P-MALDHFVLGGLLGACRIHDNLEAAERAAQQLLELL-----PDN--GGSYVILSNRYSSSRKWKKVKRIRE  231 (352)
Q Consensus       161 ~~~~~~m-~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~~--~~~~~~li~~~~~~g~~~~a~~~~~  231 (352)
                      .++|+++ . ...+..+|+.++..+.+.|++++|.++|+++.+..     .|+  ..+|..++.+|.+.|++++|.++++
T Consensus       461 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~  540 (597)
T 2xpi_A          461 NEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALN  540 (597)
T ss_dssp             HHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            9999998 2 23468899999999999999999999999987651     333  5789999999999999999999999


Q ss_pred             HHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHHHH
Q 048142          232 LMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEK  277 (352)
Q Consensus       232 ~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~  277 (352)
                      ++.+.+  |+..   ..+..+...+.+.|+.++|..++..+.+...
T Consensus       541 ~~~~~~--p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          541 QGLLLS--TNDA---NVHTAIALVYLHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             HHHHHS--SCCH---HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHhC--CCCh---HHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            998765  4322   2223455668899999999999988766543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.85  E-value=6.5e-22  Score=190.52  Aligned_cols=164  Identities=12%  Similarity=0.099  Sum_probs=134.8

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHH---cCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMK---KNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVK  102 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  102 (352)
                      ..|||+||++||+.|++++|.++|++|.+   .|+.         ||++|||+||.+||+.|++++|.++|++|.+.|+.
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~---------PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~  197 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKL---------LTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLT  197 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTT---------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCC---------CCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            46899999999999999999999988764   5777         99999999999999999999999999999999999


Q ss_pred             CCHhHHHHHHHHHhccCCH-HHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCC--C--CcHHHHH
Q 048142          103 PDAITFVGVLVACSHAGLV-DERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPM--A--LDHFVLG  177 (352)
Q Consensus       103 p~~~t~~~ll~~~~~~g~~-~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~--p~~~~~~  177 (352)
                      ||.+|||+||.++|+.|+. ++|.++|++|.++ |+.||..+|++++..+.+.+-++...++...+.-  .  |.+.+..
T Consensus       198 PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~  276 (1134)
T 3spa_A          198 PDLLSYAAALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSK  276 (1134)
T ss_dssp             CCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCT
T ss_pred             CcHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchH
Confidence            9999999999999999984 7899999999998 9999999999999988887655555555444411  1  1134445


Q ss_pred             HHHHHHHhcC---------CHHHHHHHHHHH
Q 048142          178 GLLGACRIHD---------NLEAAERAAQQL  199 (352)
Q Consensus       178 ~li~~~~~~g---------~~~~a~~~~~~~  199 (352)
                      .|...|.+.+         ..++-..+|++-
T Consensus       277 LL~dl~s~d~~~s~pk~~~~~~~L~~~~~~Q  307 (1134)
T 3spa_A          277 LLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQ  307 (1134)
T ss_dssp             TTHHHHCCCSCCCCCCCSSCHHHHHHHHHHH
T ss_pred             HHHHHHccCCCCcCccccCCHHHHHHHHHHH
Confidence            5556666554         245666666653

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.84  E-value=9.8e-21  Score=182.42  Aligned_cols=148  Identities=14%  Similarity=0.173  Sum_probs=124.7

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHH---cCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEMQI---RGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG  145 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~  145 (352)
                      -..+||+||++||+.|++++|.++|.+|.+   .|+.||.+|||+||++||+.|++++|.++|++|.+. |+.||..|||
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~-G~~PDvvTYn  204 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDA-GLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-TCCCCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCcHHHHH
Confidence            346899999999999999999999988764   589999999999999999999999999999999997 9999999999


Q ss_pred             HHHHHHHHcCCH-HHHHHHHHhC---CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC------CCcchHHHHHH
Q 048142          146 CLVYILGRAGRI-AKAEELIKNM---PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLP------DNGGSYVILSN  215 (352)
Q Consensus       146 ~li~~~~~~g~~-~~A~~~~~~m---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~------~~~~~~~~li~  215 (352)
                      +||+++++.|+. ++|.++|++|   |+.||.++|++++.++.+.    ..++..+++.....      +...+...|.+
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKVKPTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGGCCCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHhCcccCCCCCCcccccchHHHHH
Confidence            999999999985 7899999999   8999999999999766543    33344444422222      23556677888


Q ss_pred             HHhhcC
Q 048142          216 RYSSSR  221 (352)
Q Consensus       216 ~~~~~g  221 (352)
                      .|++.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            888766

>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=99.83  E-value=2.3e-19  Score=162.14  Aligned_cols=282  Identities=11%  Similarity=0.045  Sum_probs=148.2

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      +.|++++|...++..... .+.+..+|..+...+.+.|++++|...|+++.+...          .+..+|..+..++.+
T Consensus        45 ~~~~~~~a~~~~~~a~~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~l~~~~~~  113 (388)
T 1w3b_A           45 QCRRLDRSAHFSTLAIKQ-NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKP----------DFIDGYINLAAALVA  113 (388)
T ss_dssp             HTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCc----------chHHHHHHHHHHHHH
Confidence            456666666666666553 233556666666666666666666666666665432          233456666666666


Q ss_pred             cCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A  160 (352)
                      .|++++|++.|+++.+.  .|+ ...+..+...+...|++++|...|+++.+.   .| +..+|..+...|.+.|++++|
T Consensus       114 ~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A  188 (388)
T 1w3b_A          114 AGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIET---QPNFAVAWSNLGCVFNAQGEIWLA  188 (388)
T ss_dssp             HSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            66666666666665553  233 233444555555556666666666555543   22 345555555555555555555


Q ss_pred             HHHHHhC-----------------------------------CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          161 EELIKNM-----------------------------------PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       161 ~~~~~~m-----------------------------------~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                      ...|+++                                   ...| +..+|..+...+...|++++|...++++.+..|
T Consensus       189 ~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  268 (388)
T 1w3b_A          189 IHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP  268 (388)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            5555554                                   1222 244455555555555555555555555555555


Q ss_pred             CCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHHHHhhhhhhh
Q 048142          205 DNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLH  284 (352)
Q Consensus       205 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~  284 (352)
                      .++.+|..+...|.+.|++++|.+.++++.+..  |+...   .+..+...+.+.|..++|...+..+.+.         
T Consensus       269 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~al~~---------  334 (388)
T 1w3b_A          269 HFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHAD---SLNNLANIKREQGNIEEAVRLYRKALEV---------  334 (388)
T ss_dssp             SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHH---HHHHHHHHHHTTTCHHHHHHHHHHHTTS---------
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHH---HHHHHHHHHHHcCCHHHHHHHHHHHHhc---------
Confidence            555555555555555555555555555554432  21110   1112223344555555555554433221         


Q ss_pred             hHHHHHHHhhhCCCCCCc---EEEEcccccccCccchhHHHhhhhc
Q 048142          285 TEKLAITFGLVSPMPGVL---IRIIKNLRVCNDCHTATNIISKVYN  327 (352)
Q Consensus       285 ~~~l~~~~~~~~~~~~~~---i~~~~~l~~~~~~~~a~~~~~~~~~  327 (352)
                                   .|...   ..+...+...|+..+|.+.+.++..
T Consensus       335 -------------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          335 -------------FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             -------------CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             -------------CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                         11110   0112335567889999999888765

>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=99.81  E-value=6.4e-19  Score=162.11  Aligned_cols=256  Identities=10%  Similarity=0.028  Sum_probs=211.3

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|+.+|+++.... +.+..+|..+..++...|++++|...++++.+.+.          .+...|..+...|.
T Consensus        37 ~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~l~~~~~  105 (450)
T 2y4t_A           37 LAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM----------DFTAARLQRGHLLL  105 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC----------CcHHHHHHHHHHHH
Confidence            46799999999999998752 44788999999999999999999999999998764          46678999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCH----hHHHHH------------HHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDA----ITFVGV------------LVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG  145 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~l------------l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~  145 (352)
                      +.|++++|.+.|+++.+.  .|+.    .++..+            ...+...|++++|...|+++.+.  .+.+...+.
T Consensus       106 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~  181 (450)
T 2y4t_A          106 KQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV--CVWDAELRE  181 (450)
T ss_dssp             HTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHH
Confidence            999999999999999874  4543    455555            34488899999999999999874  234788899


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHH----------
Q 048142          146 CLVYILGRAGRIAKAEELIKNM-PM-ALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVIL----------  213 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l----------  213 (352)
                      .+..+|.+.|++++|..+|+++ .. ..+..+|..+...+...|++++|...++++.+..|.+...+..+          
T Consensus       182 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~  261 (450)
T 2y4t_A          182 LRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLI  261 (450)
T ss_dssp             HHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999987 22 24688999999999999999999999999999888888777766          


Q ss_pred             --HHHHhhcCChHHHHHHHHHHHhcCCCCCCcee-EEEEcceeehhhhcCcccCchhhhhcCCH
Q 048142          214 --SNRYSSSRKWKKVKRIRELMAERNIKKPPGCI-LIEVDGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       214 --i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~~~~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                        ...|...|++++|.+.|+++.+..  |+.... ...+..+...+.+.|..++|...+..+.+
T Consensus       262 ~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  323 (450)
T 2y4t_A          262 ESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQ  323 (450)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence              889999999999999999998743  332111 11222344567789999999998876543

>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=99.80  E-value=3.7e-17  Score=147.61  Aligned_cols=253  Identities=14%  Similarity=0.040  Sum_probs=213.9

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGD-KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      .+.|++++|++.|+++...  .|+ ...+..+...+...|++++|.+.|+++.+...          .+..+|+.+...|
T Consensus       112 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~l~~~~  179 (388)
T 1w3b_A          112 VAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQP----------NFAVAWSNLGCVF  179 (388)
T ss_dssp             HHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHH
Confidence            4578999999999999875  454 55677788888999999999999999998653          4567899999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~  159 (352)
                      .+.|++++|++.|+++.+.+ +.+...|..+...+...|++++|...+++....   .| +..++..+...|.+.|++++
T Consensus       180 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~  255 (388)
T 1w3b_A          180 NAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSL---SPNHAVVHGNLACVYYEQGLIDL  255 (388)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CcCCHHHHHHHHHHHHHcCCHHH
Confidence            99999999999999998853 234677889999999999999999999998764   45 57889999999999999999


Q ss_pred             HHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          160 AEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       160 A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      |.+.|+++ ...| +..+|..+...+...|++++|...++++.+..|.+..++..+...+.+.|++++|.+.++++.+. 
T Consensus       256 A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-  334 (388)
T 1w3b_A          256 AIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEV-  334 (388)
T ss_dssp             HHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-
T ss_pred             HHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-
Confidence            99999987 3445 47789999999999999999999999999999999999999999999999999999999999764 


Q ss_pred             CCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHH
Q 048142          238 IKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEE  275 (352)
Q Consensus       238 ~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~  275 (352)
                       .|+...   ....+...+.+.|..++|...+..+.+.
T Consensus       335 -~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          335 -FPEFAA---AHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             -CTTCHH---HHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             -CCCcHH---HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence             344322   2344566788999999999998876543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.77  E-value=4.5e-17  Score=145.78  Aligned_cols=222  Identities=12%  Similarity=0.024  Sum_probs=182.5

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|++.|+++.... +.+..+|..+...+...|++++|...|+++.+...          .+..+|..+...|.
T Consensus        76 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~l~~~~~  144 (365)
T 4eqf_A           76 LKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQP----------NNLKALMALAVSYT  144 (365)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC----------CCHHHHHHHHHHHH
Confidence            35689999999999998863 34788999999999999999999999999988653          45778999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCH-----------hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDA-----------ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI  150 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~-----------~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  150 (352)
                      ..|++++|++.|+++.+.  .|+.           ..+..+...+...|++++|...++++.+...-.++..++..+...
T Consensus       145 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          145 NTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            999999999999999874  2332           223345788899999999999999998762222268889999999


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHH
Q 048142          151 LGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKR  228 (352)
Q Consensus       151 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  228 (352)
                      |.+.|++++|...|+++ ...| +..+|..+...+...|++++|...+++..+..|.+..+|..+...|...|++++|.+
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~  302 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAVS  302 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999999987 2233 588999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhc
Q 048142          229 IRELMAER  236 (352)
Q Consensus       229 ~~~~m~~~  236 (352)
                      .|++..+.
T Consensus       303 ~~~~al~~  310 (365)
T 4eqf_A          303 NFLTALSL  310 (365)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998753

>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=99.75  E-value=3.6e-16  Score=143.69  Aligned_cols=186  Identities=12%  Similarity=0.054  Sum_probs=130.4

Q ss_pred             HhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHH
Q 048142           36 CTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVAC  115 (352)
Q Consensus        36 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~  115 (352)
                      +...|++++|...++++.+...          .+...|..+..+|.+.|++++|++.|+++.+. .+.+..++..+...+
T Consensus       153 ~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~  221 (450)
T 2y4t_A          153 AFGSGDYTAAIAFLDKILEVCV----------WDAELRELRAECFIKEGEPRKAISDLKAASKL-KNDNTEAFYKISTLY  221 (450)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHH-HCSCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC----------CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHH
Confidence            4444444444444444444321          45667777888888888888888888887764 234567777888888


Q ss_pred             hccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHH------------HHHHHHcCCHHHHHHHHHhC-CCCCc-----HHHH
Q 048142          116 SHAGLVDERISHFNLMSEKYGIRP-SIEHYGCL------------VYILGRAGRIAKAEELIKNM-PMALD-----HFVL  176 (352)
Q Consensus       116 ~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~l------------i~~~~~~g~~~~A~~~~~~m-~~~p~-----~~~~  176 (352)
                      ...|++++|...|+++.+.   .| +...+..+            ...|.+.|++++|...|+++ ...|+     ...|
T Consensus       222 ~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~  298 (450)
T 2y4t_A          222 YQLGDHELSLSEVRECLKL---DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSK  298 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh---CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHH
Confidence            8888888888888887753   34 33344433            67777888888888888776 22333     3467


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          177 GGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       177 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..+...+...|++++|...++++.+..|.+..+|..+..+|...|++++|.+.+++..+
T Consensus       299 ~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  357 (450)
T 2y4t_A          299 ERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQE  357 (450)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            77777888888888888888888777777778888888888888888888888887766

>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=99.74  E-value=6.1e-16  Score=138.21  Aligned_cols=256  Identities=13%  Similarity=-0.023  Sum_probs=181.8

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|+..|+++.... +.+..+|..+...+...|++++|...++++.+...          .+..+|..+...|.
T Consensus        75 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~----------~~~~~~~~l~~~~~  143 (368)
T 1fch_A           75 LQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKP----------DNQTALMALAVSFT  143 (368)
T ss_dssp             HHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCC----------CCHHHHHHHHHHHH
Confidence            35688888888888888753 33677788888888888888888888888887653          45667888888888


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCH-hHHHH---------------HHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDA-ITFVG---------------VLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG  145 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~---------------ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~  145 (352)
                      ..|++++|++.|+++....  |+. ..+..               .+..+...|++++|...++++.+...-.++..++.
T Consensus       144 ~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~  221 (368)
T 1fch_A          144 NESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQC  221 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHH
Confidence            8888888888888887753  322 22211               23333477888888888888876522222477888


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCCh
Q 048142          146 CLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKW  223 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  223 (352)
                      .+...|.+.|++++|...|+++ ...| +..+|..+...+...|++++|...+++..+..|.+..++..+...|.+.|++
T Consensus       222 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~  301 (368)
T 1fch_A          222 GLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAH  301 (368)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCH
Confidence            8888888888888888888876 2233 4778888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHhcCCCC---CC---ceeEEEEcceeehhhhcCcccCchhhhh
Q 048142          224 KKVKRIRELMAERNIKK---PP---GCILIEVDGVVHEFVKAGFVPNKSEVLF  270 (352)
Q Consensus       224 ~~a~~~~~~m~~~g~~p---~~---~~~~~~~~~~~~~~~~~G~~~~~~~~~~  270 (352)
                      ++|.+.+++..+.....   ..   ......+..+...+...|..+.+..+..
T Consensus       302 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          302 REAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             HHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHT
T ss_pred             HHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHH
Confidence            88888888876532111   00   0001112223444556677776666654

>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=99.74  E-value=2.1e-16  Score=138.64  Aligned_cols=258  Identities=12%  Similarity=-0.040  Sum_probs=206.3

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|+.+|+++.... +.+..++..+...+...|++++|...++++.+...          .+...|..+...|.
T Consensus        32 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~----------~~~~~~~~la~~~~  100 (327)
T 3cv0_A           32 LKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP----------KDIAVHAALAVSHT  100 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc----------CCHHHHHHHHHHHH
Confidence            35799999999999998863 33778889999999999999999999999998753          46678999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCH-hHHHHH--------------HH-HHhccCCHHHHHHHHHHhhHhcCCCCChhHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDA-ITFVGV--------------LV-ACSHAGLVDERISHFNLMSEKYGIRPSIEHYG  145 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~l--------------l~-~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~  145 (352)
                      ..|++++|++.|++..+.  .|+. ..+..+              .. .+...|++++|...++++.+.  .+.+...+.
T Consensus       101 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~  176 (327)
T 3cv0_A          101 NEHNANAALASLRAWLLS--QPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEM--NPNDAQLHA  176 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHT--STTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHH--STTCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh--CCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhh--CCCCHHHHH
Confidence            999999999999999875  3333 333333              22 377889999999999999875  233778899


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCCh
Q 048142          146 CLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKW  223 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  223 (352)
                      .+...|.+.|++++|...++++ ...| +..+|..+...+...|++++|...+++..+..|.+..++..+...|...|++
T Consensus       177 ~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~  256 (327)
T 3cv0_A          177 SLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQY  256 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccH
Confidence            9999999999999999999987 2233 5788999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCCce-------eEEEEcceeehhhhcCcccCchhhhhcCCH
Q 048142          224 KKVKRIRELMAERNIKKPPGC-------ILIEVDGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       224 ~~a~~~~~~m~~~g~~p~~~~-------~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                      ++|.+.+++..+.........       .......+...+.+.|..+.|..++....+
T Consensus       257 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          257 DLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             HHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             HHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            999999999876443211000       111222344556788988888888876554

>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=99.73  E-value=4.3e-16  Score=136.81  Aligned_cols=253  Identities=11%  Similarity=0.010  Sum_probs=208.4

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      ..|++++|+++|+++.... +.+...+..++..+...|++++|..+++++.+...          .+...|..+...+..
T Consensus        34 ~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~~  102 (330)
T 3hym_B           34 YNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYP----------SNPVSWFAVGCYYLM  102 (330)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----------TSTHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCc----------CCHHHHHHHHHHHHH
Confidence            5699999999999998763 33566677788888999999999999999998653          355689999999999


Q ss_pred             cC-ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           83 CG-QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        83 ~g-~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      .| ++++|.+.|++..+.. +.+...|..+...+...|++++|...+++..+. . +.+...+..+...|...|++++|.
T Consensus       103 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~-~~~~~~~~~l~~~~~~~~~~~~A~  179 (330)
T 3hym_B          103 VGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQL-M-KGCHLPMLYIGLEYGLTNNSKLAE  179 (330)
T ss_dssp             SCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-T-TTCSHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-c-cccHHHHHHHHHHHHHHhhHHHHH
Confidence            99 9999999999998753 335677899999999999999999999999875 2 234667778999999999999999


Q ss_pred             HHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC---------CCCcchHHHHHHHHhhcCChHHHHHHH
Q 048142          162 ELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELL---------PDNGGSYVILSNRYSSSRKWKKVKRIR  230 (352)
Q Consensus       162 ~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---------~~~~~~~~~li~~~~~~g~~~~a~~~~  230 (352)
                      ..+++. ...| +...|..+...+...|++++|...+++..+..         +.+..++..+...|...|++++|.+.+
T Consensus       180 ~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  259 (330)
T 3hym_B          180 RFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYH  259 (330)
T ss_dssp             HHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            999987 4444 47889999999999999999999999987753         556779999999999999999999999


Q ss_pred             HHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCH
Q 048142          231 ELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       231 ~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                      ++..+..  |+..   ..+..+...+.+.|..++|...+....+
T Consensus       260 ~~a~~~~--~~~~---~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          260 RQALVLI--PQNA---STYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             HHHHHHS--TTCS---HHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             HHHHhhC--ccch---HHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence            9998754  3311   1122344557789999999999887654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.73  E-value=2.6e-16  Score=139.66  Aligned_cols=290  Identities=9%  Similarity=0.011  Sum_probs=222.5

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|++.|+++.... +.+..++..+...+...|++++|...++++.+...          .+...|..+...|.
T Consensus        14 ~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~   82 (359)
T 3ieg_A           14 LAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKM----------DFTAARLQRGHLLL   82 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC----------CcchHHHHHHHHHH
Confidence            46799999999999998853 34688899999999999999999999999998753          35678999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCC----CHhHHHHH------------HHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKP----DAITFVGV------------LVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG  145 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p----~~~t~~~l------------l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~  145 (352)
                      ..|++++|...|++..+.  .|    +...+..+            ...+...|++++|...++++.+.  .+.+...+.
T Consensus        83 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~  158 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV--CVWDAELRE  158 (359)
T ss_dssp             HHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCchHHHH
Confidence            999999999999999874  45    34444444            57888999999999999999874  234678899


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHH----------
Q 048142          146 CLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVIL----------  213 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l----------  213 (352)
                      .+...|...|++++|...++++ ...| +..+|..+...+...|++++|...+++..+..|.+...+..+          
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  238 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLI  238 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHHHHH
Confidence            9999999999999999999987 3344 588899999999999999999999999999888887765533          


Q ss_pred             --HHHHhhcCChHHHHHHHHHHHhcCCCCCCceeE-EEEcceeehhhhcCcccCchhhhhcCCHHHHhhhhhhhhHHHHH
Q 048142          214 --SNRYSSSRKWKKVKRIRELMAERNIKKPPGCIL-IEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAI  290 (352)
Q Consensus       214 --i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~-~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  290 (352)
                        ...+.+.|++++|.+.+++..+..  |+....+ .....+...+...|..++|...+....+....... . ...++ 
T Consensus       239 ~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~-~~~~~-  313 (359)
T 3ieg_A          239 ESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVN-A-LKDRA-  313 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH-H-HHHHH-
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHH-H-HHHHH-
Confidence              667999999999999999998754  3321111 11112345577899999999988765543211110 0 00111 


Q ss_pred             HHhhhCCCCCCcEEEEcccccccCccchhHHHhhhhc
Q 048142          291 TFGLVSPMPGVLIRIIKNLRVCNDCHTATNIISKVYN  327 (352)
Q Consensus       291 ~~~~~~~~~~~~i~~~~~l~~~~~~~~a~~~~~~~~~  327 (352)
                                      ..+...|+.++|.+.+.+...
T Consensus       314 ----------------~~~~~~g~~~~A~~~~~~a~~  334 (359)
T 3ieg_A          314 ----------------EAYLIEEMYDEAIQDYEAAQE  334 (359)
T ss_dssp             ----------------HHHHHTTCHHHHHHHHHHHHT
T ss_pred             ----------------HHHHHcCCHHHHHHHHHHHHh
Confidence                            123445777888887776654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.71  E-value=1.3e-15  Score=132.20  Aligned_cols=244  Identities=11%  Similarity=0.032  Sum_probs=160.4

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKGLTGDK--VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~--~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .|+++.|+..++....  ..|+.  .....+..++...|+++.|...++.   .    +.      |+..++..+...+.
T Consensus        12 ~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~----~~------~~~~a~~~la~~~~   76 (291)
T 3mkr_A           12 IGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S----SA------PELQAVRMFAEYLA   76 (291)
T ss_dssp             TTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T----SC------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c----CC------hhHHHHHHHHHHHc
Confidence            5777888877765543  23432  3445567777888888777764432   1    11      66677777778888


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  160 (352)
                      ..++.++|++.++++...+..|+ ...+..+...+...|++++|...+++       ..+...+..++..|.+.|++++|
T Consensus        77 ~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A  149 (291)
T 3mkr_A           77 SHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLA  149 (291)
T ss_dssp             CSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHH
Confidence            88888888888888777665554 34455566777788888888877765       34667777778888888888888


Q ss_pred             HHHHHhC-CCCCcHHHH---HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          161 EELIKNM-PMALDHFVL---GGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       161 ~~~~~~m-~~~p~~~~~---~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      ...|+++ ...|+....   ...+..+...|++++|..+|+++.+..|.++..++.+..++.+.|++++|.+.+++..+.
T Consensus       150 ~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~  229 (291)
T 3mkr_A          150 RKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK  229 (291)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            8888777 333543211   222333445577888888888887777777778888888888888888888888877654


Q ss_pred             CCCCCCceeEEEEcceeehhhhcCcccC-chhhhhcCCH
Q 048142          237 NIKKPPGCILIEVDGVVHEFVKAGFVPN-KSEVLFDMDE  274 (352)
Q Consensus       237 g~~p~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~  274 (352)
                      .  |+...   .+..+...+...|..++ +..++..+.+
T Consensus       230 ~--p~~~~---~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          230 D--SGHPE---TLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             C--TTCHH---HHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             C--CCCHH---HHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            3  32211   12334445666777755 4566655443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.71  E-value=1.4e-16  Score=148.68  Aligned_cols=290  Identities=9%  Similarity=-0.058  Sum_probs=221.2

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|+..|+++....  |+..+|..+..++.+.|++++|...++++.+.+.          .+...|..+..+|.
T Consensus        17 ~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~l~~~~~   84 (514)
T 2gw1_A           17 FRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP----------DYSKVLLRRASANE   84 (514)
T ss_dssp             HHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS----------CCHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh----------HHHHHHHHHHHHHH
Confidence            46799999999999999864  8999999999999999999999999999998753          56678999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCC-----------------------------------------------------------
Q 048142           82 MCGQGNKALEYFYEMQIRGVK-----------------------------------------------------------  102 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~-----------------------------------------------------------  102 (352)
                      +.|++++|+..|+++...+-.                                                           
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            999999999999998775421                                                           


Q ss_pred             ------------------CC-HhHHHHHHHHHh---ccCCHHHHHHHHHHhhHhc----CCC--------CChhHHHHHH
Q 048142          103 ------------------PD-AITFVGVLVACS---HAGLVDERISHFNLMSEKY----GIR--------PSIEHYGCLV  148 (352)
Q Consensus       103 ------------------p~-~~t~~~ll~~~~---~~g~~~~a~~~~~~m~~~~----g~~--------p~~~~~~~li  148 (352)
                                        |+ ...+......+.   +.|++++|...|+++.+.+    .-.        .+...+..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence                              00 222222222233   3899999999999988720    112        2456788889


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHH
Q 048142          149 YILGRAGRIAKAEELIKNM-PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVK  227 (352)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  227 (352)
                      ..|...|++++|...|+++ ...|+...|..+...+...|++++|...+++..+..|.+..++..+...|...|++++|.
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  324 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAG  324 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHH
Confidence            9999999999999999987 334558888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHHHHhhhhhhhhHHHHHHHhhhCCCCCCcEEEEc
Q 048142          228 RIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEEEKETALNLHTEKLAITFGLVSPMPGVLIRIIK  307 (352)
Q Consensus       228 ~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~  307 (352)
                      +.+++..+...  +..   .....+...+...|..++|...+..+......... .+ ..                 +-.
T Consensus       325 ~~~~~~~~~~~--~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~-~~-----------------la~  380 (514)
T 2gw1_A          325 KDFDKAKELDP--ENI---FPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPE-VP-NF-----------------FAE  380 (514)
T ss_dssp             HHHHHHHHTCS--SCS---HHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSH-HH-HH-----------------HHH
T ss_pred             HHHHHHHHhCh--hhH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHH-HH-HH-----------------HHH
Confidence            99999987543  211   11223445577889998888888765432211110 00 00                 112


Q ss_pred             ccccccCccchhHHHhhhhc
Q 048142          308 NLRVCNDCHTATNIISKVYN  327 (352)
Q Consensus       308 ~l~~~~~~~~a~~~~~~~~~  327 (352)
                      .+...|+..+|.+.+.++..
T Consensus       381 ~~~~~~~~~~A~~~~~~a~~  400 (514)
T 2gw1_A          381 ILTDKNDFDKALKQYDLAIE  400 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            24456788888888776654

>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=99.71  E-value=4e-15  Score=130.55  Aligned_cols=220  Identities=12%  Similarity=0.010  Sum_probs=190.8

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLG-ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      +.|++++|+.+|+++.... +.+...|..+...+...| ++++|.+.++++.+...          .+...|..+...|.
T Consensus        68 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~----------~~~~~~~~l~~~~~  136 (330)
T 3hym_B           68 ELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEK----------TYGPAWIAYGHSFA  136 (330)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCT----------TCTHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC----------ccHHHHHHHHHHHH
Confidence            4689999999999998853 336788899999999999 99999999999987653          34568999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      ..|++++|++.|++..+.. +.+..++..+...+...|++++|...+++..+.  .+.+...+..+...|.+.|++++|.
T Consensus       137 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~  213 (330)
T 3hym_B          137 VESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAE  213 (330)
T ss_dssp             HHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHH
Confidence            9999999999999998863 334567778999999999999999999999853  2336788999999999999999999


Q ss_pred             HHHHhC----C-------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHH
Q 048142          162 ELIKNM----P-------MALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIR  230 (352)
Q Consensus       162 ~~~~~m----~-------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  230 (352)
                      ..+++.    +       ...+..+|..+...+...|++++|...+++..+..|.+...+..+...|...|++++|.+.+
T Consensus       214 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  293 (330)
T 3hym_B          214 KWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYF  293 (330)
T ss_dssp             HHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHH
Confidence            999876    1       12336789999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhc
Q 048142          231 ELMAER  236 (352)
Q Consensus       231 ~~m~~~  236 (352)
                      ++..+.
T Consensus       294 ~~al~~  299 (330)
T 3hym_B          294 HTALGL  299 (330)
T ss_dssp             HTTTTT
T ss_pred             HHHHcc
Confidence            987653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.69  E-value=3.9e-15  Score=125.86  Aligned_cols=216  Identities=11%  Similarity=0.022  Sum_probs=184.6

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC--CccccccCCcHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEV--DVGLGMALKDVMTLTALIVV   79 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~--~~~~~~~l~~~~~~~~li~~   79 (352)
                      .+.|++++|+..|++.....  ++..+|..+...+...|++++|...+.+..+.....  +..     .....|..+...
T Consensus        16 ~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~-----~~~~~~~~l~~~   88 (258)
T 3uq3_A           16 YKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYK-----VISKSFARIGNA   88 (258)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHH-----HHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchH-----HHHHHHHHHHHH
Confidence            45799999999999999876  788999999999999999999999999988754210  000     015789999999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHH
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIA  158 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~  158 (352)
                      |...|++++|++.|++....  .|+.       ..+...|++++|...++.+...   .| +...+..+...|...|+++
T Consensus        89 ~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~  156 (258)
T 3uq3_A           89 YHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYV---NPEKAEEARLEGKEYFTKSDWP  156 (258)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHC---CHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHc---CcchHHHHHHHHHHHHHhcCHH
Confidence            99999999999999999884  4553       3466678899999999998763   44 5778889999999999999


Q ss_pred             HHHHHHHhC-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          159 KAEELIKNM-PMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       159 ~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      +|...|++. ... .+..+|..+...+...|++++|...+++..+..|.+..+|..+...|...|++++|.+.+++..+.
T Consensus       157 ~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          157 NAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            999999987 223 358889999999999999999999999999999999999999999999999999999999988654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.68  E-value=7.2e-15  Score=121.88  Aligned_cols=198  Identities=17%  Similarity=0.063  Sum_probs=161.1

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048142           23 TGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVK  102 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  102 (352)
                      +++...+..+...+.+.|++++|...+++..+...          .+...|..+...+.+.|++++|+..|++..+.. +
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p----------~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P   70 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENP----------QDPEALYWLARTQLKLGLVNPALENGKTLVART-P   70 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSS----------SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            46778889999999999999999999999987654          567789999999999999999999999998852 3


Q ss_pred             CCHhHHHHHHHHHhcc-----------CCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CC
Q 048142          103 PDAITFVGVLVACSHA-----------GLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PM  169 (352)
Q Consensus       103 p~~~t~~~ll~~~~~~-----------g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~  169 (352)
                      .+...+..+...+...           |++++|...+++..+.   .| +...+..+...|...|++++|...|++. ..
T Consensus        71 ~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  147 (217)
T 2pl2_A           71 RYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERV---NPRYAPLHLQRGLVYALLGERDKAEASLKQALAL  147 (217)
T ss_dssp             TCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Confidence            3567888899999999           9999999999999864   55 5788889999999999999999999987 11


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          170 ALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       170 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      ..+...|..+...+...|++++|...+++..+..|.+...+..+...+...|++++|.+.+++..
T Consensus       148 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          148 EDTPEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            16788999999999999999999999999999999999999999999999999999999988653

>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=99.68  E-value=7.1e-16  Score=137.80  Aligned_cols=253  Identities=11%  Similarity=0.001  Sum_probs=195.0

Q ss_pred             CCChhHHHH-HHHHHHHCCC-CC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHH
Q 048142            4 DSACEEALL-LFREVQHKGL-TG--DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVV   79 (352)
Q Consensus         4 ~g~~~~A~~-~~~~m~~~g~-~p--~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~   79 (352)
                      .|++++|++ .|++...... .|  +...+..+...+.+.|++++|...++++.+...          .+...|..+..+
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~l~~~  107 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDP----------KHMEAWQYLGTT  107 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCT----------TCHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHH
Confidence            456777777 6665543211 11  345678889999999999999999999998653          566789999999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHH------------
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGC------------  146 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~------------  146 (352)
                      |.+.|++++|++.|+++.+.. +.+..++..+...+...|++++|...++++.+.   .| +...+..            
T Consensus       108 ~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~  183 (368)
T 1fch_A          108 QAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRY---TPAYAHLVTPAEEGAGGAGLGP  183 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---STTTGGGCC-------------
T ss_pred             HHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCcHHHHHHHHHHhhhhcccH
Confidence            999999999999999998863 446788999999999999999999999999874   23 2222221            


Q ss_pred             ---HHHHHHHcCCHHHHHHHHHhC----CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh
Q 048142          147 ---LVYILGRAGRIAKAEELIKNM----PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS  219 (352)
Q Consensus       147 ---li~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~  219 (352)
                         .+..+...|++++|...|+++    +..++..+|..+...+...|++++|...+++..+..|.+..+|..+...|..
T Consensus       184 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~  263 (368)
T 1fch_A          184 SKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLAN  263 (368)
T ss_dssp             --CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHH
Confidence               233344899999999999987    3223588999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCHH
Q 048142          220 SRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDEE  275 (352)
Q Consensus       220 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~  275 (352)
                      .|++++|.+.+++..+..  |+..   .....+...+.+.|..++|...+......
T Consensus       264 ~g~~~~A~~~~~~al~~~--~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          264 GNQSEEAVAAYRRALELQ--PGYI---RSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCH---HHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC--CCcH---HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999999999988753  3321   11233455677899999999988766543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.65  E-value=3.5e-15  Score=133.39  Aligned_cols=232  Identities=10%  Similarity=-0.013  Sum_probs=187.1

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...|..+...+.+.|++++|...|+++.+...          .+..+|..+...|.+.|++++|++.|++..+.. +.+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~  132 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDP----------GDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNN  132 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc----------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCC
Confidence            345588889999999999999999999998754          567889999999999999999999999998862 345


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-----------hhHHHHHHHHHHHcCCHHHHHHHHHhC----CC
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-----------IEHYGCLVYILGRAGRIAKAEELIKNM----PM  169 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-----------~~~~~~li~~~~~~g~~~~A~~~~~~m----~~  169 (352)
                      ..++..+...+...|++++|...++++.+.   .|+           ...+..+...|.+.|++++|..+|+++    +.
T Consensus       133 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  209 (365)
T 4eqf_A          133 LKALMALAVSYTNTSHQQDACEALKNWIKQ---NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGD  209 (365)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCS
T ss_pred             HHHHHHHHHHHHccccHHHHHHHHHHHHHh---CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcC
Confidence            788999999999999999999999999864   232           223344578899999999999999988    33


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEE
Q 048142          170 ALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEV  249 (352)
Q Consensus       170 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~  249 (352)
                      .++..+|..+...+...|++++|...+++..+..|.+..+|..+...|...|++++|.+.|++..+..  |+..   ...
T Consensus       210 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~---~~~  284 (365)
T 4eqf_A          210 MIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ--PGFI---RSR  284 (365)
T ss_dssp             SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCH---HHH
T ss_pred             ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCch---HHH
Confidence            33688999999999999999999999999999999999999999999999999999999999998753  4321   112


Q ss_pred             cceeehhhhcCcccCchhhhhcCCHH
Q 048142          250 DGVVHEFVKAGFVPNKSEVLFDMDEE  275 (352)
Q Consensus       250 ~~~~~~~~~~G~~~~~~~~~~~~~~~  275 (352)
                      ..+...+.+.|..++|...+....+.
T Consensus       285 ~~l~~~~~~~g~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          285 YNLGISCINLGAYREAVSNFLTALSL  310 (365)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            23445577899999999988765543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.65  E-value=1.5e-14  Score=134.84  Aligned_cols=221  Identities=10%  Similarity=-0.051  Sum_probs=190.9

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|+..|+++....  |+..++..+...+...|++++|...++++.+...          .+...|..+...|.
T Consensus       248 ~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~  315 (514)
T 2gw1_A          248 FLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDS----------NNSSVYYHRGQMNF  315 (514)
T ss_dssp             HHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCT----------TCTHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCc----------CCHHHHHHHHHHHH
Confidence            35789999999999998864  4488888999999999999999999999987643          35568999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      ..|++++|+..|++..+.. +.+..++..+...+...|++++|...++++.+.  .+.+...+..+...|.+.|++++|.
T Consensus       316 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~  392 (514)
T 2gw1_A          316 ILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKAL  392 (514)
T ss_dssp             HTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHH
Confidence            9999999999999998853 335678889999999999999999999999874  2335778889999999999999999


Q ss_pred             HHHHhC----CCCCc----HHHHHHHHHHHHh---cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHH
Q 048142          162 ELIKNM----PMALD----HFVLGGLLGACRI---HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIR  230 (352)
Q Consensus       162 ~~~~~m----~~~p~----~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  230 (352)
                      ..++++    +..++    ..+|..+...+..   .|++++|...+++..+..|.+..++..+...|...|++++|.+.+
T Consensus       393 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  472 (514)
T 2gw1_A          393 KQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLF  472 (514)
T ss_dssp             HHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            999887    22233    4488889999999   999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcC
Q 048142          231 ELMAERN  237 (352)
Q Consensus       231 ~~m~~~g  237 (352)
                      ++..+..
T Consensus       473 ~~a~~~~  479 (514)
T 2gw1_A          473 EESADLA  479 (514)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhc
Confidence            9988754

>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=6.9e-14  Score=118.11  Aligned_cols=200  Identities=11%  Similarity=-0.033  Sum_probs=175.9

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      ...|..+...+...|++++|.+.++++.+...          .+...|..+...|...|++++|.+.|+++.+.. +.+.
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~----------~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~  105 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDP----------SSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNA  105 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC----------ChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcH
Confidence            56788888999999999999999999988653          466789999999999999999999999998763 3367


Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHH
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGA  182 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~  182 (352)
                      ..+..+...+...|++++|..+++++.+. +..| +...+..+...|.+.|++++|...|++. ...| +...|..+...
T Consensus       106 ~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~  184 (252)
T 2ho1_A          106 RVLNNYGGFLYEQKRYEEAYQRLLEASQD-TLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADL  184 (252)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHhC-ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHH
Confidence            78889999999999999999999999862 4556 5678888999999999999999999987 2233 57888999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          183 CRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       183 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      +...|++++|...+++..+..|.+...+..+...+...|++++|.+.++++.+..
T Consensus       185 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          185 LYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            9999999999999999999888898999999999999999999999999998754

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.64  E-value=1.8e-14  Score=125.06  Aligned_cols=215  Identities=10%  Similarity=0.027  Sum_probs=179.1

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      ...|++++|+..++.    .-.|+..++..+...+...++.++|.+.++++...+..|        .+...+..+...|.
T Consensus        45 i~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P--------~~~~~~~~la~~~~  112 (291)
T 3mkr_A           45 LAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDV--------TNTTFLLMAASIYF  112 (291)
T ss_dssp             HHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCC--------SCHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCC--------CCHHHHHHHHHHHH
Confidence            456888888876644    245678888999999999999999999999999877553        34556777889999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHH---HHHHHHHHHcCCHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHY---GCLVYILGRAGRIA  158 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~---~~li~~~~~~g~~~  158 (352)
                      ..|++++|++.|++      +.+...+..+...+.+.|++++|...++++.+.   .|+....   ..++..+...|+++
T Consensus       113 ~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~  183 (291)
T 3mkr_A          113 YDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQ  183 (291)
T ss_dssp             HTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHH
T ss_pred             HCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhCchHHH
Confidence            99999999999987      457788999999999999999999999999875   4653211   23344455569999


Q ss_pred             HHHHHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHH-HHHHHHHHHh
Q 048142          159 KAEELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKK-VKRIRELMAE  235 (352)
Q Consensus       159 ~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~  235 (352)
                      +|..+|+++  ....+...|+.+..++...|++++|+..+++..+..|.++.++..++..+...|+.++ +.++++++.+
T Consensus       184 eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          184 DAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             HHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            999999998  2234688999999999999999999999999999999999999999999999999976 5789998876


Q ss_pred             cC
Q 048142          236 RN  237 (352)
Q Consensus       236 ~g  237 (352)
                      ..
T Consensus       264 ~~  265 (291)
T 3mkr_A          264 AH  265 (291)
T ss_dssp             HC
T ss_pred             hC
Confidence            54

>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=99.64  E-value=5.2e-15  Score=138.99  Aligned_cols=254  Identities=9%  Similarity=-0.023  Sum_probs=176.9

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|++.|+++.... +.+..+|..+..++.+.|++++|.+.++++.+.+.          .+...|..+..+|.
T Consensus        36 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~la~~~~  104 (537)
T 3fp2_A           36 FTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKP----------DHSKALLRRASANE  104 (537)
T ss_dssp             HHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC----------chHHHHHHHHHHHH
Confidence            45788999999999988753 34678888899999999999999999999888653          45667888888888


Q ss_pred             hcCChHHHHHHHHHHHHc--------------------------------------------------------------
Q 048142           82 MCGQGNKALEYFYEMQIR--------------------------------------------------------------   99 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~--------------------------------------------------------------   99 (352)
                      ..|++++|++.|+.+...                                                              
T Consensus       105 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  184 (537)
T 3fp2_A          105 SLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVN  184 (537)
T ss_dssp             HHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSC
T ss_pred             HcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHh
Confidence            888888888777433100                                                              


Q ss_pred             ---------------------------------------------CCCCC--------HhHHHHHHHHHhccCCHHHHHH
Q 048142          100 ---------------------------------------------GVKPD--------AITFVGVLVACSHAGLVDERIS  126 (352)
Q Consensus       100 ---------------------------------------------g~~p~--------~~t~~~ll~~~~~~g~~~~a~~  126 (352)
                                                                   ...|+        ..++..+...+...|++++|..
T Consensus       185 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~  264 (537)
T 3fp2_A          185 TSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQV  264 (537)
T ss_dssp             CCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHH
Confidence                                                         01122        1134444455666777777777


Q ss_pred             HHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          127 HFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       127 ~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                      .+++..+.   .|+...+..+...|...|++++|...|+++ ...| +..+|..+...+...|++++|...+++..+..|
T Consensus       265 ~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  341 (537)
T 3fp2_A          265 LLQESINL---HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP  341 (537)
T ss_dssp             HHHHHHHH---CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhc---CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Confidence            77777654   455667777777777778888888877776 2223 466777777788888888888888888877777


Q ss_pred             CCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCH
Q 048142          205 DNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       205 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                      .+...|..+...|...|++++|.+.++++.+..  |+...   ....+...+...|..++|...+....+
T Consensus       342 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~a~~  406 (537)
T 3fp2_A          342 ENVYPYIQLACLLYKQGKFTESEAFFNETKLKF--PTLPE---VPTFFAEILTDRGDFDTAIKQYDIAKR  406 (537)
T ss_dssp             TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTH---HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChH---HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            777788888888888888888888888776653  22111   112233445677777777777765443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.64  E-value=1.4e-13  Score=113.74  Aligned_cols=201  Identities=9%  Similarity=-0.071  Sum_probs=174.9

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...|..+...+...|++++|.+.++++.+...          .+...|..+...|...|++++|.+.|++..+.. +.+
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~   75 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDP----------KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDS   75 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc----------cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCC
Confidence            567788899999999999999999999988653          456789999999999999999999999998862 346


Q ss_pred             HhHHHHHHHHHhcc-CCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHH
Q 048142          105 AITFVGVLVACSHA-GLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLL  180 (352)
Q Consensus       105 ~~t~~~ll~~~~~~-g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li  180 (352)
                      ..++..+...+... |++++|...++++.+. +..| +...+..+...|...|++++|...|+++ ...| +...|..+.
T Consensus        76 ~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la  154 (225)
T 2vq2_A           76 AEINNNYGWFLCGRLNRPAESMAYFDKALAD-PTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELA  154 (225)
T ss_dssp             HHHHHHHHHHHHTTTCCHHHHHHHHHHHHTS-TTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCcHHHHHHHHHHHHcC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHH
Confidence            77889999999999 9999999999999872 4445 3678889999999999999999999987 2234 478899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          181 GACRIHDNLEAAERAAQQLLELLP-DNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       181 ~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ..+...|++++|...+++..+..| .+...+..+...+...|+.++|..+++.+.+..
T Consensus       155 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          155 RTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            999999999999999999998888 888889999999999999999999999987543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.64  E-value=1.4e-13  Score=121.83  Aligned_cols=220  Identities=14%  Similarity=0.068  Sum_probs=177.1

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCC----CHHHHHHH------------HHHHhccCChHHHHHHHHHHHHcCCCCCccccc
Q 048142            2 VEDSACEEALLLFREVQHKGLTG----DKVTMVSL------------LLACTHLGALEVGMWLHPYIMKKNIEVDVGLGM   65 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p----~~~t~~~l------------i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~   65 (352)
                      .+.|++++|+..|++....  .|    +...+..+            ...+...|++++|.+.++++.+...        
T Consensus        82 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~--------  151 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV--------  151 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--------
T ss_pred             HHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC--------
Confidence            3568899999999988875  45    34444444            4778899999999999999988654        


Q ss_pred             cCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHH
Q 048142           66 ALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHY  144 (352)
Q Consensus        66 ~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~  144 (352)
                        .+...|..+...|...|++++|++.|++..+. .+.+..++..+...+...|++++|...+++..+.   .| +...+
T Consensus       152 --~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~  225 (359)
T 3ieg_A          152 --WDAELRELRAECFIKEGEPRKAISDLKAASKL-KSDNTEAFYKISTLYYQLGDHELSLSEVRECLKL---DQDHKRCF  225 (359)
T ss_dssp             --TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHH
T ss_pred             --CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CccchHHH
Confidence              45678899999999999999999999999875 3446778889999999999999999999998864   33 33333


Q ss_pred             H------------HHHHHHHHcCCHHHHHHHHHhC-CCCCc-H----HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 048142          145 G------------CLVYILGRAGRIAKAEELIKNM-PMALD-H----FVLGGLLGACRIHDNLEAAERAAQQLLELLPDN  206 (352)
Q Consensus       145 ~------------~li~~~~~~g~~~~A~~~~~~m-~~~p~-~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  206 (352)
                      .            .+...+.+.|++++|...++++ ...|+ .    ..|..+...+...|++++|...+++..+..|.+
T Consensus       226 ~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~  305 (359)
T 3ieg_A          226 AHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDN  305 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccc
Confidence            2            2356688999999999999887 22333 2    235557788899999999999999999988989


Q ss_pred             cchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          207 GGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       207 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      +.+|..+...|...|++++|.+.|++..+..
T Consensus       306 ~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          306 VNALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999987653

>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=99.63  E-value=1.3e-14  Score=127.16  Aligned_cols=227  Identities=9%  Similarity=-0.020  Sum_probs=180.4

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccC----CcHHHHHHH-
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL----KDVMTLTAL-   76 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l----~~~~~~~~l-   76 (352)
                      .+.|++++|++.|+++.... +.+..++..+...+...|++++|.+.++++.+........ ...+    |+......+ 
T Consensus        66 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  143 (327)
T 3cv0_A           66 AENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQL-GSVNLQADVDIDDLNVQS  143 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC-------------------
T ss_pred             HHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHH-HHHHhHHHHHHHHHHHHH
Confidence            46799999999999998863 3467889999999999999999999999999864321110 0000    111111111 


Q ss_pred             HH-HHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcC
Q 048142           77 IV-VLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAG  155 (352)
Q Consensus        77 i~-~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g  155 (352)
                      .. .+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...+++..+.  .+.+...+..+...|.+.|
T Consensus       144 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~  220 (327)
T 3cv0_A          144 EDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGN  220 (327)
T ss_dssp             --CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcC
Confidence            22 3778899999999999998863 346788999999999999999999999999874  2336788999999999999


Q ss_pred             CHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC------------CcchHHHHHHHHhhcC
Q 048142          156 RIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPD------------NGGSYVILSNRYSSSR  221 (352)
Q Consensus       156 ~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~------------~~~~~~~li~~~~~~g  221 (352)
                      ++++|...|+++ ...| +..+|..+...+...|++++|.+.+++..+..|.            +..+|..+..+|...|
T Consensus       221 ~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  300 (327)
T 3cv0_A          221 RPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMN  300 (327)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcC
Confidence            999999999987 3333 5788999999999999999999999999887666            6788999999999999


Q ss_pred             ChHHHHHHHHHH
Q 048142          222 KWKKVKRIRELM  233 (352)
Q Consensus       222 ~~~~a~~~~~~m  233 (352)
                      ++++|.+++++.
T Consensus       301 ~~~~A~~~~~~~  312 (327)
T 3cv0_A          301 RPDLVELTYAQN  312 (327)
T ss_dssp             CHHHHHHHTTCC
T ss_pred             CHHHHHHHHHHH
Confidence            999999988743

>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=99.62  E-value=1.3e-13  Score=116.37  Aligned_cols=197  Identities=10%  Similarity=-0.004  Sum_probs=168.2

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      ...|++++|++.|+++.... +.+..++..+...+...|++++|.+.++++.+...          .+...|..+...|.
T Consensus        48 ~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~----------~~~~~~~~la~~~~  116 (252)
T 2ho1_A           48 LQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS----------RNARVLNNYGGFLY  116 (252)
T ss_dssp             HHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc----------CcHHHHHHHHHHHH
Confidence            45799999999999998763 34678899999999999999999999999988753          45678999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  160 (352)
                      ..|++++|.+.|+++...+..| +...+..+...+...|++++|...+++..+. . +.+...+..+...|.+.|++++|
T Consensus       117 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRL-N-RNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-C-cccHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999998744455 4567888999999999999999999999875 2 33678899999999999999999


Q ss_pred             HHHHHhC-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHH
Q 048142          161 EELIKNM-PMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYV  211 (352)
Q Consensus       161 ~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  211 (352)
                      ...++++ ... .+...+..+...+...|+.++|.+.++++.+..|.+.....
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  247 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLEYQE  247 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHHHHH
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHHHHH
Confidence            9999987 333 35778888889999999999999999999998887765443

>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=99.62  E-value=9.8e-14  Score=130.27  Aligned_cols=222  Identities=14%  Similarity=0.011  Sum_probs=187.0

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      ...|++++|++.|++....  .|+..+|..+...+...|++++|...+.++.+...          .+..+|..+...|.
T Consensus       254 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~l~~~~~  321 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP----------EYPPTYYHRGQMYF  321 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC----------CCHHHHHHHHHHHH
Confidence            3568999999999999885  56688889999999999999999999999988654          45678999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      ..|++++|++.|++..+.. +.+..++..+...+...|++++|...+++..+.  .+.+...+..+...|...|++++|.
T Consensus       322 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~  398 (537)
T 3fp2_A          322 ILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAI  398 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHH
Confidence            9999999999999998853 334678889999999999999999999999875  2335778889999999999999999


Q ss_pred             HHHHhC----C----CCCcHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCCh
Q 048142          162 ELIKNM----P----MALDHFVLGGLLGACRIH----------DNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKW  223 (352)
Q Consensus       162 ~~~~~m----~----~~p~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  223 (352)
                      ..|+++    +    .......+..+...+...          |++++|...+++..+..|.+..++..+...|...|++
T Consensus       399 ~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~  478 (537)
T 3fp2_A          399 KQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKI  478 (537)
T ss_dssp             HHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccH
Confidence            999886    1    111223344455667777          9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC
Q 048142          224 KKVKRIRELMAERNI  238 (352)
Q Consensus       224 ~~a~~~~~~m~~~g~  238 (352)
                      ++|.+.|++..+..-
T Consensus       479 ~~A~~~~~~al~~~~  493 (537)
T 3fp2_A          479 DEAIELFEDSAILAR  493 (537)
T ss_dssp             HHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhCC
Confidence            999999999887543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.61  E-value=6.4e-14  Score=117.41  Aligned_cols=202  Identities=11%  Similarity=0.034  Sum_probs=148.2

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048142           23 TGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVK  102 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  102 (352)
                      ..+..+|..+...+...|++++|...++++.+...          .+...|..+...|...|++++|++.|++..+.. +
T Consensus        20 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~----------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~   88 (243)
T 2q7f_A           20 HMASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENK----------EDAIPYINFANLLSSVNELERALAFYDKALELD-S   88 (243)
T ss_dssp             ----------------------CCTTHHHHHTTCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             hhHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCc----------ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-C
Confidence            34566778888888889999999999998887543          456788888889999999999999999888752 3


Q ss_pred             CCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHH
Q 048142          103 PDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMA-LDHFVLGGLL  180 (352)
Q Consensus       103 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li  180 (352)
                      .+..++..+...+...|++++|...++++.+.  .+.+...+..+...|.+.|++++|...++++ ... .+...|..+.
T Consensus        89 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  166 (243)
T 2q7f_A           89 SAATAYYGAGNVYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFG  166 (243)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHH
Confidence            36777888888888999999999999988864  2336777888888899999999999998886 222 3577888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          181 GACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       181 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ..+...|++++|...+++..+..|.+..++..+...|...|++++|.+.+++..+..
T Consensus       167 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          167 MCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            889999999999999999888888888889999999999999999999999887643

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.61  E-value=4.7e-14  Score=118.24  Aligned_cols=202  Identities=11%  Similarity=-0.012  Sum_probs=163.8

Q ss_pred             CccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            1 YVEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         1 y~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      |.+.|++++|+..|++..... +.+...+..+...+...|++++|...++++.+...          .+...|..+...|
T Consensus        33 ~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~la~~~  101 (243)
T 2q7f_A           33 GSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDS----------SAATAYYGAGNVY  101 (243)
T ss_dssp             ---------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHH
T ss_pred             HHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC----------cchHHHHHHHHHH
Confidence            356789999999999998753 44688888999999999999999999999988753          4667899999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  160 (352)
                      ...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...+++..+.  .+.+...+..+...|.+.|++++|
T Consensus       102 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          102 VVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999998863 446778888999999999999999999999874  234678888999999999999999


Q ss_pred             HHHHHhC-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHH
Q 048142          161 EELIKNM-PMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNR  216 (352)
Q Consensus       161 ~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~  216 (352)
                      ...|+++ ... .+..+|..+...+...|++++|...+++..+..|.+...+..+...
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l  236 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLL  236 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC-
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHH
Confidence            9999987 222 3577899999999999999999999999999988887777655443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.60  E-value=6.4e-14  Score=119.69  Aligned_cols=220  Identities=10%  Similarity=-0.010  Sum_probs=179.3

Q ss_pred             cCCChhHHHHHHHHHHHCCC--CC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGL--TG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVV   79 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~--~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~   79 (352)
                      ..|++++|++.|+++.....  .| +..+|..+...+...|++++|...++++.+...          .+...|..+...
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~----------~~~~~~~~la~~   86 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP----------DMPEVFNYLGIY   86 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC----------CCHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC----------CcHHHHHHHHHH
Confidence            56889999999999998632  12 467888999999999999999999999998754          467789999999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHH
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~  159 (352)
                      |...|++++|++.|++..+.. +.+..++..+...+...|++++|...++++.+.   .|+.......+..+...|++++
T Consensus        87 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~  162 (275)
T 1xnf_A           87 LTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQ  162 (275)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHH
T ss_pred             HHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHhcCHHH
Confidence            999999999999999999852 335778999999999999999999999999864   5655555555666677899999


Q ss_pred             HHHHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC----CCcchHHHHHHHHhhcCChHHHHHHHHHH
Q 048142          160 AEELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLP----DNGGSYVILSNRYSSSRKWKKVKRIRELM  233 (352)
Q Consensus       160 A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m  233 (352)
                      |...+++.  ...++...|. ++..+...++.++|...+++..+..+    .+..+|..+...|...|++++|.+.|++.
T Consensus       163 A~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  241 (275)
T 1xnf_A          163 AKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLA  241 (275)
T ss_dssp             HHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999766  2223344443 67778888889999999988765332    23678899999999999999999999999


Q ss_pred             HhcC
Q 048142          234 AERN  237 (352)
Q Consensus       234 ~~~g  237 (352)
                      .+..
T Consensus       242 l~~~  245 (275)
T 1xnf_A          242 VANN  245 (275)
T ss_dssp             HTTC
T ss_pred             HhCC
Confidence            8754

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.60  E-value=4.7e-13  Score=110.50  Aligned_cols=197  Identities=11%  Similarity=-0.013  Sum_probs=166.5

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|++.|++..... +.+...|..+...+...|++++|.+.++++.+...          .+...|..+...|.
T Consensus        19 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~----------~~~~~~~~l~~~~~   87 (225)
T 2vq2_A           19 MRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKP----------DSAEINNNYGWFLC   87 (225)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC----------CChHHHHHHHHHHH
Confidence            46799999999999998753 34678899999999999999999999999988653          46678999999999


Q ss_pred             hc-CChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHH
Q 048142           82 MC-GQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        82 ~~-g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~  159 (352)
                      .. |++++|++.|+++.+.+..|+ ...+..+...+...|++++|...++++.+.  .+.+...+..+...|.+.|++++
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           88 GRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             TTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHH
Confidence            99 999999999999988434444 567888999999999999999999999874  23357889999999999999999


Q ss_pred             HHHHHHhC-CCC--CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHH
Q 048142          160 AEELIKNM-PMA--LDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYV  211 (352)
Q Consensus       160 A~~~~~~m-~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  211 (352)
                      |...++++ ...  .+...+..+...+...|+.+.|..+++.+.+..|.+.....
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  220 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQT  220 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHH
Confidence            99999987 222  35777888888889999999999999999888887765544

>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=99.59  E-value=2e-15  Score=135.43  Aligned_cols=190  Identities=16%  Similarity=0.167  Sum_probs=61.3

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      +.|++++|++.|.+      .+|..+|..++.++...|++++|...+....+. .          +++.+.+.|+.+|.+
T Consensus        44 ~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~-~----------~~~~i~~~Li~~Y~K  106 (449)
T 1b89_A           44 QKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK-A----------RESYVETELIFALAK  106 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh-C----------ccchhHHHHHHHHHH
Confidence            44555555555532      235555555555555556666655544444432 1          334455566666666


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      .|+++++.++++       .|+..+|..+...|...|++++|...|..+          ..|..|+.++.+.|++++|.+
T Consensus       107 lg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~~~LA~~L~~Lg~yq~AVe  169 (449)
T 1b89_A          107 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEYQAAVD  169 (449)
T ss_dssp             --CHHHHTTTTT-------CC----------------CTTTHHHHHHHT----------TCHHHHHHHHHTTTCHHHHHH
T ss_pred             hCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhHHHHHHHHHHhccHHHHHH
Confidence            666666555553       245556666666666666666666666554          245666666666666666666


Q ss_pred             HHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHH
Q 048142          163 LIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELM  233 (352)
Q Consensus       163 ~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  233 (352)
                      .+.+++   ++.+|..++.+|...|+++.|......+.    ..+.-...++..|.+.|++++|..+++..
T Consensus       170 a~~KA~---~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~----~~ad~l~~lv~~Yek~G~~eEai~lLe~a  233 (449)
T 1b89_A          170 GARKAN---STRTWKEVCFACVDGKEFRLAQMCGLHIV----VHADELEELINYYQDRGYFEELITMLEAA  233 (449)
T ss_dssp             HHHHHT---CHHHHHHHHHHHHHTTCHHHHHHTTTTTT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHcC---CchhHHHHHHHHHHcCcHHHHHHHHHHHH----hCHhhHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            666662   55666666666666666666644433211    12222334556666666666666665544

>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=99.56  E-value=2.7e-16  Score=140.96  Aligned_cols=218  Identities=10%  Similarity=0.088  Sum_probs=87.7

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      +.|++++|.++++++.      ++.+|..|..++.+.|++++|.+.|.+.               +|..+|..++.++..
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika---------------~D~~~y~~V~~~ae~   73 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA---------------DDPSSYMEVVQAANT   73 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC---------------CCHHHHHHHHHHHHh
Confidence            4578899999998883      3459999999999999999999999542               555689999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      .|++++|+..++...+.  .+++.+.+.++.+|.+.|+++++.++++        .|+..+|+.+.+.|...|++++|..
T Consensus        74 ~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~  143 (449)
T 1b89_A           74 SGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKL  143 (449)
T ss_dssp             -------------------------------------CHHHHTTTTT--------CC----------------CTTTHHH
T ss_pred             CCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999977766553  5567889999999999999999887663        3677799999999999999999999


Q ss_pred             HHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCC
Q 048142          163 LIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPP  242 (352)
Q Consensus       163 ~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  242 (352)
                      +|..++      .|..+..++.+.|++++|.+.++++     .++.+|..++.+|...|+++.|......+   .+.|+.
T Consensus       144 ~Y~~a~------n~~~LA~~L~~Lg~yq~AVea~~KA-----~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L---~~~ad~  209 (449)
T 1b89_A          144 LYNNVS------NFGRLASTLVHLGEYQAAVDGARKA-----NSTRTWKEVCFACVDGKEFRLAQMCGLHI---VVHADE  209 (449)
T ss_dssp             HHHHTT------CHHHHHHHHHTTTCHHHHHHHHHHH-----TCHHHHHHHHHHHHHTTCHHHHHHTTTTT---TTCHHH
T ss_pred             HHHHhh------hHHHHHHHHHHhccHHHHHHHHHHc-----CCchhHHHHHHHHHHcCcHHHHHHHHHHH---HhCHhh
Confidence            999883      7999999999999999999999998     37789999999999999999995544431   122321


Q ss_pred             ceeEEEEcceeehhhhcCcccCchhhhhc
Q 048142          243 GCILIEVDGVVHEFVKAGFVPNKSEVLFD  271 (352)
Q Consensus       243 ~~~~~~~~~~~~~~~~~G~~~~~~~~~~~  271 (352)
                            ...++..+.+.|+.+++..+++.
T Consensus       210 ------l~~lv~~Yek~G~~eEai~lLe~  232 (449)
T 1b89_A          210 ------LEELINYYQDRGYFEELITMLEA  232 (449)
T ss_dssp             ------HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHCCCHHHHHHHHHH
Confidence                  12356668899999999888864

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.55  E-value=3e-13  Score=112.01  Aligned_cols=183  Identities=16%  Similarity=0.062  Sum_probs=147.4

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|+..|++..... +.+...|..+...+.+.|++++|...+++..+...          .+...|..+...|.
T Consensus        16 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P----------~~~~a~~~lg~~~~   84 (217)
T 2pl2_A           16 YALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTP----------RYLGGYMVLSEAYV   84 (217)
T ss_dssp             HHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CcHHHHHHHHHHHH
Confidence            46799999999999998753 33678899999999999999999999999998764          46678999999999


Q ss_pred             hc-----------CChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           82 MC-----------GQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        82 ~~-----------g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      +.           |++++|+..|++..+.  .| +...+..+-.++...|++++|...|++..+. .  .+...+..+..
T Consensus        85 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~--~~~~~~~~la~  159 (217)
T 2pl2_A           85 ALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALAL-E--DTPEIRSALAE  159 (217)
T ss_dssp             HHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--CCHHHHHHHHH
T ss_pred             HhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-c--cchHHHHHHHH
Confidence            99           9999999999999885  44 4678889999999999999999999999986 5  78889999999


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048142          150 ILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLL  200 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~  200 (352)
                      +|...|++++|...|++. ...| +...+..+...+...|++++|...+++..
T Consensus       160 ~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          160 LYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999999999999999987 3344 47888899999999999999999988753

>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=99.55  E-value=4.3e-12  Score=108.61  Aligned_cols=212  Identities=12%  Similarity=-0.034  Sum_probs=158.8

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTH----LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIV   78 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~   78 (352)
                      +.|++++|++.|++....   .+..++..+...+..    .+++++|...|++..+.+            +...+..+..
T Consensus        18 ~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~------------~~~a~~~lg~   82 (273)
T 1ouv_A           18 KEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN------------YSNGCHLLGN   82 (273)
T ss_dssp             HTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT------------CHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC------------CHHHHHHHHH
Confidence            467888888888888773   245677777777777    888888888888887764            2246777778


Q ss_pred             HHHh----cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc----cCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH
Q 048142           79 VLAM----CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSH----AGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI  150 (352)
Q Consensus        79 ~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  150 (352)
                      .|..    .+++++|++.|++..+.+   +..++..+-..|..    .+++++|...|++..+. +   +...+..+...
T Consensus        83 ~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~  155 (273)
T 1ouv_A           83 LYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSL  155 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHH
T ss_pred             HHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHH
Confidence            8888    888888888888887764   66677777777777    88888888888887764 4   55667777777


Q ss_pred             HHH----cCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh---
Q 048142          151 LGR----AGRIAKAEELIKNMPMALDHFVLGGLLGACRI----HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS---  219 (352)
Q Consensus       151 ~~~----~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~---  219 (352)
                      |..    .+++++|...|++.-...+...+..+...+..    .+++++|...+++..+..+  ...+..+...|..   
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~  233 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GGGCFNLGAMQYNGEG  233 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSS
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCC
Confidence            777    78888888888776212356677777777777    8888888888888776544  4567777777877   


Q ss_pred             -cCChHHHHHHHHHHHhcCC
Q 048142          220 -SRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       220 -~g~~~~a~~~~~~m~~~g~  238 (352)
                       .+++++|.+.|++..+.|.
T Consensus       234 ~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          234 VTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             SSCCSTTHHHHHHHHHHHTC
T ss_pred             cccCHHHHHHHHHHHHHcCC
Confidence             8888888888888776653

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.55  E-value=2.8e-13  Score=125.68  Aligned_cols=210  Identities=10%  Similarity=-0.070  Sum_probs=183.8

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh-HHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCC
Q 048142            7 CEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGAL-EVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQ   85 (352)
Q Consensus         7 ~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~-~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~   85 (352)
                      +++|+..+++.... .+.+...+..+...+...|++ ++|.+.|++..+...          .+...|..+...|.+.|+
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p----------~~~~a~~~lg~~~~~~g~  152 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP----------ELVEAWNQLGEVYWKKGD  152 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC----------CCHHHHHHHHHHHHHcCC
Confidence            56677777766553 234788889999999999999 999999999998753          456789999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhcc---------CCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHc-
Q 048142           86 GNKALEYFYEMQIRGVKPDAITFVGVLVACSHA---------GLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRA-  154 (352)
Q Consensus        86 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~---------g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~-  154 (352)
                      +++|++.|++..+.  .|+..++..+...+...         |++++|...|++..+.   .| +...|..+..+|... 
T Consensus       153 ~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~  227 (474)
T 4abn_A          153 VTSAHTCFSGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM---DVLDGRSWYILGNAYLSLY  227 (474)
T ss_dssp             HHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHH
Confidence            99999999999874  58888899999999999         9999999999999874   44 678899999999998 


Q ss_pred             -------CCHHHHHHHHHhC-CCCC----cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCC
Q 048142          155 -------GRIAKAEELIKNM-PMAL----DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRK  222 (352)
Q Consensus       155 -------g~~~~A~~~~~~m-~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  222 (352)
                             |++++|...|++. ...|    +...|..+...+...|++++|...|++..+..|.+...+..+...+...|+
T Consensus       228 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~  307 (474)
T 4abn_A          228 FNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSR  307 (474)
T ss_dssp             HHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHH
Confidence                   9999999999987 4455    688999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHH
Q 048142          223 WKKVKRIREL  232 (352)
Q Consensus       223 ~~~a~~~~~~  232 (352)
                      +++|.+.+.+
T Consensus       308 ~~eAi~~~~~  317 (474)
T 4abn_A          308 LTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHTTT
T ss_pred             HHHHHHHhcc
Confidence            9999976543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.53  E-value=6.1e-13  Score=113.55  Aligned_cols=210  Identities=9%  Similarity=-0.154  Sum_probs=167.6

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|+..|++..... +.+..+|..+...+...|++++|...++++.+...          .+...|..+...|.
T Consensus        54 ~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~----------~~~~~~~~la~~~~  122 (275)
T 1xnf_A           54 DSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP----------TYNYAHLNRGIALY  122 (275)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCTHHHHHHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCc----------cccHHHHHHHHHHH
Confidence            45799999999999998863 33688999999999999999999999999998653          35578999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      +.|++++|.+.|+++.+.  .|+.......+..+...|++++|...+.+....  .+++...+ .++..+...++.++|.
T Consensus       123 ~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~a~  197 (275)
T 1xnf_A          123 YGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK--SDKEQWGW-NIVEFYLGNISEQTLM  197 (275)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH--SCCCSTHH-HHHHHHTTSSCHHHHH
T ss_pred             HhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCcchHHH-HHHHHHHHhcCHHHHH
Confidence            999999999999999884  455555555556667789999999999888764  33444444 4777788888899999


Q ss_pred             HHHHhC-CCCCc-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHH
Q 048142          162 ELIKNM-PMALD-----HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIR  230 (352)
Q Consensus       162 ~~~~~m-~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  230 (352)
                      ..+++. ...|+     ..+|..+...+...|++++|...+++..+..|.+...+   ..++...|++++|.+.+
T Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          198 ERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH---HHHHHHHHHHHHC----
T ss_pred             HHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHHHH---HHHHHHHHHHHhhHHHH
Confidence            999886 33332     57888899999999999999999999998877665444   55677888888887766

>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=99.53  E-value=6.8e-13  Score=119.26  Aligned_cols=214  Identities=12%  Similarity=0.081  Sum_probs=131.7

Q ss_pred             cCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCC-hHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGA-LEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      +.|++++|++.|++....  .| +...|+.+...+...|+ +++|+..++++++...          .+...|+.+..+|
T Consensus       109 ~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P----------~~~~a~~~~g~~~  176 (382)
T 2h6f_A          109 RDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP----------KNYQVWHHRRVLV  176 (382)
T ss_dssp             HTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHH
T ss_pred             HCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC----------CCHHHHHHHHHHH
Confidence            346667777777766653  33 45566666666666665 7777777777666543          3555666666777


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHH-cCCHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGR-AGRIA  158 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~-~g~~~  158 (352)
                      .+.|++++|+..|+++.+.. +-+...|..+..++.+.|++++|+..++++.+.   .| +...|+.+..+|.+ .|..+
T Consensus       177 ~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l---~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCcch
Confidence            77777777777777766642 224556666666666677777777777766653   33 45666666666666 45545


Q ss_pred             HH-----HHHHHhC-CCCC-cHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcC--------
Q 048142          159 KA-----EELIKNM-PMAL-DHFVLGGLLGACRIHD--NLEAAERAAQQLLELLPDNGGSYVILSNRYSSSR--------  221 (352)
Q Consensus       159 ~A-----~~~~~~m-~~~p-~~~~~~~li~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g--------  221 (352)
                      +|     +..|++. ...| +...|+.+...+...|  +.++|.+.++++ +..|.+...+..+...|.+.|        
T Consensus       253 eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchH
Confidence            55     3455444 2333 3556666666666665  466666666666 555666666666666666653        


Q ss_pred             -ChHHHHHHHHHH
Q 048142          222 -KWKKVKRIRELM  233 (352)
Q Consensus       222 -~~~~a~~~~~~m  233 (352)
                       .+++|.++++++
T Consensus       332 ~~~~~A~~~~~~l  344 (382)
T 2h6f_A          332 DILNKALELCEIL  344 (382)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence             246666666665

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.53  E-value=2e-12  Score=110.32  Aligned_cols=224  Identities=11%  Similarity=-0.000  Sum_probs=166.1

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|++++|+..|++..... +.+...+..+...+...|++++|...+++..+.+..++       .....|..+...|.
T Consensus        14 ~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~-------~~~~~~~~lg~~~~   85 (272)
T 3u4t_A           14 FKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATK-------AKSADFEYYGKILM   85 (272)
T ss_dssp             HTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTT-------CCHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchh-------HHHHHHHHHHHHHH
Confidence            46788999999999888753 22455788888888899999999999998887432211       22456888888899


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A  160 (352)
                      ..|++++|++.|++..+.. +.+..++..+...+...|++++|...+++..+   ..| +...+..+...+...+++++|
T Consensus        86 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIR---PTTTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCC---SSCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhh---cCCCcHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999888752 33556788888888999999999998888874   344 566676766234445589999


Q ss_pred             HHHHHhC-CCCCc-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHHhC---CCC-----cchHHHHHHHHhhcCChHHHH
Q 048142          161 EELIKNM-PMALD-HFVLGGLLGACRIHDN---LEAAERAAQQLLELL---PDN-----GGSYVILSNRYSSSRKWKKVK  227 (352)
Q Consensus       161 ~~~~~~m-~~~p~-~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~---~~~-----~~~~~~li~~~~~~g~~~~a~  227 (352)
                      ...|+++ ...|+ ...|..+...+...|+   .++|...+++..+..   |..     ..+|..+...|...|++++|.
T Consensus       162 ~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  241 (272)
T 3u4t_A          162 DSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKAD  241 (272)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            9988887 33343 6677777777777777   777888888876642   221     246777888888899999999


Q ss_pred             HHHHHHHhcC
Q 048142          228 RIRELMAERN  237 (352)
Q Consensus       228 ~~~~~m~~~g  237 (352)
                      +.+++..+..
T Consensus       242 ~~~~~al~~~  251 (272)
T 3u4t_A          242 AAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHhcC
Confidence            9999887654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.50  E-value=7.2e-13  Score=111.80  Aligned_cols=223  Identities=9%  Similarity=-0.027  Sum_probs=183.2

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCC
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRG--VKP  103 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p  103 (352)
                      ..+|..+...+...|++++|...++++.+.. .          +...|..+..+|...|++++|++.|++..+..  ..|
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~-~----------~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~   73 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH-K----------DITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRA   73 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-C----------CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh-c----------cHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCccccc
Confidence            4678888999999999999999999999876 2          23588999999999999999999999987642  222


Q ss_pred             C----HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHH
Q 048142          104 D----AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLG  177 (352)
Q Consensus       104 ~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~  177 (352)
                      +    ..++..+...+...|++++|...|++..+.   .|+.       ..+.+.|++++|...++++ ...| +...|.
T Consensus        74 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~---~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  143 (258)
T 3uq3_A           74 DYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE---HRTA-------DILTKLRNAEKELKKAEAEAYVNPEKAEEAR  143 (258)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCH-------HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc---Cchh-------HHHHHHhHHHHHHHHHHHHHHcCcchHHHHH
Confidence            2    578889999999999999999999999875   4553       3466778999999999987 3344 467888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhh
Q 048142          178 GLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFV  257 (352)
Q Consensus       178 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~  257 (352)
                      .+...+...|++++|...+++..+..|.+..+|..+...|...|++++|.+.+++..+..  |+...   ....+...+.
T Consensus       144 ~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~---~~~~l~~~~~  218 (258)
T 3uq3_A          144 LEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVR---AYIRKATAQI  218 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHH---HHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--HHHHH---HHHHHHHHHH
Confidence            889999999999999999999999999999999999999999999999999999998754  33211   1223445577


Q ss_pred             hcCcccCchhhhhcCCH
Q 048142          258 KAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       258 ~~G~~~~~~~~~~~~~~  274 (352)
                      ..|..++|...+....+
T Consensus       219 ~~g~~~~A~~~~~~a~~  235 (258)
T 3uq3_A          219 AVKEYASALETLDAART  235 (258)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            88999888888876543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.49  E-value=6.7e-12  Score=100.64  Aligned_cols=166  Identities=11%  Similarity=-0.002  Sum_probs=145.4

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCL  147 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  147 (352)
                      .+...|..|...|.+.|++++|++.|++..+.. +-+..++..+..++.+.|++++|...+......  ...+...+..+
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~   79 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYIL   79 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHH
Confidence            356789999999999999999999999998852 235778899999999999999999999998864  23356778888


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHH
Q 048142          148 VYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKK  225 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  225 (352)
                      ...+...+++++|...+.+. ...| +...+..+...+...|++++|++.|++..+..|.++.+|..+...|.+.|++++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            88999999999999999887 2333 578888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc
Q 048142          226 VKRIRELMAER  236 (352)
Q Consensus       226 a~~~~~~m~~~  236 (352)
                      |.+.|++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            99999998764

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.45  E-value=1e-11  Score=105.77  Aligned_cols=235  Identities=9%  Similarity=-0.042  Sum_probs=179.8

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--
Q 048142           27 VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD--  104 (352)
Q Consensus        27 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--  104 (352)
                      ..+......+...|++++|...+++..+...          .+...|..+...|...|++++|++.|++..+.+-.|+  
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p----------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~   73 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKKY----------NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAK   73 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTTC----------CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC----------CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHH
Confidence            3455667788999999999999999998653          2334788899999999999999999999988432222  


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGA  182 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~  182 (352)
                      ..+|..+...+...|++++|...|++..+.  .+.+...+..+...|...|++++|...|++. ...|+ ...|..+...
T Consensus        74 ~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~  151 (272)
T 3u4t_A           74 SADFEYYGKILMKKGQDSLAIQQYQAAVDR--DTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQA  151 (272)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHH
Confidence            234888999999999999999999999874  2236678999999999999999999999987 44554 6677777735


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCC---hHHHHHHHHHHHhcC-CCCCCc-e-eEEEEcceeehh
Q 048142          183 CRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRK---WKKVKRIRELMAERN-IKKPPG-C-ILIEVDGVVHEF  256 (352)
Q Consensus       183 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~g-~~p~~~-~-~~~~~~~~~~~~  256 (352)
                      +...+++++|...+++..+..|.+...+..+...+...|+   +++|...+++..+.. -.|++. . .......+...+
T Consensus       152 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  231 (272)
T 3u4t_A          152 YYYNKEYVKADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYY  231 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHH
Confidence            5556699999999999999999999999999999999998   888999998886532 112211 0 001111233345


Q ss_pred             hhcCcccCchhhhhcCC
Q 048142          257 VKAGFVPNKSEVLFDMD  273 (352)
Q Consensus       257 ~~~G~~~~~~~~~~~~~  273 (352)
                      ...|..+.|...+....
T Consensus       232 ~~~~~~~~A~~~~~~al  248 (272)
T 3u4t_A          232 TINRDKVKADAAWKNIL  248 (272)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHH
Confidence            57788888877776543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.45  E-value=3e-11  Score=105.45  Aligned_cols=215  Identities=7%  Similarity=-0.045  Sum_probs=172.5

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHh-------ccCCh-------HHHHHHHHHHHHc-CCCCCccccccCCcHHH
Q 048142            8 EEALLLFREVQHKGLTGDKVTMVSLLLACT-------HLGAL-------EVGMWLHPYIMKK-NIEVDVGLGMALKDVMT   72 (352)
Q Consensus         8 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~-------~~g~~-------~~a~~~~~~m~~~-g~~~~~~~~~~l~~~~~   72 (352)
                      ++|+.+|++..... +-+...|..+...+.       +.|++       ++|..+|++..+. ..          .+...
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p----------~~~~~  101 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK----------KNMLL  101 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTT----------TCHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCc----------ccHHH
Confidence            78899999998752 336778888877765       35886       8999999999883 32          45568


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-h-HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH
Q 048142           73 LTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA-I-TFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI  150 (352)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~-t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  150 (352)
                      |..++..+.+.|++++|.++|++..+  +.|+. . .|..+...+.+.|++++|..+|++..+.  .+++...|......
T Consensus       102 ~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~  177 (308)
T 2ond_A          102 YFAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALM  177 (308)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHH
Confidence            99999999999999999999999997  45653 3 7999999999999999999999999863  12344555444333


Q ss_pred             HH-HcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCC--CcchHHHHHHHHhhcCCh
Q 048142          151 LG-RAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLEL--LPD--NGGSYVILSNRYSSSRKW  223 (352)
Q Consensus       151 ~~-~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~--~~~~~~~li~~~~~~g~~  223 (352)
                      .. ..|++++|..+|++. ...| +...|..++..+...|+.++|..+|++..+.  .+|  ....|..++..+.+.|+.
T Consensus       178 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~  257 (308)
T 2ond_A          178 EYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDL  257 (308)
T ss_dssp             HHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            22 369999999999987 2223 5788999999999999999999999999885  243  456888999999999999


Q ss_pred             HHHHHHHHHHHhcC
Q 048142          224 KKVKRIRELMAERN  237 (352)
Q Consensus       224 ~~a~~~~~~m~~~g  237 (352)
                      ++|..+++++.+..
T Consensus       258 ~~a~~~~~~a~~~~  271 (308)
T 2ond_A          258 ASILKVEKRRFTAF  271 (308)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999988654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.44  E-value=4.3e-12  Score=110.07  Aligned_cols=205  Identities=15%  Similarity=0.115  Sum_probs=163.7

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC----CCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNI----EVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR-   99 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~----~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-   99 (352)
                      +..++..+...+...|++++|..+++++.+...    ..+.      .....|..+...|...|++++|+..|++.... 
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~   99 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHP------DVATMLNILALVYRDQNKYKDAANLLNDALAIR   99 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSH------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCH------HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            467788899999999999999999999887310    0011      45567899999999999999999999998764 


Q ss_pred             -----CCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhc-----CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142          100 -----GVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKY-----GIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       100 -----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                           +-.| ...++..+...+...|++++|...+++..+..     +-.| ....+..+...|...|++++|..+|+++
T Consensus       100 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  179 (311)
T 3nf1_A          100 EKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRA  179 (311)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                 2233 35678889999999999999999999988642     2223 4567888899999999999999999876


Q ss_pred             ---------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----------------------------------
Q 048142          168 ---------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLEL-----------------------------------  202 (352)
Q Consensus       168 ---------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----------------------------------  202 (352)
                               +..|+ ..++..+...+...|++++|...+++..+.                                   
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (311)
T 3nf1_A          180 LEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTS  259 (311)
T ss_dssp             HHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CC
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHH
Confidence                     11333 567888889999999999999999998752                                   


Q ss_pred             --------------CCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          203 --------------LPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       203 --------------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                                    .|.+..++..+...|.+.|++++|.+.+++..+
T Consensus       260 ~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          260 FGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             SCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                          233456788889999999999999999988764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.44  E-value=2.3e-11  Score=97.51  Aligned_cols=169  Identities=14%  Similarity=0.005  Sum_probs=146.5

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...|..+-..+.+.|++++|.+.|++..+...          .+...|..+...|.+.|++++|+..+.+..... +-+
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~   72 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADP----------NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTS   72 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chh
Confidence            677899999999999999999999999998754          466789999999999999999999999998763 335


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGA  182 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~  182 (352)
                      ...+..+...+...++++.|...+.+..+.  .+.+...+..+...|.+.|++++|++.|++. ...| +..+|..+...
T Consensus        73 ~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~  150 (184)
T 3vtx_A           73 AEAYYILGSANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLA  150 (184)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHH
Confidence            667778888899999999999999998864  2336788889999999999999999999987 3344 57889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCC
Q 048142          183 CRIHDNLEAAERAAQQLLELLPDN  206 (352)
Q Consensus       183 ~~~~g~~~~a~~~~~~~~~~~~~~  206 (352)
                      +...|++++|...|++..+..|.+
T Consensus       151 ~~~~g~~~~A~~~~~~al~~~p~~  174 (184)
T 3vtx_A          151 YEGKGLRDEAVKYFKKALEKEEKK  174 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhCCccC
Confidence            999999999999999998876654

>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=99.40  E-value=2.8e-11  Score=96.33  Aligned_cols=165  Identities=13%  Similarity=0.023  Sum_probs=144.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      ...|..+...+...|++++|++.|+++.+. .+.+..++..+...+...|++++|...+++..+.  .+.+...+..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~   84 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDA-DAFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGL   84 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCT-TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHH
Confidence            456788889999999999999999998764 2346778889999999999999999999999874  2346788889999


Q ss_pred             HHHHcCCHHHHHHHHHhC-C-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHH
Q 048142          150 ILGRAGRIAKAEELIKNM-P-MALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVK  227 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m-~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  227 (352)
                      .|...|++++|.+.++++ . ...+...|..+...+...|++++|...+++..+..|.+...+..+...|...|++++|.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            999999999999999987 2 23467888889999999999999999999999988989999999999999999999999


Q ss_pred             HHHHHHHhcC
Q 048142          228 RIRELMAERN  237 (352)
Q Consensus       228 ~~~~~m~~~g  237 (352)
                      +.+++..+..
T Consensus       165 ~~~~~~~~~~  174 (186)
T 3as5_A          165 PHFKKANELD  174 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHcC
Confidence            9999987543

>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=99.39  E-value=3e-11  Score=108.55  Aligned_cols=227  Identities=7%  Similarity=0.003  Sum_probs=184.3

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCCC
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQ-GNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~  104 (352)
                      ...|+.+...+.+.|++++|+..++++++...          .+...|+.+...+...|+ +++|+..|++..+.. +-+
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P----------~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~  165 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNA----------ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKN  165 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCc----------cCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCC
Confidence            46788888889999999999999999998664          467789999999999997 999999999999853 225


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLG  181 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~  181 (352)
                      ...|..+-.++...|++++|...|+++.+.   .| +...|..+..++.+.|++++|+..|+++ ...| +...|+.+..
T Consensus       166 ~~a~~~~g~~~~~~g~~~eAl~~~~kal~l---dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~  242 (382)
T 2h6f_A          166 YQVWHHRRVLVEWLRDPSQELEFIADILNQ---DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYF  242 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            778999999999999999999999999864   55 7889999999999999999999999998 3344 5889999999


Q ss_pred             HHHh-cCCHHHH-----HHHHHHHHHhCCCCcchHHHHHHHHhhcC--ChHHHHHHHHHHHhcCCCCCCceeEEEEccee
Q 048142          182 ACRI-HDNLEAA-----ERAAQQLLELLPDNGGSYVILSNRYSSSR--KWKKVKRIRELMAERNIKKPPGCILIEVDGVV  253 (352)
Q Consensus       182 ~~~~-~g~~~~a-----~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~  253 (352)
                      .+.. .|..++|     +..+++..+..|.+...|..+...+...|  ++++|.+.+.++   ...|+...   .+..+.
T Consensus       243 ~l~~l~~~~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~---~~~p~~~~---al~~La  316 (382)
T 2h6f_A          243 VISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL---QPSHSSPY---LIAFLV  316 (382)
T ss_dssp             HHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH---TTTCCCHH---HHHHHH
T ss_pred             HHHHhcCcchHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh---ccCCCCHH---HHHHHH
Confidence            9988 6665777     58899999999999999999999999988  689999999887   33444221   122233


Q ss_pred             ehhhhcC---------cccCchhhhhcC
Q 048142          254 HEFVKAG---------FVPNKSEVLFDM  272 (352)
Q Consensus       254 ~~~~~~G---------~~~~~~~~~~~~  272 (352)
                      ..+.+.|         ..++|..++..+
T Consensus       317 ~~~~~~~~~~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          317 DIYEDMLENQCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             HHHHHHHHTTCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccccchHHHHHHHHHHHHHH
Confidence            3444443         246677777665

>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=99.37  E-value=2.5e-11  Score=117.49  Aligned_cols=162  Identities=14%  Similarity=0.154  Sum_probs=147.0

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHH
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGC  146 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~  146 (352)
                      +...|+.|...|.+.|++++|++.|++..+.  .|+ ..+|..+..+|.+.|++++|...|++..+.   .| +...|..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~n   82 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSN   82 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHH
Confidence            4678999999999999999999999999884  454 778999999999999999999999999864   56 5788999


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChH
Q 048142          147 LVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWK  224 (352)
Q Consensus       147 li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  224 (352)
                      +..+|.+.|++++|++.|++. ...|+ ...|+.+...+...|++++|+..|++..+..|.+...|..+...|...|+++
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            999999999999999999987 44554 7899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q 048142          225 KVKRIRELMAE  235 (352)
Q Consensus       225 ~a~~~~~~m~~  235 (352)
                      +|.+.+++..+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999887753

>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=99.36  E-value=6.2e-10  Score=95.07  Aligned_cols=221  Identities=11%  Similarity=-0.084  Sum_probs=180.3

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM----CGQGNKALEYFYEMQIRG  100 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g  100 (352)
                      +..++..+-..+...|++++|...|.+..+.            .+...+..+...|..    .+++++|++.|++..+.+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~------------~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~   72 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL------------KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN   72 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT------------TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC------------CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC
Confidence            5678888888999999999999999999883            334678889999999    999999999999999876


Q ss_pred             CCCCHhHHHHHHHHHhc----cCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHH----cCCHHHHHHHHHhCCCCCc
Q 048142          101 VKPDAITFVGVLVACSH----AGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGR----AGRIAKAEELIKNMPMALD  172 (352)
Q Consensus       101 ~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~  172 (352)
                         +..++..+...|..    .+++++|...|++..+. +   +...+..+...|..    .+++++|...|++.-...+
T Consensus        73 ---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~  145 (273)
T 1ouv_A           73 ---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDL-K---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLND  145 (273)
T ss_dssp             ---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             ---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHc-C---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcCc
Confidence               67788888889988    99999999999999875 4   77888899999999    9999999999998721225


Q ss_pred             HHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh----cCChHHHHHHHHHHHhcCCCCCCce
Q 048142          173 HFVLGGLLGACRI----HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS----SRKWKKVKRIRELMAERNIKKPPGC  244 (352)
Q Consensus       173 ~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~  244 (352)
                      ...+..+...+..    .+++++|...+++..+..  ++..+..+...|..    .+++++|.+.+++..+.+. ++  .
T Consensus       146 ~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~-~~--a  220 (273)
T 1ouv_A          146 GDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK--DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN-GG--G  220 (273)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC-HH--H
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC-HH--H
Confidence            6777888888887    999999999999988763  45688889999999    9999999999999987754 11  0


Q ss_pred             eEEEEcceeehhhh----cCcccCchhhhhcCC
Q 048142          245 ILIEVDGVVHEFVK----AGFVPNKSEVLFDMD  273 (352)
Q Consensus       245 ~~~~~~~~~~~~~~----~G~~~~~~~~~~~~~  273 (352)
                          ...+-..+.+    .|..+.|..++....
T Consensus       221 ----~~~l~~~~~~g~~~~~~~~~A~~~~~~a~  249 (273)
T 1ouv_A          221 ----CFNLGAMQYNGEGVTRNEKQAIENFKKGC  249 (273)
T ss_dssp             ----HHHHHHHHHTTSSSSCCSTTHHHHHHHHH
T ss_pred             ----HHHHHHHHHcCCCcccCHHHHHHHHHHHH
Confidence                1112223344    677778887776543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.35  E-value=1.2e-11  Score=108.07  Aligned_cols=227  Identities=14%  Similarity=0.044  Sum_probs=173.3

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC-CCccccccCCcHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGD-----KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIE-VDVGLGMALKDVMTLTA   75 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~-----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~~~~~~l~~~~~~~~   75 (352)
                      .+.|++++|+..|++.....  |+     ...+..+...+...|++++|.+.+++..+.... .+..     .....|..
T Consensus        16 ~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-----~~~~~~~~   88 (338)
T 3ro2_A           16 CKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL-----GEAKASGN   88 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH-----HHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccH-----HHHHHHHH
Confidence            46799999999999998863  43     367788899999999999999999987653110 0000     33567889


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HhHHHHHHHHHhccCC--------------------HHHHHHHHHH
Q 048142           76 LIVVLAMCGQGNKALEYFYEMQIRGV-KPD----AITFVGVLVACSHAGL--------------------VDERISHFNL  130 (352)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~~~~~~g~--------------------~~~a~~~~~~  130 (352)
                      +...|...|++++|.+.+++..+... .++    ..++..+...+...|+                    +++|...+++
T Consensus        89 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  168 (338)
T 3ro2_A           89 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEE  168 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            99999999999999999998765311 112    3477888888999999                    9999999887


Q ss_pred             hhHhc---CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          131 MSEKY---GIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-------PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       131 m~~~~---g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      .....   +..| ....+..+...|...|++++|...+++.       +..+ ...++..+...+...|++++|...+++
T Consensus       169 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  248 (338)
T 3ro2_A          169 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  248 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            65421   2122 2457888888999999999999999886       1111 134788888899999999999999999


Q ss_pred             HHHhCCCC------cchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          199 LLELLPDN------GGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       199 ~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..+..+..      ..++..+...|...|++++|.+.+++..+
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  291 (338)
T 3ro2_A          249 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  291 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            87643222      55778889999999999999999998764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.35  E-value=1e-11  Score=112.51  Aligned_cols=264  Identities=12%  Similarity=0.015  Sum_probs=194.9

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCC-H----HHHHHHHHHHhccCChHHHHHHHHHHHHcC--CCCCccccccCCcHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGD-K----VTMVSLLLACTHLGALEVGMWLHPYIMKKN--IEVDVGLGMALKDVMTLT   74 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~-~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~~~~~~~~~l~~~~~~~   74 (352)
                      .+.|++++|+..|++....  .|+ .    ..|..+...+...|++++|...+++..+..  ...+.      .....|.
T Consensus        59 ~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~------~~~~~~~  130 (411)
T 4a1s_A           59 CNAGDCRAGVAFFQAAIQA--GTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRL------GEAKSSG  130 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHH------HHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh--cccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCch------HHHHHHH
Confidence            4579999999999999886  343 3    478888999999999999999999887641  11111      4556789


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHhHHHHHHHHHhccCC-----------------HHHHHHHHHHhh
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIR----GVKP-DAITFVGVLVACSHAGL-----------------VDERISHFNLMS  132 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~-----------------~~~a~~~~~~m~  132 (352)
                      .+...|...|++++|++.|++..+.    +-.| ...++..+...+...|+                 +++|...+++..
T Consensus       131 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al  210 (411)
T 4a1s_A          131 NLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENL  210 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            9999999999999999999987653    2122 24578888889999999                 999999988865


Q ss_pred             Hhc---CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048142          133 EKY---GIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM----PMALD----HFVLGGLLGACRIHDNLEAAERAAQQLL  200 (352)
Q Consensus       133 ~~~---g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~  200 (352)
                      +..   +-.+ ....+..+...|...|++++|...+++.    +..++    ..++..+...+...|++++|...+++..
T Consensus       211 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  290 (411)
T 4a1s_A          211 KLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTL  290 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            421   2122 3457888889999999999999999886    11112    3478888899999999999999999987


Q ss_pred             HhCCC------CcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCC-CCCceeEEEEcceeehhhhcCcccCchhhhhcCC
Q 048142          201 ELLPD------NGGSYVILSNRYSSSRKWKKVKRIRELMAERNIK-KPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMD  273 (352)
Q Consensus       201 ~~~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~  273 (352)
                      +..+.      ...++..+...|...|++++|.+.+++..+..-. ++..........+...+...|...+|..++....
T Consensus       291 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  370 (411)
T 4a1s_A          291 ALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHL  370 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            64332      2467888999999999999999999987643111 1100011112234455678899999988876543

>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=99.34  E-value=7.6e-11  Score=93.79  Aligned_cols=169  Identities=12%  Similarity=0.003  Sum_probs=143.3

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      ...|..+...+...|++++|...++++.+...          .+...|..+...+...|++++|.+.+++..+. .+.+.
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~   76 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADA----------FDVDVALHLGIAYVKTGAVDRGTELLERSLAD-APDNV   76 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTS----------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc----------cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCCH
Confidence            45677788889999999999999998876432          46678999999999999999999999999876 34467


Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHHHH
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMA-LDHFVLGGLLGAC  183 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~  183 (352)
                      ..+..+...+...|++++|...+++..+.  .+.+...+..+...|...|++++|...+++. ... .+...|..+...+
T Consensus        77 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~  154 (186)
T 3as5_A           77 KVATVLGLTYVQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSY  154 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHH
Confidence            78889999999999999999999999874  3446788889999999999999999999987 222 3578899999999


Q ss_pred             HhcCCHHHHHHHHHHHHHhCCCCc
Q 048142          184 RIHDNLEAAERAAQQLLELLPDNG  207 (352)
Q Consensus       184 ~~~g~~~~a~~~~~~~~~~~~~~~  207 (352)
                      ...|++++|...+++..+..|.+.
T Consensus       155 ~~~~~~~~A~~~~~~~~~~~~~~~  178 (186)
T 3as5_A          155 EQMGRHEEALPHFKKANELDEGAS  178 (186)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHCCC
T ss_pred             HHcCCHHHHHHHHHHHHHcCCCch
Confidence            999999999999999887655544

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.33  E-value=3.2e-11  Score=104.51  Aligned_cols=194  Identities=18%  Similarity=0.119  Sum_probs=154.3

Q ss_pred             ccCCChhHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHc------CCCCCccccccCC
Q 048142            2 VEDSACEEALLLFREVQHK-------GLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKK------NIEVDVGLGMALK   68 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~-------g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~~~~~~~~~l~   68 (352)
                      ...|++++|+.+|+++...       .......++..+...+...|++++|...+++..+.      +-.+        .
T Consensus        38 ~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~--------~  109 (311)
T 3nf1_A           38 ASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHP--------A  109 (311)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCH--------H
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh--------H
Confidence            4579999999999998763       22334677888999999999999999999998864      2111        4


Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhc-----C
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEMQIR------GVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKY-----G  136 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----g  136 (352)
                      ...+|..+...|...|++++|.+.|++..+.      +..|+ ..++..+...+...|++++|..++++..+..     +
T Consensus       110 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~  189 (311)
T 3nf1_A          110 VAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGP  189 (311)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCT
T ss_pred             HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCC
Confidence            5677999999999999999999999998764      22333 4568888999999999999999999987631     1


Q ss_pred             CCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhCC-----------------------------------------------
Q 048142          137 IRP-SIEHYGCLVYILGRAGRIAKAEELIKNMP-----------------------------------------------  168 (352)
Q Consensus       137 ~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-----------------------------------------------  168 (352)
                      ..| ...++..+...|...|++++|...++++-                                               
T Consensus       190 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  269 (311)
T 3nf1_A          190 DDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKA  269 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-----
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhh
Confidence            123 45678889999999999999999987751                                               


Q ss_pred             ---CCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Q 048142          169 ---MALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELL  203 (352)
Q Consensus       169 ---~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  203 (352)
                         ..|+ ..+|..+...|...|++++|.+.+++..+..
T Consensus       270 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  308 (311)
T 3nf1_A          270 CKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSR  308 (311)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             cCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence               2233 5678889999999999999999999987653

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.33  E-value=3.6e-11  Score=108.29  Aligned_cols=266  Identities=14%  Similarity=0.019  Sum_probs=194.9

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHcC--CCCCccccccCCcHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGD----KVTMVSLLLACTHLGALEVGMWLHPYIMKKN--IEVDVGLGMALKDVMTLTA   75 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~~~~~~~~~l~~~~~~~~   75 (352)
                      .+.|++++|+..|++....+ +.+    ..+|..+...+...|++++|...+++..+..  ...+.      .....|..
T Consensus        20 ~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~------~~~~~~~~   92 (406)
T 3sf4_A           20 CKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL------GEAKASGN   92 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH------HHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH------HHHHHHHH
Confidence            45799999999999998863 223    3578888899999999999999999876531  11011      23567888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HhHHHHHHHHHhccCC--------------------HHHHHHHHHH
Q 048142           76 LIVVLAMCGQGNKALEYFYEMQIRGV-KPD----AITFVGVLVACSHAGL--------------------VDERISHFNL  130 (352)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~~~~~~g~--------------------~~~a~~~~~~  130 (352)
                      +...|...|++++|+..+++..+... .++    ..++..+...+...|+                    +++|...+.+
T Consensus        93 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  172 (406)
T 3sf4_A           93 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEE  172 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            99999999999999999998865310 112    4478888889999999                    9999999887


Q ss_pred             hhHhc---CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          131 MSEKY---GIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM----PMALD----HFVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       131 m~~~~---g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      ..+..   +..| ...++..+...|...|++++|...+++.    +..++    ..+|..+...+...|++++|...+++
T Consensus       173 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  252 (406)
T 3sf4_A          173 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  252 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            65421   1122 2457888889999999999999999876    11122    34788888999999999999999999


Q ss_pred             HHHhCCCC------cchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCC-CCceeEEEEcceeehhhhcCcccCchhhhhc
Q 048142          199 LLELLPDN------GGSYVILSNRYSSSRKWKKVKRIRELMAERNIKK-PPGCILIEVDGVVHEFVKAGFVPNKSEVLFD  271 (352)
Q Consensus       199 ~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~  271 (352)
                      ..+..+..      ..++..+...|...|++++|.+.+++..+..-.. +..........+...+...|..++|...+..
T Consensus       253 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  332 (406)
T 3sf4_A          253 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  332 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            87643322      5678889999999999999999999876432111 1111111222344556789999999998876


Q ss_pred             CCH
Q 048142          272 MDE  274 (352)
Q Consensus       272 ~~~  274 (352)
                      ..+
T Consensus       333 al~  335 (406)
T 3sf4_A          333 HLE  335 (406)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.33  E-value=2.2e-11  Score=109.63  Aligned_cols=228  Identities=11%  Similarity=-0.002  Sum_probs=171.1

Q ss_pred             ccCCChhHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-C-ccccccCCcHHHHH
Q 048142            2 VEDSACEEALLLFREVQHK----GLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEV-D-VGLGMALKDVMTLT   74 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~-~~~~~~l~~~~~~~   74 (352)
                      ...|++++|++.|++....    +-.+ ...+|..+...+...|+++.|...+.+..+..... + ..     ....+++
T Consensus       114 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~-----~~~~~~~  188 (383)
T 3ulq_A          114 LDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNI-----RLLQCHS  188 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHH-----HHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchH-----HHHHHHH
Confidence            3579999999999998763    2122 34678889999999999999999999887642111 0 00     3346789


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhc---CC-CCChhHHH
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIR----GVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKY---GI-RPSIEHYG  145 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---g~-~p~~~~~~  145 (352)
                      .+...|...|++++|++.|++..+.    +..+. ..++..+...|...|++++|...+++..+..   +. .....++.
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            9999999999999999999988753    11111 2478889999999999999999999887621   22 22467788


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-------CCCCcHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHhCCCCcchHHHHHH
Q 048142          146 CLVYILGRAGRIAKAEELIKNM-------PMALDHFVLGGLLGACRIHDN---LEAAERAAQQLLELLPDNGGSYVILSN  215 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~li~  215 (352)
                      .+...|.+.|++++|...+++.       +.......+..+...+...|+   .++|..++++. ...+.....+..+..
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~  347 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHH
Confidence            9999999999999999999886       211123345667778888898   77777777665 122233457788999


Q ss_pred             HHhhcCChHHHHHHHHHHHh
Q 048142          216 RYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       216 ~~~~~g~~~~a~~~~~~m~~  235 (352)
                      .|...|++++|.+.+++..+
T Consensus       348 ~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999998764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.33  E-value=3e-10  Score=99.12  Aligned_cols=186  Identities=8%  Similarity=-0.022  Sum_probs=151.2

Q ss_pred             hHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHH-HHHHHHHHHHhcCC
Q 048142            8 EEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVM-TLTALIVVLAMCGQ   85 (352)
Q Consensus         8 ~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~-~~~~li~~~~~~g~   85 (352)
                      ++|..+|++.... +.| +...|..+...+.+.|++++|..+|++..+..  |        .+.. .|..+...+.+.|+
T Consensus        81 ~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--p--------~~~~~~~~~~~~~~~~~~~  149 (308)
T 2ond_A           81 DEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE--D--------IDPTLVYIQYMKFARRAEG  149 (308)
T ss_dssp             HHHHHHHHHHHTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSS--S--------SCTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc--c--------cCccHHHHHHHHHHHHhcC
Confidence            8999999999873 245 56689999999999999999999999999843  2        1223 89999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHhHHHHHHHHH-hccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHH
Q 048142           86 GNKALEYFYEMQIRGVKPDAITFVGVLVAC-SHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELI  164 (352)
Q Consensus        86 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~-~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  164 (352)
                      +++|..+|++..+.. +++...|....... ...|+.++|..+|+...+.  .+-+...|..++..+.+.|++++|..+|
T Consensus       150 ~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~  226 (308)
T 2ond_A          150 IKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLF  226 (308)
T ss_dssp             HHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999998753 23444454433332 2379999999999999875  2236788999999999999999999999


Q ss_pred             HhC-C---CCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 048142          165 KNM-P---MAL--DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG  207 (352)
Q Consensus       165 ~~m-~---~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  207 (352)
                      ++. .   ..|  ....|..++......|+.+.|..+++++.+..|.+.
T Consensus       227 ~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p~~~  275 (308)
T 2ond_A          227 ERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             HHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             HHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccccc
Confidence            987 2   355  377899999999999999999999999998877654

>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=4.2e-10  Score=93.35  Aligned_cols=190  Identities=16%  Similarity=0.017  Sum_probs=123.3

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP-  103 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-  103 (352)
                      |+..+......+...|++++|...|++..+....         ++...|..+..+|...|++++|++.|++..+.  .| 
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~---------~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~   74 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNN---------QDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYN   74 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT---------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCS
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCC---------CCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--Ccc
Confidence            5667777777888888888888888888876643         34455666788888888888888888888764  34 


Q ss_pred             CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-Ch-------hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc--
Q 048142          104 DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SI-------EHYGCLVYILGRAGRIAKAEELIKNM-PMALD--  172 (352)
Q Consensus       104 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~-------~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~--  172 (352)
                      +..++..+...+...|++++|...+++..+.   .| +.       ..|..+...+...|++++|...|++. ...|+  
T Consensus        75 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~  151 (228)
T 4i17_A           75 LANAYIGKSAAYRDMKNNQEYIATLTEGIKA---VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKW  151 (228)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcc
Confidence            3556777888888888888888888887764   33 33       45667777778888888888888776 55565  


Q ss_pred             -HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          173 -HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       173 -~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                       ...|..+...+...|+.     .++++....+.+...|....  ....+.+++|...+++..+
T Consensus       152 ~~~~~~~l~~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~  208 (228)
T 4i17_A          152 KTDALYSLGVLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVT  208 (228)
T ss_dssp             HHHHHHHHHHHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhh
Confidence             45566666666544433     33333333333333332222  1223444555555555443

>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=99.32  E-value=1.6e-11  Score=104.70  Aligned_cols=225  Identities=14%  Similarity=0.063  Sum_probs=158.2

Q ss_pred             cCCChhHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHc------CCCCCccccccCCc
Q 048142            3 EDSACEEALLLFREVQHK-------GLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKK------NIEVDVGLGMALKD   69 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~-------g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~~~~~~~~~l~~   69 (352)
                      ..|++++|+.+|++....       ..+....++..+...+...|++++|...+.+..+.      +-.+        ..
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~--------~~   84 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHP--------AV   84 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCH--------HH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcch--------HH
Confidence            457777777777776541       21224677889999999999999999999998865      2111        45


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhc-----CC
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIR------GVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKY-----GI  137 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----g~  137 (352)
                      ..+|+.+...|...|++++|++.|++....      ...| ...++..+...+...|++++|...+++..+..     +-
T Consensus        85 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  164 (283)
T 3edt_B           85 AATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPD  164 (283)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTT
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCC
Confidence            568999999999999999999999998764      1123 35678889999999999999999999987631     11


Q ss_pred             CC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC----------CCCCc-HHHHHHHHHHHHhcCCHHHHH------HHHHHH
Q 048142          138 RP-SIEHYGCLVYILGRAGRIAKAEELIKNM----------PMALD-HFVLGGLLGACRIHDNLEAAE------RAAQQL  199 (352)
Q Consensus       138 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----------~~~p~-~~~~~~li~~~~~~g~~~~a~------~~~~~~  199 (352)
                      .| ...++..+...|.+.|++++|..++++.          ...+. ...|..+.......+....+.      ..++..
T Consensus       165 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (283)
T 3edt_B          165 DPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKAC  244 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CC
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhc
Confidence            23 4567888999999999999999999876          11222 233333333333333222222      222211


Q ss_pred             HHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          200 LELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       200 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ....|....++..+...|...|++++|.+++++..+
T Consensus       245 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          245 KVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            112233456788999999999999999999998764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.32  E-value=1.7e-11  Score=113.74  Aligned_cols=218  Identities=9%  Similarity=-0.124  Sum_probs=176.0

Q ss_pred             hHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCC
Q 048142           42 LEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQG-NKALEYFYEMQIRGVKPDAITFVGVLVACSHAGL  120 (352)
Q Consensus        42 ~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~  120 (352)
                      ++++...+++......          .+...|..+...|...|++ ++|++.|++..+.. +-+..+|..+..+|...|+
T Consensus        84 ~~~al~~l~~~~~~~~----------~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~  152 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQ----------VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGD  152 (474)
T ss_dssp             HHHHHHHHHHHHTTCC----------CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhccCc----------hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCC
Confidence            4555556665444322          4677899999999999999 99999999998852 2347789999999999999


Q ss_pred             HHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHc---------CCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhc---
Q 048142          121 VDERISHFNLMSEKYGIRPSIEHYGCLVYILGRA---------GRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIH---  186 (352)
Q Consensus       121 ~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~---------g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~---  186 (352)
                      +++|...|++..+   +.|+...+..+...|...         |++++|...|++. ...| +...|..+...+...   
T Consensus       153 ~~~A~~~~~~al~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~  229 (474)
T 4abn_A          153 VTSAHTCFSGALT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFN  229 (474)
T ss_dssp             HHHHHHHHHHHHT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHh
Confidence            9999999999985   468888899999999999         9999999999987 3344 488899999999988   


Q ss_pred             -----CCHHHHHHHHHHHHHhCC---CCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhh
Q 048142          187 -----DNLEAAERAAQQLLELLP---DNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVK  258 (352)
Q Consensus       187 -----g~~~~a~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~  258 (352)
                           |++++|+..|++..+..|   .+...|..+...|...|++++|.+.|++..+..  |+...   ....+...+..
T Consensus       230 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~---a~~~l~~~~~~  304 (474)
T 4abn_A          230 TGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD--PAWPE---PQQREQQLLEF  304 (474)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHH---HHHHHHHHHHH
T ss_pred             hccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHH---HHHHHHHHHHH
Confidence                 999999999999999888   899999999999999999999999999987654  33211   11223344567


Q ss_pred             cCcccCchhhhhcCCHHHHh
Q 048142          259 AGFVPNKSEVLFDMDEEEKE  278 (352)
Q Consensus       259 ~G~~~~~~~~~~~~~~~~~~  278 (352)
                      .|..++|...+..+......
T Consensus       305 lg~~~eAi~~~~~~~~~~l~  324 (474)
T 4abn_A          305 LSRLTSLLESKGKTKPKKLQ  324 (474)
T ss_dssp             HHHHHHHHHHTTTCCHHHHH
T ss_pred             HHHHHHHHHHhccccCccHH
Confidence            78888888887777654433

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.29  E-value=1.6e-11  Score=111.15  Aligned_cols=229  Identities=12%  Similarity=-0.028  Sum_probs=174.0

Q ss_pred             ccCCChhHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC-CCccccccCCcHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHK----GLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIE-VDVGLGMALKDVMTLTA   75 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~~~~~~l~~~~~~~~   75 (352)
                      ...|++++|++.|++....    +..| ...++..+...+...|++++|...+.+..+.... .+..     ....+|..
T Consensus        97 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-----~~~~~~~~  171 (411)
T 4a1s_A           97 FYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRL-----SEGRALYN  171 (411)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH-----HHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchH-----HHHHHHHH
Confidence            3568999999999988653    2222 4567888889999999999999999987764110 0000     34567889


Q ss_pred             HHHHHHhcCC-----------------hHHHHHHHHHHHHc----CCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142           76 LIVVLAMCGQ-----------------GNKALEYFYEMQIR----GVKP-DAITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus        76 li~~~~~~g~-----------------~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      +...|...|+                 +++|++.+++..+.    +..| ...++..+...+...|++++|...+++..+
T Consensus       172 l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  251 (411)
T 4a1s_A          172 LGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLR  251 (411)
T ss_dssp             HHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            9999999999                 99999999887542    2222 234778888999999999999999998876


Q ss_pred             hcCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048142          134 KYGIRPS----IEHYGCLVYILGRAGRIAKAEELIKNM-------PMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       134 ~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      ...-.++    ...+..+...|...|++++|...+++.       +.. ....++..+...+...|++++|...+++..+
T Consensus       252 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  331 (411)
T 4a1s_A          252 IAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLA  331 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4111112    337888899999999999999999876       111 1256788888999999999999999999876


Q ss_pred             hCC------CCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          202 LLP------DNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       202 ~~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..+      ....++..+...|...|++++|.+.+++..+
T Consensus       332 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          332 IAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            422      1235788899999999999999999998764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.27  E-value=1.2e-09  Score=102.72  Aligned_cols=214  Identities=6%  Similarity=-0.076  Sum_probs=168.7

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc-------cCChH-------HHHHHHHHHHHcCCCCCccccccCCcHHHH
Q 048142            8 EEALLLFREVQHKGLTGDKVTMVSLLLACTH-------LGALE-------VGMWLHPYIMKKNIEVDVGLGMALKDVMTL   73 (352)
Q Consensus         8 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~-------~g~~~-------~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~   73 (352)
                      ++|+.+|++.... .+-+...|......+.+       .|+++       +|..++++..+.- .|        .+...|
T Consensus       255 ~~a~~~y~~al~~-~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~-~p--------~~~~l~  324 (530)
T 2ooe_A          255 KRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTL-LK--------KNMLLY  324 (530)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTT-CS--------SCHHHH
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHh-Cc--------ccHHHH
Confidence            3677888888774 23367888888887765       79987       8999999987621 21        457789


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHH
Q 048142           74 TALIVVLAMCGQGNKALEYFYEMQIRGVKPDA--ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYI  150 (352)
Q Consensus        74 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~  150 (352)
                      ..++..+.+.|++++|..+|++..+  ..|+.  ..|...+..+.+.|++++|..+|++..+.   .| +...|......
T Consensus       325 ~~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~---~~~~~~~~~~~a~~  399 (530)
T 2ooe_A          325 FAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---ARTRHHVYVTAALM  399 (530)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC---TTCCTHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhC--ccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---cCCchHHHHHHHHH
Confidence            9999999999999999999999998  45653  47888888888999999999999999863   33 23333322222


Q ss_pred             -HHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcc----hHHHHHHHHhhcCCh
Q 048142          151 -LGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGG----SYVILSNRYSSSRKW  223 (352)
Q Consensus       151 -~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~li~~~~~~g~~  223 (352)
                       +...|+.++|..+|++. ...| +...|..++..+...|+.++|..+|++.....|.++.    .|...+......|+.
T Consensus       400 ~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~  479 (530)
T 2ooe_A          400 EYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDL  479 (530)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCH
T ss_pred             HHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCH
Confidence             34689999999999986 3234 5789999999999999999999999999887655544    788888888899999


Q ss_pred             HHHHHHHHHHHhc
Q 048142          224 KKVKRIRELMAER  236 (352)
Q Consensus       224 ~~a~~~~~~m~~~  236 (352)
                      +.+.++++++.+.
T Consensus       480 ~~~~~~~~r~~~~  492 (530)
T 2ooe_A          480 ASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988753

>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=99.26  E-value=2.6e-10  Score=110.47  Aligned_cols=165  Identities=15%  Similarity=0.087  Sum_probs=145.3

Q ss_pred             CC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 048142           23 TG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGV  101 (352)
Q Consensus        23 ~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  101 (352)
                      .| +..+|+.|-..+.+.|++++|.+.|++.++...          .+...|+.|..+|.+.|++++|++.|++..+.  
T Consensus         5 ~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P----------~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--   72 (723)
T 4gyw_A            5 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFP----------EFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--   72 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS----------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--
Confidence            45 467899999999999999999999999998653          45678999999999999999999999999884  


Q ss_pred             CCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHH
Q 048142          102 KPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLG  177 (352)
Q Consensus       102 ~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~  177 (352)
                      .|+ ..+|..+..++...|++++|.+.|++..+.   .| +...|+.+..+|.+.|++++|++.|++. ...|+ ...|.
T Consensus        73 ~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l---~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~  149 (723)
T 4gyw_A           73 SPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQI---NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYC  149 (723)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHh
Confidence            454 778999999999999999999999999864   55 5788999999999999999999999987 45565 78899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHh
Q 048142          178 GLLGACRIHDNLEAAERAAQQLLEL  202 (352)
Q Consensus       178 ~li~~~~~~g~~~~a~~~~~~~~~~  202 (352)
                      .+...+...|++++|.+.+++..+.
T Consensus       150 ~L~~~l~~~g~~~~A~~~~~kal~l  174 (723)
T 4gyw_A          150 NLAHCLQIVCDWTDYDERMKKLVSI  174 (723)
T ss_dssp             HHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             hhhhHHHhcccHHHHHHHHHHHHHh
Confidence            9999999999999999999987653

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.25  E-value=5.1e-11  Score=107.33  Aligned_cols=229  Identities=14%  Similarity=0.018  Sum_probs=173.6

Q ss_pred             ccCCChhHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC-CCccccccCCcHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHK----GLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIE-VDVGLGMALKDVMTLTA   75 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~~~~~~l~~~~~~~~   75 (352)
                      ...|++++|+..|++....    +..| ...++..+...+...|++++|...+.+..+.... .+..     ....++..
T Consensus        58 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-----~~~~~~~~  132 (406)
T 3sf4_A           58 FYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKV-----GEARALYN  132 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH-----HHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhccccc-----chHHHHHH
Confidence            3578999999999987542    2223 2557788888999999999999999988764211 0000     22457889


Q ss_pred             HHHHHHhcCC--------------------hHHHHHHHHHHHHc----CCCCC-HhHHHHHHHHHhccCCHHHHHHHHHH
Q 048142           76 LIVVLAMCGQ--------------------GNKALEYFYEMQIR----GVKPD-AITFVGVLVACSHAGLVDERISHFNL  130 (352)
Q Consensus        76 li~~~~~~g~--------------------~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~  130 (352)
                      +...|...|+                    +++|++.+++....    +..|. ..++..+...+...|++++|...+++
T Consensus       133 l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  212 (406)
T 3sf4_A          133 LGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQ  212 (406)
T ss_dssp             HHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHH
T ss_pred             HHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            9999999999                    99999999887542    21222 34678888999999999999999998


Q ss_pred             hhHhcCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          131 MSEKYGIRPS----IEHYGCLVYILGRAGRIAKAEELIKNM-------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       131 m~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      ..+...-.++    ..++..+...|...|++++|...+++.       +..+. ..++..+...+...|++++|...+++
T Consensus       213 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  292 (406)
T 3sf4_A          213 RLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLK  292 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHH
Confidence            8754221222    347888899999999999999999876       11111 56788888999999999999999999


Q ss_pred             HHHhCC--CC----cchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          199 LLELLP--DN----GGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       199 ~~~~~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..+..+  .+    ..++..+...|...|++++|.+.+++..+
T Consensus       293 a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          293 HLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            876422  11    45788899999999999999999998754

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.25  E-value=5.4e-11  Score=103.87  Aligned_cols=230  Identities=15%  Similarity=0.023  Sum_probs=173.1

Q ss_pred             ccCCChhHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-CccccccCCcHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHK----GLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEV-DVGLGMALKDVMTLTA   75 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~l~~~~~~~~   75 (352)
                      ...|++++|++.|++....    +..| ...++..+...+...|++++|...+.+..+..... +..     ....++..
T Consensus        54 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-----~~~~~~~~  128 (338)
T 3ro2_A           54 FYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKV-----GEARALYN  128 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH-----HHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCch-----HHHHHHHH
Confidence            3578999999999887542    2222 25677888889999999999999999877642111 100     22457888


Q ss_pred             HHHHHHhcCC--------------------hHHHHHHHHHHHHc----CCCCC-HhHHHHHHHHHhccCCHHHHHHHHHH
Q 048142           76 LIVVLAMCGQ--------------------GNKALEYFYEMQIR----GVKPD-AITFVGVLVACSHAGLVDERISHFNL  130 (352)
Q Consensus        76 li~~~~~~g~--------------------~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~  130 (352)
                      +...|...|+                    +++|.+.+++....    +..|. ..++..+...+...|++++|...+++
T Consensus       129 l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  208 (338)
T 3ro2_A          129 LGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQ  208 (338)
T ss_dssp             HHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            9999999999                    99999999887542    22222 34677888899999999999999998


Q ss_pred             hhHhcCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          131 MSEKYGIRPS----IEHYGCLVYILGRAGRIAKAEELIKNM----PMALD----HFVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       131 m~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      ..+...-.++    ..++..+...|...|++++|...+++.    +..++    ..++..+...+...|++++|...+++
T Consensus       209 a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  288 (338)
T 3ro2_A          209 RLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLK  288 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            8753111122    347888889999999999999999876    11112    56778888899999999999999999


Q ss_pred             HHHhCCC------CcchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          199 LLELLPD------NGGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       199 ~~~~~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      ..+..+.      ...++..+...|...|++++|.+.+++..+.
T Consensus       289 a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          289 HLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            8664221      2347788999999999999999999988754

>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=99.23  E-value=5.8e-10  Score=92.53  Aligned_cols=153  Identities=11%  Similarity=-0.044  Sum_probs=129.7

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGC  146 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~  146 (352)
                      .|...|..+...+...|++++|++.|++..+..-.++...+..+..++...|++++|...+++..+.   .| +...|..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~   81 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK---NYNLANAYIG   81 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCSHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh---CcchHHHHHH
Confidence            3557888899999999999999999999998754378888888999999999999999999999863   45 5678899


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCc-H-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC--CcchHHHHHH
Q 048142          147 LVYILGRAGRIAKAEELIKNM-PMALD-H-------FVLGGLLGACRIHDNLEAAERAAQQLLELLPD--NGGSYVILSN  215 (352)
Q Consensus       147 li~~~~~~g~~~~A~~~~~~m-~~~p~-~-------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~li~  215 (352)
                      +...|...|++++|...|++. ...|+ .       ..|..+-..+...|++++|+..|++..+..|.  +...|..+..
T Consensus        82 l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           82 KSAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHH
Confidence            999999999999999999987 22333 3       55777888899999999999999999998888  7888888888


Q ss_pred             HHhhcCCh
Q 048142          216 RYSSSRKW  223 (352)
Q Consensus       216 ~~~~~g~~  223 (352)
                      .|...|+.
T Consensus       162 ~~~~~~~~  169 (228)
T 4i17_A          162 LFYNNGAD  169 (228)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88766543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.21  E-value=4.7e-10  Score=100.74  Aligned_cols=228  Identities=13%  Similarity=0.020  Sum_probs=168.3

Q ss_pred             ccCCChhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC-CC-ccccccCCcHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGL-TGD----KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIE-VD-VGLGMALKDVMTLT   74 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~-~~~~~~l~~~~~~~   74 (352)
                      ...|++++|+..|++...... .++    ..++..+...+...|+++.|...+.+..+.... ++ ..     ....+++
T Consensus       112 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~-----~~~~~~~  186 (378)
T 3q15_A          112 FDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSI-----RTIQSLF  186 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHH-----HHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchh-----hHHHHHH
Confidence            357999999999999875311 122    457888899999999999999999988763211 00 00     2356789


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhc---CCCCChhHHHH
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIR----GVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKY---GIRPSIEHYGC  146 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---g~~p~~~~~~~  146 (352)
                      .+...|...|++++|++.|++..+.    +..+ ...++..+...+...|++++|...+++..+..   +.+....++..
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            9999999999999999999988653    2111 23467888999999999999999999887621   22224677888


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC----CC--CCc-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHHhCCCCcchHHHHHHH
Q 048142          147 LVYILGRAGRIAKAEELIKNM----PM--ALD-HFVLGGLLGACRIHDN---LEAAERAAQQLLELLPDNGGSYVILSNR  216 (352)
Q Consensus       147 li~~~~~~g~~~~A~~~~~~m----~~--~p~-~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~li~~  216 (352)
                      +...|.+.|++++|...+++.    ..  .|. ...+..+-..+...++   .++|...+++.. ..+.....+..+...
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~-~~~~~~~~~~~la~~  345 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKN-LHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCC-ChhHHHHHHHHHHHH
Confidence            999999999999999999886    11  232 4456666667777888   777777766521 122233567789999


Q ss_pred             HhhcCChHHHHHHHHHHHh
Q 048142          217 YSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       217 ~~~~g~~~~a~~~~~~m~~  235 (352)
                      |...|++++|.+.|++..+
T Consensus       346 y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          346 FESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            9999999999999988753

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.16  E-value=8.5e-10  Score=95.44  Aligned_cols=201  Identities=10%  Similarity=-0.058  Sum_probs=132.0

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-CccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCC
Q 048142           28 TMVSLLLACTHLGALEVGMWLHPYIMKKNIEV-DVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR----GVK  102 (352)
Q Consensus        28 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~  102 (352)
                      .|......+...|++++|.+.|.+..+..... +..     ....+|+.+..+|.+.|++++|+..|++..+.    |-.
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-----~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~  113 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNED-----EAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQF  113 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHH-----HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            45555667788889999988888776532110 000     12467888888999999999999888887652    111


Q ss_pred             CC-HhHHHHHHHHHhcc-CCHHHHHHHHHHhhHhcCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---c
Q 048142          103 PD-AITFVGVLVACSHA-GLVDERISHFNLMSEKYGIRPS----IEHYGCLVYILGRAGRIAKAEELIKNM-PMAL---D  172 (352)
Q Consensus       103 p~-~~t~~~ll~~~~~~-g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~  172 (352)
                      +. ..+++.+...|... |++++|...|++..+...-..+    ..+++.+...|.+.|++++|...|++. ...|   .
T Consensus       114 ~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~  193 (292)
T 1qqe_A          114 RRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRL  193 (292)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTT
T ss_pred             HHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCc
Confidence            11 34677888888885 9999998888887753111111    346778888888899999999888876 1122   2


Q ss_pred             H-----HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcc-----hHHHHHHHHh--hcCChHHHHHHHHHH
Q 048142          173 H-----FVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGG-----SYVILSNRYS--SSRKWKKVKRIRELM  233 (352)
Q Consensus       173 ~-----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~li~~~~--~~g~~~~a~~~~~~m  233 (352)
                      .     ..|..+..++...|++++|...+++..+..|....     .+..++.+|.  ..+++++|.+.|+.+
T Consensus       194 ~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~  266 (292)
T 1qqe_A          194 SQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (292)
T ss_dssp             TGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             ccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence            1     25667777788888999999988888775554332     2344555553  456677777777554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.15  E-value=3.4e-08  Score=91.77  Aligned_cols=210  Identities=13%  Similarity=0.017  Sum_probs=123.8

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTH----LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVV   79 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~   79 (352)
                      .+++++|+..|++....|   +...+..|-..|..    .++.++|.+.|++..+.|.            ...+..|...
T Consensus        56 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~------------~~a~~~Lg~~  120 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGL------------PQAQQNLGVM  120 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC------------HHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC------------HHHHHHHHHH
Confidence            467777777777776654   45566666666666    6777777777777766542            2345556666


Q ss_pred             HHh----cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc----cCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           80 LAM----CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSH----AGLVDERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        80 ~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      |..    .+++++|++.|++..+.|   +...+..|...|..    .++.++|...|++..+. |   +...+..|...|
T Consensus       121 y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~-~---~~~a~~~Lg~~y  193 (490)
T 2xm6_A          121 YHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ-G---NVWSCNQLGYMY  193 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHH
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHH
Confidence            666    567777777777766654   34455555555554    56667777777666553 3   455556666666


Q ss_pred             HH----cCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh----
Q 048142          152 GR----AGRIAKAEELIKNMPMALDHFVLGGLLGACRI----HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS----  219 (352)
Q Consensus       152 ~~----~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~----  219 (352)
                      ..    .++.++|...|++.-...+...+..+...+..    .++.++|...|++..+.  .++..+..+...|..    
T Consensus       194 ~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~--~~~~a~~~lg~~y~~g~~~  271 (490)
T 2xm6_A          194 SRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQ--GNSIAQFRLGYILEQGLAG  271 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTT--TCHHHHHHHHHHHHHTTTS
T ss_pred             hcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC--CCHHHHHHHHHHHHCCCCC
Confidence            65    56666666666655212244455555555543    55666666666655443  223344445555544    


Q ss_pred             cCChHHHHHHHHHHHhcC
Q 048142          220 SRKWKKVKRIRELMAERN  237 (352)
Q Consensus       220 ~g~~~~a~~~~~~m~~~g  237 (352)
                      .++.++|.+.|++..+.|
T Consensus       272 ~~d~~~A~~~~~~a~~~~  289 (490)
T 2xm6_A          272 AKEPLKALEWYRKSAEQG  289 (490)
T ss_dssp             SCCHHHHHHHHHHHHTTT
T ss_pred             CCCHHHHHHHHHHHHHcC
Confidence            555666666666555443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.15  E-value=3.6e-08  Score=91.61  Aligned_cols=210  Identities=9%  Similarity=-0.049  Sum_probs=139.7

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTH----LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVV   79 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~   79 (352)
                      .+++++|++.|++....|   +...+..|-..|..    .+++++|...|++..+.|.            ...+..|...
T Consensus        92 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~------------~~a~~~Lg~~  156 (490)
T 2xm6_A           92 PQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGR------------DSGQQSMGDA  156 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC------------HHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC------------HHHHHHHHHH
Confidence            567888888888877755   55666667777766    6788888888888777553            2456666666


Q ss_pred             HHh----cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc----cCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           80 LAM----CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSH----AGLVDERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        80 ~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      |..    .+++++|++.|++..+.|   +..++..+...|..    .++.++|..+|++..+. |   +...+..+...|
T Consensus       157 y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~y  229 (490)
T 2xm6_A          157 YFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATS-G---DELGQLHLADMY  229 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHH
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHC-C---CHHHHHHHHHHH
Confidence            766    677888888887777654   55666666666665    67777777777777653 3   455566666666


Q ss_pred             HH----cCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhc---
Q 048142          152 GR----AGRIAKAEELIKNMPMALDHFVLGGLLGACRI----HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSS---  220 (352)
Q Consensus       152 ~~----~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~---  220 (352)
                      ..    .+++++|...|++.-...+...+..+-..+..    .++.++|...|++..+.  .++..+..|...|...   
T Consensus       230 ~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~--~~~~a~~~Lg~~y~~~~~g  307 (490)
T 2xm6_A          230 YFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQ--GNSDGQYYLAHLYDKGAEG  307 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTT--TCHHHHHHHHHHHHHCBTT
T ss_pred             HcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHc--CCHHHHHHHHHHHHcCCCC
Confidence            65    66777777777765222345555555555555    67777777777776543  2334556666666665   


Q ss_pred             --CChHHHHHHHHHHHhcC
Q 048142          221 --RKWKKVKRIRELMAERN  237 (352)
Q Consensus       221 --g~~~~a~~~~~~m~~~g  237 (352)
                        +++++|.+.|++..+.|
T Consensus       308 ~~~~~~~A~~~~~~a~~~~  326 (490)
T 2xm6_A          308 VAKNREQAISWYTKSAEQG  326 (490)
T ss_dssp             BCCCHHHHHHHHHHHHHTT
T ss_pred             CcCCHHHHHHHHHHHHhcC
Confidence              67777777777666654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.14  E-value=2.6e-09  Score=95.93  Aligned_cols=228  Identities=12%  Similarity=-0.037  Sum_probs=161.2

Q ss_pred             cCCChhHHHHHHHHHHHC--CCCC--CHHHHHHHHHHHh--ccCChHHHH-----------HHHHHHHHcCCCCCccccc
Q 048142            3 EDSACEEALLLFREVQHK--GLTG--DKVTMVSLLLACT--HLGALEVGM-----------WLHPYIMKKNIEVDVGLGM   65 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~--g~~p--~~~t~~~li~~~~--~~g~~~~a~-----------~~~~~m~~~g~~~~~~~~~   65 (352)
                      +.+++++|..++++....  .+..  +...|..++..-.  ..+.++.+.           +.++.+.......+..   
T Consensus        24 ~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~~~~~~~---  100 (383)
T 3ulq_A           24 RRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGL---  100 (383)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHTHHHHHH---
T ss_pred             HHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcCCCchhH---
Confidence            578999999999998663  2323  3444455544321  223344444           6666655432110000   


Q ss_pred             cCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC
Q 048142           66 ALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR----GVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS  140 (352)
Q Consensus        66 ~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~  140 (352)
                        .....|......+...|++++|++.|++..+.    +-.| ...++..+...+...|++++|...+.+..+...-.++
T Consensus       101 --l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~  178 (383)
T 3ulq_A          101 --LEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEA  178 (383)
T ss_dssp             --HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCST
T ss_pred             --HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcc
Confidence              01112233566778899999999999998763    1122 2457888999999999999999999988764322222


Q ss_pred             -----hhHHHHHHHHHHHcCCHHHHHHHHHhC----CCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----h
Q 048142          141 -----IEHYGCLVYILGRAGRIAKAEELIKNM----PMALD----HFVLGGLLGACRIHDNLEAAERAAQQLLE-----L  202 (352)
Q Consensus       141 -----~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~  202 (352)
                           ..+++.+...|...|++++|...|++.    +..++    ..++..+...+...|++++|...+++..+     .
T Consensus       179 ~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~  258 (383)
T 3ulq_A          179 YNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESN  258 (383)
T ss_dssp             THHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             chHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhc
Confidence                 457888889999999999999999876    11122    35788899999999999999999999876     3


Q ss_pred             C-CCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          203 L-PDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       203 ~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      . |....++..+...|.+.|++++|.+.+++..+
T Consensus       259 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  292 (383)
T 3ulq_A          259 ILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMA  292 (383)
T ss_dssp             CGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4 55567789999999999999999999998764

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.13  E-value=3.1e-09  Score=97.92  Aligned_cols=227  Identities=12%  Similarity=0.015  Sum_probs=104.2

Q ss_pred             CCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHH---HhccCChHHHHHHHHHHHHcCCCCCccccccC------------
Q 048142            4 DSACEEALLLFREVQHKGLTGD-KVTMVSLLLA---CTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL------------   67 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~-~~t~~~li~~---~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l------------   67 (352)
                      .+++++|++.|++....  .|+ ...+..+..+   +...++.++|.+.+++..+..... ......+            
T Consensus       151 ~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~-~~~~~~l~~~~~~~~~~~~  227 (472)
T 4g1t_A          151 GNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDN-QYLKVLLALKLHKMREEGE  227 (472)
T ss_dssp             TTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSC-HHHHHHHHHHHHHCC----
T ss_pred             cccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcc-hHHHHHHHHHHHHHHhhhh
Confidence            35677888888777663  343 3333333322   344566666666666555543210 0000000            


Q ss_pred             -----------------CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhc------------
Q 048142           68 -----------------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSH------------  117 (352)
Q Consensus        68 -----------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~------------  117 (352)
                                       .+...++.+...|.+.|++++|++.|++..+.  .| +..++..+..+|..            
T Consensus       228 ~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~y~~~~~~~~~~~~~~  305 (472)
T 4g1t_A          228 EEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLHCQIGCCYRAKVFQVMNLRENG  305 (472)
T ss_dssp             --CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence                             23344555555555555555555555555543  22 23333333333221            


Q ss_pred             -------cCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCcHH----HHHHHHH-HHH
Q 048142          118 -------AGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMALDHF----VLGGLLG-ACR  184 (352)
Q Consensus       118 -------~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~----~~~~li~-~~~  184 (352)
                             .+..+.|...++...+.  -+.+...+..+...|...|++++|...|++. ...|+..    .+..+.. ...
T Consensus       306 ~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~  383 (472)
T 4g1t_A          306 MYGKRKLLELIGHAVAHLKKADEA--NDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLY  383 (472)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHH--CTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhhc--CCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHH
Confidence                   11233444444444432  1123445556666677777777777777664 2233321    1222221 233


Q ss_pred             hcCCHHHHHHHHHHHHH------------------------hCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          185 IHDNLEAAERAAQQLLE------------------------LLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       185 ~~g~~~~a~~~~~~~~~------------------------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ..|+.++|+..|++..+                        ..|.++.+|..+...|...|++++|.+.|++..+.|
T Consensus       384 ~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          384 QMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             TSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             HCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            55666766666655433                        245566667777777777777777777777665543

>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=99.12  E-value=4.2e-09  Score=78.68  Aligned_cols=127  Identities=19%  Similarity=0.086  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      .|..+...+...|++++|..+|+++.+.. +.+..++..+...+...|++++|...++++.+. . +.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH-C-CCchHHHHHHHHHH
Confidence            45666666666777777777777666542 224455555666666666666666666666543 1 22344444455555


Q ss_pred             HHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048142          152 GRAGRIAKAEELIKNM-PMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       152 ~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      ...|++++|...++++ ... .+..+|..+...+...|++++|...++++.+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            5555555555555443 111 1234444444444445555555554444443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.12  E-value=6.5e-09  Score=95.79  Aligned_cols=229  Identities=13%  Similarity=-0.020  Sum_probs=135.9

Q ss_pred             ccCCChhHHHHHHHHHHHC-------CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcC---CCCCccccccCCcH
Q 048142            2 VEDSACEEALLLFREVQHK-------GLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKN---IEVDVGLGMALKDV   70 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~-------g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~~~~~~~~~l~~~   70 (352)
                      ...|++++|++.|++....       ...| ...+|+.+..+|...|++++|...+++..+..   ..+...     ...
T Consensus        62 ~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~-----~~~  136 (472)
T 4g1t_A           62 HLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRI-----ESP  136 (472)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCC-----CCH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccch-----hhH
Confidence            3579999999999876541       1233 46789999999999999999999999876531   111000     223


Q ss_pred             HHHHHHHHHHHh--cCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHH---HhccC-------------------------
Q 048142           71 MTLTALIVVLAM--CGQGNKALEYFYEMQIRGVKPD-AITFVGVLVA---CSHAG-------------------------  119 (352)
Q Consensus        71 ~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~---~~~~g-------------------------  119 (352)
                      .+|+.+..++..  .+++++|++.|++..+.  .|+ ...+..+..+   +...+                         
T Consensus       137 ~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~~~~~  214 (472)
T 4g1t_A          137 ELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQYLKVL  214 (472)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHHHHHH
T ss_pred             HHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchHHHHH
Confidence            455555555544  34677888888777653  333 2222222222   12223                         


Q ss_pred             -------------CHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHH
Q 048142          120 -------------LVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACR  184 (352)
Q Consensus       120 -------------~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~  184 (352)
                                   +.++|...+++....  .+.+...+..+...|.+.|++++|...+++. ...|+ ..+|..+...|.
T Consensus       215 l~~~~~~~~~~~~~~~~a~~~~~~al~~--~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~  292 (472)
T 4g1t_A          215 LALKLHKMREEGEEEGEGEKLVEEALEK--APGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYR  292 (472)
T ss_dssp             HHHHHHHCC------CHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHh--CccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Confidence                         344455555544432  1224455566666666666666666666665 22333 444444433332


Q ss_pred             h-------------------cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCC
Q 048142          185 I-------------------HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       185 ~-------------------~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      .                   .+..+.|...+++..+..|.+..++..+...|...|++++|.+.|++..+....
T Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~  366 (472)
T 4g1t_A          293 AKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELT  366 (472)
T ss_dssp             HHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCC
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCC
Confidence            1                   122455666666666666777777777888888888888888888887765543

>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=99.12  E-value=3.5e-09  Score=79.12  Aligned_cols=129  Identities=19%  Similarity=0.129  Sum_probs=112.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCcHHHHHHHHHHHH
Q 048142          107 TFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PM-ALDHFVLGGLLGACR  184 (352)
Q Consensus       107 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~li~~~~  184 (352)
                      .|..+...+...|++++|..+++++.+. . +.+...+..+...+...|++++|..+++++ .. ..+...|..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc-C-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHH
Confidence            5677888899999999999999999874 2 336778888999999999999999999987 22 235778888999999


Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          185 IHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       185 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ..|++++|.+.++++.+..|.+..++..+...+...|++++|.+.++++.+..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             HhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            99999999999999999888888899999999999999999999999987643

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.11  E-value=1.8e-08  Score=90.02  Aligned_cols=264  Identities=14%  Similarity=-0.016  Sum_probs=179.9

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHH----HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKV----TMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIV   78 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~----t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~   78 (352)
                      ..|++++|...+++.....-..+..    +++.+...+...|++++|...+.+..+........    .....+++.+..
T Consensus        26 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~----~~~~~~~~~la~  101 (373)
T 1hz4_A           26 NDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVW----HYALWSLIQQSE  101 (373)
T ss_dssp             HTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH----HHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcH----HHHHHHHHHHHH
Confidence            4799999999999987753222222    45667778889999999999999887632111000    012244677888


Q ss_pred             HHHhcCChHHHHHHHHHHHHc----CCC--CC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCC--C--ChhHHHHH
Q 048142           79 VLAMCGQGNKALEYFYEMQIR----GVK--PD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIR--P--SIEHYGCL  147 (352)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~~----g~~--p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~--p--~~~~~~~l  147 (352)
                      .+...|++++|.+.+++....    +..  |. ..++..+...+...|++++|...+++.... .-.  +  ...++..+
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~~~~~l  180 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEV-LSSYQPQQQLQCLAML  180 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTSCGGGGHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH-hhccCcHHHHHHHHHH
Confidence            899999999999999988653    222  32 345667888889999999999999988764 211  1  23567788


Q ss_pred             HHHHHHcCCHHHHHHHHHhC----CCCCcHHHHH-----HHHHHHHhcCCHHHHHHHHHHHHHhCCCC----cchHHHHH
Q 048142          148 VYILGRAGRIAKAEELIKNM----PMALDHFVLG-----GLLGACRIHDNLEAAERAAQQLLELLPDN----GGSYVILS  214 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~-----~li~~~~~~g~~~~a~~~~~~~~~~~~~~----~~~~~~li  214 (352)
                      ...+...|++++|...+++.    +...+...|.     ..+..+...|+.++|...+++.....+.+    ...+..+.
T Consensus       181 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la  260 (373)
T 1hz4_A          181 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  260 (373)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHH
Confidence            88899999999999999876    2111112222     23344778999999999998876644332    12456788


Q ss_pred             HHHhhcCChHHHHHHHHHHHhc----CCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCH
Q 048142          215 NRYSSSRKWKKVKRIRELMAER----NIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       215 ~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                      ..+...|++++|...+++....    |..++..   .....+...+...|..++|...+.....
T Consensus       261 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~---~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          261 RAQILLGEFEPAEIVLEELNENARSLRLMSDLN---RNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH---HHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHH---HHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            8899999999999999987542    2111100   0111123445678888888888765443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.09  E-value=1.2e-08  Score=86.48  Aligned_cols=174  Identities=11%  Similarity=-0.015  Sum_probs=130.2

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGV-KP  103 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p  103 (352)
                      +...+..+...+.+.|++++|...|+++.+..... .      .....+..+..+|.+.|++++|+..|++..+..- .|
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~-~------~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~   86 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTH-E------WAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDP   86 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCS-T------THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCT
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCC-c------chHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCc
Confidence            56777788888899999999999999998865321 0      1156788899999999999999999999988521 12


Q ss_pred             C-HhHHHHHHHHHhc--------cCCHHHHHHHHHHhhHhcCCCC-ChhHH-----------------HHHHHHHHHcCC
Q 048142          104 D-AITFVGVLVACSH--------AGLVDERISHFNLMSEKYGIRP-SIEHY-----------------GCLVYILGRAGR  156 (352)
Q Consensus       104 ~-~~t~~~ll~~~~~--------~g~~~~a~~~~~~m~~~~g~~p-~~~~~-----------------~~li~~~~~~g~  156 (352)
                      + ..++..+..++..        .|++++|...|++..+.   .| +....                 ..+...|.+.|+
T Consensus        87 ~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~  163 (261)
T 3qky_A           87 RVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR---YPNHELVDDATQKIRELRAKLARKQYEAARLYERREL  163 (261)
T ss_dssp             THHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH---CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH---CcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence            2 3456677777877        99999999999999875   33 22333                 445677888899


Q ss_pred             HHHHHHHHHhC----CCCC-cHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHhCCCCcc
Q 048142          157 IAKAEELIKNM----PMAL-DHFVLGGLLGACRIH----------DNLEAAERAAQQLLELLPDNGG  208 (352)
Q Consensus       157 ~~~A~~~~~~m----~~~p-~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~  208 (352)
                      +++|...|+++    |..+ ....+..+..++...          |++++|...++++.+..|.+..
T Consensus       164 ~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  230 (261)
T 3qky_A          164 YEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPL  230 (261)
T ss_dssp             HHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTH
T ss_pred             HHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChH
Confidence            99999888876    3222 245666666777655          7888899999988888777653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.07  E-value=2.4e-08  Score=89.09  Aligned_cols=228  Identities=11%  Similarity=0.006  Sum_probs=162.1

Q ss_pred             cCCChhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHcCC---CCCccccccCCcHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGL-TGD----KVTMVSLLLACTHLGALEVGMWLHPYIMKKNI---EVDVGLGMALKDVMTLT   74 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~---~~~~~~~~~l~~~~~~~   74 (352)
                      ..|++++|.+.+++...... .++    ..++..+...+...|++++|...+++..+...   .++..     .....+.
T Consensus        65 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~-----~~~~~~~  139 (373)
T 1hz4_A           65 CKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLP-----MHEFLVR  139 (373)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTST-----HHHHHHH
T ss_pred             hcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCc-----HHHHHHH
Confidence            46899999999998765210 112    23356677788999999999999998876321   10000     2345677


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCC--C--CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH-----
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIRGVK--P--DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG-----  145 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~-----  145 (352)
                      .+...|...|++++|...+++.....-.  |  ...++..+...+...|++++|...+++......-......+.     
T Consensus       140 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~  219 (373)
T 1hz4_A          140 IRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANK  219 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHH
Confidence            7889999999999999999998764221  1  234677888889999999999999998875411111111222     


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCC-----cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-----CCc-chHHHH
Q 048142          146 CLVYILGRAGRIAKAEELIKNM-PMAL-----DHFVLGGLLGACRIHDNLEAAERAAQQLLELLP-----DNG-GSYVIL  213 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m-~~~p-----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-----~~~-~~~~~l  213 (352)
                      ..+..+...|++++|...+++. ...|     ....+..+...+...|++++|...+++..+..+     ++. ..+..+
T Consensus       220 ~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~l  299 (373)
T 1hz4_A          220 VRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLL  299 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHH
Confidence            2334577999999999999987 2112     134567778889999999999999999765311     122 356677


Q ss_pred             HHHHhhcCChHHHHHHHHHHHh
Q 048142          214 SNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       214 i~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..++...|+.++|...+++...
T Consensus       300 a~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          300 NQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHH
Confidence            8889999999999999998764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.06  E-value=1.6e-08  Score=94.94  Aligned_cols=186  Identities=9%  Similarity=0.001  Sum_probs=149.2

Q ss_pred             CCChh-------HHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCc-HHHHH
Q 048142            4 DSACE-------EALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKD-VMTLT   74 (352)
Q Consensus         4 ~g~~~-------~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~-~~~~~   74 (352)
                      .|+++       +|..+|++.... +.| +...|..++..+.+.|++++|..+|+++.+...          .+ ...|.
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~-~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~  360 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIED----------IDPTLVYI  360 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTT-TCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSS----------SCHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccc----------cCchHHHH
Confidence            58876       899999998863 345 578899999999999999999999999998532          22 25899


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHH-HHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHH
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLV-ACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILG  152 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~-~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~  152 (352)
                      .++..+.+.|++++|.++|++..+.  .|+ ...|..... .+...|+.++|..+|+...+..  +-++..|..++..+.
T Consensus       361 ~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~  436 (530)
T 2ooe_A          361 QYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLS  436 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999875  333 233332222 2336899999999999988752  236788999999999


Q ss_pred             HcCCHHHHHHHHHhC----CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          153 RAGRIAKAEELIKNM----PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       153 ~~g~~~~A~~~~~~m----~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                      +.|+.++|..+|++.    +..|+  ...|...+......|+.+.+..+++++.+..|
T Consensus       437 ~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p  494 (530)
T 2ooe_A          437 HLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  494 (530)
T ss_dssp             TTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTH
T ss_pred             hCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            999999999999987    33443  56899999989999999999999999988765

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.06  E-value=2.9e-09  Score=92.12  Aligned_cols=198  Identities=10%  Similarity=-0.077  Sum_probs=140.1

Q ss_pred             ccCCChhHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHK----GLTGD-KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTAL   76 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~l   76 (352)
                      ...|++++|++.|++....    |-.++ ..+|+.+...|.+.|++++|...+++..+........    ..-..+|+.+
T Consensus        48 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~----~~~a~~~~~l  123 (292)
T 1qqe_A           48 RLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQF----RRGANFKFEL  123 (292)
T ss_dssp             HHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH----HHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCH----HHHHHHHHHH
Confidence            3568899999999877552    32222 5689999999999999999999999887642110000    0114578999


Q ss_pred             HHHHHhc-CChHHHHHHHHHHHHcC----CCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-Ch-----hHH
Q 048142           77 IVVLAMC-GQGNKALEYFYEMQIRG----VKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SI-----EHY  144 (352)
Q Consensus        77 i~~~~~~-g~~~~A~~~~~~m~~~g----~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~-----~~~  144 (352)
                      ...|... |++++|++.|++..+..    ..+. ..++..+...+.+.|++++|...|++..+. .... ..     ..|
T Consensus       124 g~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~~~~~  202 (292)
T 1qqe_A          124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS-SMGNRLSQWSLKDYF  202 (292)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TSSCTTTGGGHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH-HhcCCcccHHHHHHH
Confidence            9999996 99999999999987631    1111 356888999999999999999999999874 2221 21     156


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCCcHH------HHHHHHHHHH--hcCCHHHHHHHHHHHHHhCC
Q 048142          145 GCLVYILGRAGRIAKAEELIKNM-PMALDHF------VLGGLLGACR--IHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~------~~~~li~~~~--~~g~~~~a~~~~~~~~~~~~  204 (352)
                      ..+..+|...|++++|...|++. ...|+..      .+..++.++.  ..+++++|+..|+.+....|
T Consensus       203 ~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~  271 (292)
T 1qqe_A          203 LKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHH
Confidence            77888899999999999999997 4445422      2444555554  45668888888776655444

>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=99.06  E-value=2.1e-08  Score=100.68  Aligned_cols=95  Identities=8%  Similarity=0.075  Sum_probs=46.1

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC
Q 048142            5 SACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG   84 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g   84 (352)
                      |++++|.++.++.      -+..+|..+..++...|++++|.+.|.+.               .|...|..++.++.+.|
T Consensus      1090 ~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA---------------dD~say~eVa~~~~~lG 1148 (1630)
T 1xi4_A         1090 GNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA---------------DDPSSYMEVVQAANTSG 1148 (1630)
T ss_pred             hhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc---------------CChHHHHHHHHHHHHcC
Confidence            4455555554433      12445555555555566666655555332               22334555555555556


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHH
Q 048142           85 QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVD  122 (352)
Q Consensus        85 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  122 (352)
                      ++++|++.|....+..  ++....+.+..+|++.++++
T Consensus      1149 kyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rle 1184 (1630)
T 1xi4_A         1149 NWEELVKYLQMARKKA--RESYVETELIFALAKTNRLA 1184 (1630)
T ss_pred             CHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHH
Confidence            6666555555444322  22222223444444444444

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.04  E-value=1.2e-08  Score=87.80  Aligned_cols=178  Identities=11%  Similarity=-0.030  Sum_probs=102.9

Q ss_pred             HHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhccCCHHH
Q 048142           45 GMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSHAGLVDE  123 (352)
Q Consensus        45 a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~  123 (352)
                      |...+++..+.+.          ++..++..+..++...|++++|++++.+-...|-.+ +...+..++..+.+.|+.+.
T Consensus        85 a~~~l~~l~~~~~----------~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~  154 (310)
T 3mv2_B           85 NIEELENLLKDKQ----------NSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVST  154 (310)
T ss_dssp             CCHHHHHTTTTSC----------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhcCC----------CCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHH
Confidence            4555555554431          333444566666777777777777777665544312 44556666777777777777


Q ss_pred             HHHHHHHhhHhcCCCC-----ChhHHHHHHHHH--HHcC--CHHHHHHHHHhC-CCCCcHHHHHHHHHHHHhcCCHHHHH
Q 048142          124 RISHFNLMSEKYGIRP-----SIEHYGCLVYIL--GRAG--RIAKAEELIKNM-PMALDHFVLGGLLGACRIHDNLEAAE  193 (352)
Q Consensus       124 a~~~~~~m~~~~g~~p-----~~~~~~~li~~~--~~~g--~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~~~~a~  193 (352)
                      |.+.+++|.+.   .|     +..+...|..++  ...|  ++.+|..+|+++ ...|+..+-..++.++...|++++|+
T Consensus       155 A~k~l~~~~~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe  231 (310)
T 3mv2_B          155 ASTIFDNYTNA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQ  231 (310)
T ss_dssp             HHHHHHHHHHH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHhc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHH
Confidence            77777777543   44     234444444442  2223  677777777776 22344333334444666777777777


Q ss_pred             HHHHHHHHh----------CCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          194 RAAQQLLEL----------LPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       194 ~~~~~~~~~----------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      +.++.+.+.          .|.++.+...+|......|+  +|.++++++++..
T Consensus       232 ~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          232 GIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            777765443          35566666555555555565  6667777666543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.03  E-value=1.6e-09  Score=97.17  Aligned_cols=230  Identities=15%  Similarity=-0.001  Sum_probs=159.5

Q ss_pred             cCCChhHHHHHHHHHHHC--CCC--CCHHHHHHHHHHH--hccCChHHHH---------HHHHHHHHcCCCCCccccccC
Q 048142            3 EDSACEEALLLFREVQHK--GLT--GDKVTMVSLLLAC--THLGALEVGM---------WLHPYIMKKNIEVDVGLGMAL   67 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~--g~~--p~~~t~~~li~~~--~~~g~~~~a~---------~~~~~m~~~g~~~~~~~~~~l   67 (352)
                      +.+++++|..++++....  .+.  ++...|..++..-  .-.+.++.+.         +.++.+.......+..     
T Consensus        24 ~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~-----   98 (378)
T 3q15_A           24 RQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLETIETPQKKLTGL-----   98 (378)
T ss_dssp             HTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHHHHGGGHHHHHH-----
T ss_pred             HHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHHHhccCCCCccH-----
Confidence            578899999999987652  222  3344445555431  1122222223         5555554322110000     


Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCC----HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC---
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRG-VKPD----AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP---  139 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p---  139 (352)
                      .....|......+...|++++|+..|++..+.- -.+|    ..++..+...+...|+++.|...+.+..+.+.-.+   
T Consensus        99 l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~  178 (378)
T 3q15_A           99 LKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYS  178 (378)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCH
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCch
Confidence            011123344556778999999999999987531 1122    45678888999999999999999998876432222   


Q ss_pred             --ChhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----hCC
Q 048142          140 --SIEHYGCLVYILGRAGRIAKAEELIKNM-------PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLE-----LLP  204 (352)
Q Consensus       140 --~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~  204 (352)
                        ...+++.+...|...|++++|.+.|++.       +..+ ...++..+...+...|++++|...+++..+     ..|
T Consensus       179 ~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~  258 (378)
T 3q15_A          179 IRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPD  258 (378)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGG
T ss_pred             hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCCh
Confidence              2457888899999999999999998876       2111 145788888999999999999999999877     556


Q ss_pred             CCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          205 DNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       205 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ....++..+...|.+.|++++|.+.+++..+..
T Consensus       259 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  291 (378)
T 3q15_A          259 LLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHI  291 (378)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            567788899999999999999999999987643

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.03  E-value=3e-08  Score=83.92  Aligned_cols=168  Identities=14%  Similarity=0.065  Sum_probs=133.5

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hh
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD----AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IE  142 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~  142 (352)
                      .+...+-.+...+.+.|++++|+..|++..+..  |+    ...+..+..++.+.|++++|...|++..+.+.-.|. ..
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            456677788888999999999999999998853  33    567888889999999999999999999876322232 45


Q ss_pred             HHHHHHHHHHH--------cCCHHHHHHHHHhC-CCCCc-HHHH-----------------HHHHHHHHhcCCHHHHHHH
Q 048142          143 HYGCLVYILGR--------AGRIAKAEELIKNM-PMALD-HFVL-----------------GGLLGACRIHDNLEAAERA  195 (352)
Q Consensus       143 ~~~~li~~~~~--------~g~~~~A~~~~~~m-~~~p~-~~~~-----------------~~li~~~~~~g~~~~a~~~  195 (352)
                      .+..+..+|.+        .|++++|...|+++ ...|+ ...+                 ..+...+...|++++|+..
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            67778888888        99999999999987 22232 2222                 4556788999999999999


Q ss_pred             HHHHHHhCCCCc---chHHHHHHHHhhc----------CChHHHHHHHHHHHhcC
Q 048142          196 AQQLLELLPDNG---GSYVILSNRYSSS----------RKWKKVKRIRELMAERN  237 (352)
Q Consensus       196 ~~~~~~~~~~~~---~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~g  237 (352)
                      |+++.+..|.+.   ..+..+..+|...          |++++|...|+++.+..
T Consensus       171 ~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          171 YEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            999998877644   4677788888766          89999999999988754

>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=99.02  E-value=2.6e-08  Score=96.41  Aligned_cols=169  Identities=12%  Similarity=-0.015  Sum_probs=138.0

Q ss_pred             cCCChhHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHH
Q 048142            3 EDSACEEALLLFREVQ--------HKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLT   74 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~--------~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~   74 (352)
                      ..|++++|++.|++..        .. .+.+...+..+..++.+.|++++|.+.+++..+...          .+...|.
T Consensus       403 ~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p----------~~~~a~~  471 (681)
T 2pzi_A          403 VLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVG----------WRWRLVW  471 (681)
T ss_dssp             TTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC----------CCHHHHH
T ss_pred             cccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc----------chHHHHH
Confidence            5689999999999987        32 233567888889999999999999999999988654          4667899


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHH
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILG  152 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~  152 (352)
                      .+..+|.+.|++++|++.|++..+.  .| +...|..+..++.+.|++++ ...|++..+.   .| +...|..+..+|.
T Consensus       472 ~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~---~P~~~~a~~~lg~~~~  545 (681)
T 2pzi_A          472 YRAVAELLTGDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWST---NDGVISAAFGLARARS  545 (681)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH---CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh---CCchHHHHHHHHHHHH
Confidence            9999999999999999999999885  34 46778889999999999999 9999998864   44 6778899999999


Q ss_pred             HcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCC
Q 048142          153 RAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDN  188 (352)
Q Consensus       153 ~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~  188 (352)
                      +.|++++|.+.|++. ...|+ ...|..+..++...++
T Consensus       546 ~~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          546 AEGDRVGAVRTLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTTCHHHHHHHHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HcCCHHHHHHHHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            999999999999998 56676 6677777777766665

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.00  E-value=2.9e-08  Score=85.29  Aligned_cols=143  Identities=12%  Similarity=0.039  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCC-CCChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142           89 ALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGI-RPSIEHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus        89 A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      |+..|++....+ .++..++..+..++...|++++|++++.+.... +- .-+...+..++..|.+.|+.+.|.+.+++|
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~-~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDN-DEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhcc-CCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            555555555443 344444445555566666666666666555322 11 124455555566666666666666666655


Q ss_pred             -CCCC-----cHHHHHHHHHHH--HhcC--CHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          168 -PMAL-----DHFVLGGLLGAC--RIHD--NLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       168 -~~~p-----~~~~~~~li~~~--~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                       ...|     +..+...|..++  ...|  +...|..+|+++.+..| +..+-..+++++.+.|++++|.+.++.+.
T Consensus       163 ~~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p-~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          163 TNAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFP-TWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSC-SHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HhcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             2334     233333344331  1122  56666666666544333 21122333335566666666666665543

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.00  E-value=2.8e-08  Score=86.51  Aligned_cols=220  Identities=11%  Similarity=0.026  Sum_probs=154.1

Q ss_pred             cCCChhHHHHHHHHHHHC------CCCCCH----HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHH
Q 048142            3 EDSACEEALLLFREVQHK------GLTGDK----VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMT   72 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~------g~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~   72 (352)
                      ..|++++|.+++++..+.      +..++.    ..|......|...|++++|...|.+..+........    ..-..+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~----~~~a~~   78 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSL----FHAAKA   78 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH----HHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCH----HHHHHH
Confidence            357888999999877652      113442    367777888899999999999999877642111000    012457


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCC---C-ChhH
Q 048142           73 LTALIVVLAMCGQGNKALEYFYEMQIR----GVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIR---P-SIEH  143 (352)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~---p-~~~~  143 (352)
                      |+.+...|.+.|++++|+..|++..+.    |-.+ -..++..+...|.. |++++|...|++..+...-.   + ...+
T Consensus        79 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~  157 (307)
T 2ifu_A           79 FEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAEL  157 (307)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHH
Confidence            899999999999999999999987643    2111 13567888888888 99999999999877532111   1 1467


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcch-----H
Q 048142          144 YGCLVYILGRAGRIAKAEELIKNM-------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGS-----Y  210 (352)
Q Consensus       144 ~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-----~  210 (352)
                      ++.+...|.+.|++++|...|++.       +..+. ...+..+...+...|++++|...|++.. ..|....+     .
T Consensus       158 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l  236 (307)
T 2ifu_A          158 IGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAAL  236 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHH
Confidence            888899999999999999999886       11112 2366667777888899999999999988 66543322     3


Q ss_pred             HHHHHHHhhcCChHHHHHH
Q 048142          211 VILSNRYSSSRKWKKVKRI  229 (352)
Q Consensus       211 ~~li~~~~~~g~~~~a~~~  229 (352)
                      ..++.++ ..|+.+.+.++
T Consensus       237 ~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          237 EDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHH-HhcCHHHHHHH
Confidence            4455555 56776665553

>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=99.00  E-value=3e-09  Score=90.46  Aligned_cols=230  Identities=13%  Similarity=0.044  Sum_probs=149.0

Q ss_pred             hccCChHHHHHHHHHHHHcC---CCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCC-CHh
Q 048142           37 THLGALEVGMWLHPYIMKKN---IEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR------GVKP-DAI  106 (352)
Q Consensus        37 ~~~g~~~~a~~~~~~m~~~g---~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~  106 (352)
                      ...|++++|...+++..+.-   ..++..     ....+|..+...|...|++++|+..|++..+.      +-.| ...
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   86 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHP-----DVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAA   86 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSH-----HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCH-----HHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHH
Confidence            46778888888887766521   111110     45678999999999999999999999998764      2233 356


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhHhc-----CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-C--------CCC
Q 048142          107 TFVGVLVACSHAGLVDERISHFNLMSEKY-----GIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-P--------MAL  171 (352)
Q Consensus       107 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~--------~~p  171 (352)
                      ++..+...+...|++++|...+.+..+..     .-.| ....+..+...|...|++++|...+++. .        ..|
T Consensus        87 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  166 (283)
T 3edt_B           87 TLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDP  166 (283)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            78899999999999999999999887641     1123 4677888999999999999999999876 1        133


Q ss_pred             c-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---------CCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh-cCCCC
Q 048142          172 D-HFVLGGLLGACRIHDNLEAAERAAQQLLEL---------LPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE-RNIKK  240 (352)
Q Consensus       172 ~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p  240 (352)
                      + ..++..+...+...|++++|...+++..+.         .+.....|..+...+...+....+..+...... ....+
T Consensus       167 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (283)
T 3edt_B          167 NVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV  246 (283)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC
Confidence            3 567888889999999999999999998653         233444555555444444443333332221111 11111


Q ss_pred             CCceeEEEEcceeehhhhcCcccCchhhhhc
Q 048142          241 PPGCILIEVDGVVHEFVKAGFVPNKSEVLFD  271 (352)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~  271 (352)
                      +..........+...+...|..++|..++..
T Consensus       247 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  277 (283)
T 3edt_B          247 DSPTVNTTLRSLGALYRRQGKLEAAHTLEDC  277 (283)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            1111111122244445677777777776653

>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=98.99  E-value=4.4e-08  Score=98.41  Aligned_cols=226  Identities=15%  Similarity=0.214  Sum_probs=167.6

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|.+++|..+|++..     -.....+.++.   ..+++++|.++.++.               .+..+|..+..++.
T Consensus      1060 i~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv---------------n~p~vWsqLAKAql 1116 (1630)
T 1xi4_A         1060 ISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC---------------NEPAVWSQLAKAQL 1116 (1630)
T ss_pred             HhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc---------------CCHHHHHHHHHHHH
Confidence            35789999999998752     12333344443   678899999988855               23358999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      +.|++++|++.|.+.      -|...|.-++.+|.+.|++++|.+.+....+.   .+++...+.++.+|++.+++++..
T Consensus      1117 ~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~---~~e~~Idt~LafaYAKl~rleele 1187 (1630)
T 1xi4_A         1117 QKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK---ARESYVETELIFALAKTNRLAELE 1187 (1630)
T ss_pred             hCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---cccccccHHHHHHHHhhcCHHHHH
Confidence            999999999999663      37788999999999999999999999877653   344444556999999999999766


Q ss_pred             HHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCC
Q 048142          162 ELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKP  241 (352)
Q Consensus       162 ~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  241 (352)
                      ++.+    .|+...|..+...|...|++++|..+|...        ..|..+...|.+.|++++|.+.+++..+......
T Consensus      1188 ~fI~----~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA--------~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWke 1255 (1630)
T 1xi4_A         1188 EFIN----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKE 1255 (1630)
T ss_pred             HHHh----CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh--------hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHH
Confidence            5542    456677778888999999999999999985        4888999999999999999988876632211000


Q ss_pred             C----------------ce----eEEEEcceeehhhhcCcccCchhhhhc
Q 048142          242 P----------------GC----ILIEVDGVVHEFVKAGFVPNKSEVLFD  271 (352)
Q Consensus       242 ~----------------~~----~~~~~~~~~~~~~~~G~~~~~~~~~~~  271 (352)
                      .                +.    ..-.+..+++.|.+.|+.++++.+++.
T Consensus      1256 v~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~ 1305 (1630)
T 1xi4_A         1256 VCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEA 1305 (1630)
T ss_pred             HHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            0                00    000112355557789999999998854

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.99  E-value=3.4e-09  Score=102.64  Aligned_cols=171  Identities=15%  Similarity=-0.037  Sum_probs=144.3

Q ss_pred             hccCChHHHHHHHHHHH--------HcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHH
Q 048142           37 THLGALEVGMWLHPYIM--------KKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITF  108 (352)
Q Consensus        37 ~~~g~~~~a~~~~~~m~--------~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  108 (352)
                      ...|++++|.+.+++..        +..  |        .+...|..+...|.+.|++++|++.|++..+.. +-+...|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~--p--------~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~  470 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF--S--------ESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLV  470 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC--T--------TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc--c--------cchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHH
Confidence            78899999999999998        322  2        455688899999999999999999999998852 3356788


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHh
Q 048142          109 VGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRI  185 (352)
Q Consensus       109 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~  185 (352)
                      ..+..++...|++++|...|++..+.   .| +...|..+..+|.+.|++++ .+.|++. ...| +...|..+...+..
T Consensus       471 ~~lg~~~~~~g~~~~A~~~~~~al~l---~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~  546 (681)
T 2pzi_A          471 WYRAVAELLTGDYDSATKHFTEVLDT---FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSA  546 (681)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH---STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHH
Confidence            89999999999999999999999864   45 67888999999999999999 9999887 3344 47889999999999


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCC
Q 048142          186 HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRK  222 (352)
Q Consensus       186 ~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  222 (352)
                      .|++++|...|++..+..|.+...|..+..++...++
T Consensus       547 ~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          547 EGDRVGAVRTLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             TTCHHHHHHHHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             cCCHHHHHHHHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            9999999999999999889888899999999877665

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.99  E-value=7.9e-08  Score=79.53  Aligned_cols=170  Identities=9%  Similarity=0.011  Sum_probs=128.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCCh-hHHHH
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVK-PD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSI-EHYGC  146 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~-~~~~~  146 (352)
                      ...+..+...+.+.|++++|+..|+++.+.... |. ...+..+..++.+.|++++|...|+++.+.+.-.+.. ..+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            345666778889999999999999999875221 21 3467788899999999999999999998762222221 24444


Q ss_pred             HHHHHHH------------------cCCHHHHHHHHHhC-CCCCc-HHHH-----------------HHHHHHHHhcCCH
Q 048142          147 LVYILGR------------------AGRIAKAEELIKNM-PMALD-HFVL-----------------GGLLGACRIHDNL  189 (352)
Q Consensus       147 li~~~~~------------------~g~~~~A~~~~~~m-~~~p~-~~~~-----------------~~li~~~~~~g~~  189 (352)
                      +..+|.+                  .|++++|...|+++ ...|+ ...+                 ..+...+...|++
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~  163 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAW  163 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcH
Confidence            4455543                  57899999999987 33344 2222                 2344567899999


Q ss_pred             HHHHHHHHHHHHhCCCCc---chHHHHHHHHhhcCChHHHHHHHHHHHhcCCC
Q 048142          190 EAAERAAQQLLELLPDNG---GSYVILSNRYSSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       190 ~~a~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      ++|...|+++.+..|.++   ..+..+..+|.+.|++++|.+.++.+...+..
T Consensus       164 ~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          164 VAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence            999999999999888765   46888999999999999999999998876543

>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=98.94  E-value=1.6e-09  Score=83.95  Aligned_cols=141  Identities=8%  Similarity=-0.051  Sum_probs=109.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHc
Q 048142           77 IVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRA  154 (352)
Q Consensus        77 i~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~  154 (352)
                      ...+...|++++|++.+++....  .|+ ...+..+...|.+.|++++|...|++..+.   .| +...|..+..+|.+.
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~   78 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV---QERDPKAHRFLGLLYELE   78 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHc
Confidence            34455678889999888887653  333 455667888899999999999999998864   45 678888999999999


Q ss_pred             CCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHH-HHHHHHhCCCCcchHHHHHHHHhhcCC
Q 048142          155 GRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERA-AQQLLELLPDNGGSYVILSNRYSSSRK  222 (352)
Q Consensus       155 g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~li~~~~~~g~  222 (352)
                      |++++|...|++. ...|+ ...|..+...+...|+.++|.+. +++..+..|.++.+|......+...|+
T Consensus        79 ~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           79 ENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             CchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            9999999999886 44454 77888888889999988776654 578888889888888887777776664

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.94  E-value=4.7e-08  Score=84.24  Aligned_cols=163  Identities=7%  Similarity=-0.089  Sum_probs=129.1

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCL  147 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  147 (352)
                      .+...+..+...+.+.|++++|...|++..+. -+-+...+..+...+...|++++|...+++....   .|+.......
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~~  190 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQL-SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ---DQDTRYQGLV  190 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG---GCSHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh---hcchHHHHHH
Confidence            34456777888888999999999999998875 2235667888899999999999999999988754   5554433332


Q ss_pred             H-HHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC--cchHHHHHHHHhhcCC
Q 048142          148 V-YILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN--GGSYVILSNRYSSSRK  222 (352)
Q Consensus       148 i-~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~  222 (352)
                      . ..+.+.++.++|...+++. ...| +...+..+...+...|++++|...++++.+..|.+  ...+..+...|...|+
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence            2 3366778888888888776 3344 47888889999999999999999999999888876  7789999999999999


Q ss_pred             hHHHHHHHHHHH
Q 048142          223 WKKVKRIRELMA  234 (352)
Q Consensus       223 ~~~a~~~~~~m~  234 (352)
                      .++|...+++-.
T Consensus       271 ~~~a~~~~r~al  282 (287)
T 3qou_A          271 GDALASXYRRQL  282 (287)
T ss_dssp             TCHHHHHHHHHH
T ss_pred             CCcHHHHHHHHH
Confidence            999988887654

>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=98.91  E-value=4.6e-08  Score=92.69  Aligned_cols=162  Identities=10%  Similarity=-0.038  Sum_probs=123.1

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhcc
Q 048142           39 LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHA  118 (352)
Q Consensus        39 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  118 (352)
                      .|++++|.+.+++..+...          .+...|..+...|.+.|++++|++.|++..+.. +.+..++..+..++...
T Consensus         2 ~g~~~~A~~~~~~al~~~p----------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~   70 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRP----------QDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQ   70 (568)
T ss_dssp             -----------------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHT
T ss_pred             CccHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHC
Confidence            4788899999988876543          456789999999999999999999999998752 33577889999999999


Q ss_pred             CCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhc---CCHHHH
Q 048142          119 GLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIH---DNLEAA  192 (352)
Q Consensus       119 g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~---g~~~~a  192 (352)
                      |++++|...+++..+.   .| +...+..+..+|.+.|++++|.+.|++. ...| +...+..+...+...   |+.++|
T Consensus        71 g~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A  147 (568)
T 2vsy_A           71 QRHAEAAVLLQQASDA---APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVL  147 (568)
T ss_dssp             TCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHH
T ss_pred             CCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHH
Confidence            9999999999999874   34 6788999999999999999999999987 3334 477888899999999   999999


Q ss_pred             HHHHHHHHHhCCCCcchHHHHH
Q 048142          193 ERAAQQLLELLPDNGGSYVILS  214 (352)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~li  214 (352)
                      .+.+++..+..|.+...|..+.
T Consensus       148 ~~~~~~al~~~p~~~~~~~~l~  169 (568)
T 2vsy_A          148 SAQVRAAVAQGVGAVEPFAFLS  169 (568)
T ss_dssp             HHHHHHHHHHTCCCSCHHHHTT
T ss_pred             HHHHHHHHhcCCcccChHHHhC
Confidence            9999999998888877776554

>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=98.90  E-value=3.3e-07  Score=75.09  Aligned_cols=175  Identities=12%  Similarity=-0.072  Sum_probs=143.5

Q ss_pred             HHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccC----
Q 048142           44 VGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAG----  119 (352)
Q Consensus        44 ~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g----  119 (352)
                      +|.+.|.+..+.|            +...+..|...|...+++++|++.|++..+.|   +...+..|-..|.. +    
T Consensus         4 eA~~~~~~aa~~g------------~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~   67 (212)
T 3rjv_A            4 EPGSQYQQQAEAG------------DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQA   67 (212)
T ss_dssp             CTTHHHHHHHHTT------------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSC
T ss_pred             hHHHHHHHHHHCC------------CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCC
Confidence            4667777777765            33578888899999999999999999998876   56777778888887 6    


Q ss_pred             CHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHH----cCCHHHHHHHHHhC-CCCCc---HHHHHHHHHHHHh----cC
Q 048142          120 LVDERISHFNLMSEKYGIRPSIEHYGCLVYILGR----AGRIAKAEELIKNM-PMALD---HFVLGGLLGACRI----HD  187 (352)
Q Consensus       120 ~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m-~~~p~---~~~~~~li~~~~~----~g  187 (352)
                      +.++|..+|++..+. |   ++..+..|...|..    .+++++|...|++. ...|+   +..+..|-..|..    .+
T Consensus        68 ~~~~A~~~~~~A~~~-g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~  143 (212)
T 3rjv_A           68 DYPQARQLAEKAVEA-G---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPE  143 (212)
T ss_dssp             CHHHHHHHHHHHHHT-T---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSC
T ss_pred             CHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCC
Confidence            899999999998764 4   66778888888877    88999999999997 33342   7888888888888    88


Q ss_pred             CHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhc-C-----ChHHHHHHHHHHHhcCCC
Q 048142          188 NLEAAERAAQQLLELLPDNGGSYVILSNRYSSS-R-----KWKKVKRIRELMAERNIK  239 (352)
Q Consensus       188 ~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~-g-----~~~~a~~~~~~m~~~g~~  239 (352)
                      +.++|...|++..+. +.++..+..|...|... |     ++++|.+.|+...+.|..
T Consensus       144 d~~~A~~~~~~A~~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          144 DDVKASEYFKGSSSL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             CHHHHHHHHHHHHHT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             CHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            999999999998876 55667888888888654 3     899999999999888753

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.90  E-value=4.1e-08  Score=80.26  Aligned_cols=85  Identities=19%  Similarity=0.162  Sum_probs=44.9

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCC-HHHHHH----------------HHHHHhccCChHHHHHHHHHHHHcCCCCCcccc
Q 048142            2 VEDSACEEALLLFREVQHKGLTGD-KVTMVS----------------LLLACTHLGALEVGMWLHPYIMKKNIEVDVGLG   64 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~----------------li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~   64 (352)
                      .+.|++++|+..|++....  .|+ ...|..                +..++.+.|++++|...+++..+...       
T Consensus        15 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-------   85 (208)
T 3urz_A           15 IEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAP-------   85 (208)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-------
T ss_pred             HHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-------
Confidence            3578999999999998874  453 334444                44444444444444444444444322       


Q ss_pred             ccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048142           65 MALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI   98 (352)
Q Consensus        65 ~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~   98 (352)
                         .+...|..+...|...|++++|+..|++..+
T Consensus        86 ---~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  116 (208)
T 3urz_A           86 ---NNVDCLEACAEMQVCRGQEKDALRMYEKILQ  116 (208)
T ss_dssp             ---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               2333444444444444444444444444444

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.90  E-value=1.1e-07  Score=77.74  Aligned_cols=164  Identities=11%  Similarity=0.027  Sum_probs=123.3

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHH----------------HHHHHHhcCChHHHH
Q 048142           27 VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTA----------------LIVVLAMCGQGNKAL   90 (352)
Q Consensus        27 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~----------------li~~~~~~g~~~~A~   90 (352)
                      ..+......+.+.|++++|...|++..+...          .+...|..                +..+|.+.|++++|+
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~   74 (208)
T 3urz_A            5 DEMLQKVSAAIEAGQNGQAVSYFRQTIALNI----------DRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAY   74 (208)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCH----------HHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC----------CChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHH
Confidence            3344455567889999999999999988653          23445666                889999999999999


Q ss_pred             HHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCC--HHHHHHHHHhC
Q 048142           91 EYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGR--IAKAEELIKNM  167 (352)
Q Consensus        91 ~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~--~~~A~~~~~~m  167 (352)
                      ..|++..+.. +-+...+..+...+...|++++|...|++..+.   .| +...+..+...|...|.  .+.+...++..
T Consensus        75 ~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~  150 (208)
T 3urz_A           75 LFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL---EADNLAANIFLGNYYYLTAEQEKKKLETDYKKL  150 (208)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            9999998852 335778889999999999999999999999864   55 67788888888866554  44566677666


Q ss_pred             CCCCcH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 048142          168 PMALDH--FVLGGLLGACRIHDNLEAAERAAQQLLELLPD  205 (352)
Q Consensus       168 ~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  205 (352)
                      . .|+.  ..+..+-.++...|++++|...|++..+..|.
T Consensus       151 ~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          151 S-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             --CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             h-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            3 3443  33444455667788999999999999887764

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.90  E-value=2.6e-07  Score=76.39  Aligned_cols=171  Identities=10%  Similarity=-0.079  Sum_probs=122.5

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...+..+...+.+.|++++|...|+++.+..... .      .....+..+..+|.+.|++++|+..|++..+.  .|+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~-~------~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~   73 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFG-P------YSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPT   73 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTS-T------THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC-h------HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcC
Confidence            34456666777888899999999999988754321 0      12356777888899999999999999998874  233


Q ss_pred             Hh----HHHHHHHHHh------------------ccCCHHHHHHHHHHhhHhcCCCCC-hhHH-----------------
Q 048142          105 AI----TFVGVLVACS------------------HAGLVDERISHFNLMSEKYGIRPS-IEHY-----------------  144 (352)
Q Consensus       105 ~~----t~~~ll~~~~------------------~~g~~~~a~~~~~~m~~~~g~~p~-~~~~-----------------  144 (352)
                      ..    ++..+..++.                  ..|+.++|...|+++.+.   .|+ ...+                 
T Consensus        74 ~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l~~~~~~~~~~~  150 (225)
T 2yhc_A           74 HPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRLVFLKDRLAKYE  150 (225)
T ss_dssp             CTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHHHHHHHHHHHHH
Confidence            21    3333333333                  367899999999998864   343 2222                 


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 048142          145 GCLVYILGRAGRIAKAEELIKNM-PMALD----HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG  207 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  207 (352)
                      -.+...|.+.|++++|...|+++ ...|+    ...+..+..++.+.|+.++|.+.++.+....|.+.
T Consensus       151 ~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          151 YSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence            24456788999999999999987 22333    35688888999999999999999999887766654

>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=98.88  E-value=4.1e-08  Score=93.04  Aligned_cols=151  Identities=17%  Similarity=0.019  Sum_probs=117.4

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      .|++++|++.|++..+. -+-+...+..+...+...|++++|...+++..+   ..| +...+..+...|.+.|++++|.
T Consensus         2 ~g~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~   77 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH-RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLA---LHPGHPEAVARLGRVRWTQQRHAEAA   77 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---TSTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CccHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            47899999999998764 223477889999999999999999999999985   355 5788999999999999999999


Q ss_pred             HHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhc---CChHHHHHHHHHHHhc
Q 048142          162 ELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSS---RKWKKVKRIRELMAER  236 (352)
Q Consensus       162 ~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~  236 (352)
                      +.+++. ...| +...|..+...+...|++++|.+.+++..+..|.+...+..+...+...   |++++|.+.+++..+.
T Consensus        78 ~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           78 VLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            999987 3334 4788999999999999999999999999999999999999999999999   9999999999988765


Q ss_pred             C
Q 048142          237 N  237 (352)
Q Consensus       237 g  237 (352)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.88  E-value=5.3e-08  Score=83.89  Aligned_cols=164  Identities=11%  Similarity=-0.011  Sum_probs=133.2

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048142           23 TGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVK  102 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  102 (352)
                      +.+...+..+...+.+.|++++|...+++..+...          .+...+..+...|.+.|++++|...|++....  .
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P----------~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~  181 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSN----------QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--D  181 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT----------SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--G
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCC----------cchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--h
Confidence            44566777888889999999999999999998764          45678999999999999999999999988764  4


Q ss_pred             CCHhHHH-HHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---cHHHH
Q 048142          103 PDAITFV-GVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL---DHFVL  176 (352)
Q Consensus       103 p~~~t~~-~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~~~  176 (352)
                      |+..... .....+...++.++|...+++....   .| +...+..+...|...|++++|.+.|.++ ...|   +...+
T Consensus       182 p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~---~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~  258 (287)
T 3qou_A          182 QDTRYQGLVAQIELLXQAADTPEIQQLQQQVAE---NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTR  258 (287)
T ss_dssp             CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHH
T ss_pred             cchHHHHHHHHHHHHhhcccCccHHHHHHHHhc---CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHH
Confidence            5544333 2333466777888899999888764   44 6788999999999999999999999987 2233   37789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Q 048142          177 GGLLGACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       177 ~~li~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      ..+...+...|+.++|...+++...
T Consensus       259 ~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          259 XTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            9999999999999999999887643

>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=98.86  E-value=3.5e-08  Score=78.32  Aligned_cols=160  Identities=8%  Similarity=-0.054  Sum_probs=122.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH-
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI-  150 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~-  150 (352)
                      .+..+...+.+.|++++|+..|++..+. -+-+...+..+...+...|++++|...++.....   .|+...+..+... 
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~   83 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDE-LQSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLE   83 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHH-HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH-CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHH
Confidence            3556777888999999999999988764 2235677888999999999999999999998754   3444333332212 


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC--cchHHHHHHHHhhcCChHHH
Q 048142          151 LGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN--GGSYVILSNRYSSSRKWKKV  226 (352)
Q Consensus       151 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a  226 (352)
                      +...+...+|...+++. ...| +...+..+...+...|++++|...++++.+..|..  ...+..+...|...|+.++|
T Consensus        84 ~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           84 LHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            22323334567777776 3345 47888899999999999999999999999887653  56899999999999999999


Q ss_pred             HHHHHHHHh
Q 048142          227 KRIRELMAE  235 (352)
Q Consensus       227 ~~~~~~m~~  235 (352)
                      ...|++...
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999987653

>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=98.85  E-value=7.9e-07  Score=76.61  Aligned_cols=163  Identities=9%  Similarity=-0.021  Sum_probs=124.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHh----HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC----hh
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRG-VKPDAI----TFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS----IE  142 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~----t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~  142 (352)
                      .+...+..+...|++++|..++++..+.. ..|+..    .+..+...+...|++++|...+++..+...-.++    ..
T Consensus        77 ~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~  156 (293)
T 3u3w_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHH
Confidence            34445778899999999999999988742 233321    3345677777888999999999999873112223    33


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC------CCCc
Q 048142          143 HYGCLVYILGRAGRIAKAEELIKNM--------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELL------PDNG  207 (352)
Q Consensus       143 ~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~------~~~~  207 (352)
                      +++.+...|...|++++|...|+++        +..+. ..+|..+...|...|++++|...+++..+..      ..-.
T Consensus       157 ~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~  236 (293)
T 3u3w_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHH
Confidence            6899999999999999999998876        11222 3478889999999999999999999987632      1125


Q ss_pred             chHHHHHHHHhhcCC-hHHHHHHHHHHH
Q 048142          208 GSYVILSNRYSSSRK-WKKVKRIRELMA  234 (352)
Q Consensus       208 ~~~~~li~~~~~~g~-~~~a~~~~~~m~  234 (352)
                      .+|..+...|.+.|+ +++|.+.+++..
T Consensus       237 ~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            678899999999995 699999988765

>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=98.83  E-value=6.5e-07  Score=73.32  Aligned_cols=177  Identities=11%  Similarity=-0.054  Sum_probs=141.1

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC---
Q 048142            8 EEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG---   84 (352)
Q Consensus         8 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g---   84 (352)
                      .+|++.|++....|   +..++..|-..+...+++++|.+.|++..+.|.            ...+..|...|.. +   
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~------------~~a~~~lg~~y~~-~g~~   66 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGD------------GDALALLAQLKIR-NPQQ   66 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHTTS-STTS
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC------------HHHHHHHHHHHHc-CCCC
Confidence            35788888888865   788888899999999999999999999988653            3567778888877 6   


Q ss_pred             -ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc----cCCHHHHHHHHHHhhHhcCCC-CChhHHHHHHHHHHH----c
Q 048142           85 -QGNKALEYFYEMQIRGVKPDAITFVGVLVACSH----AGLVDERISHFNLMSEKYGIR-PSIEHYGCLVYILGR----A  154 (352)
Q Consensus        85 -~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~g~~-p~~~~~~~li~~~~~----~  154 (352)
                       ++++|+++|++..+.|   +..++..|-..|..    .+++++|..+|++..+. |.. ..+..+..|-..|..    .
T Consensus        67 ~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~~~~a~~~Lg~~y~~g~g~~  142 (212)
T 3rjv_A           67 ADYPQARQLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARD-SESDAAVDAQMLLGLIYASGVHGP  142 (212)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSS-TTSHHHHHHHHHHHHHHHHTSSSS
T ss_pred             CCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHc-CCCcchHHHHHHHHHHHHcCCCCC
Confidence             8999999999998865   56777788888877    88999999999998764 321 127788889999998    8


Q ss_pred             CCHHHHHHHHHhC-CCCCcHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHHhCC
Q 048142          155 GRIAKAEELIKNM-PMALDHFVLGGLLGACRIH-D-----NLEAAERAAQQLLELLP  204 (352)
Q Consensus       155 g~~~~A~~~~~~m-~~~p~~~~~~~li~~~~~~-g-----~~~~a~~~~~~~~~~~~  204 (352)
                      +++++|...|++. ...++...+..|-..|... |     +.++|...|++..+...
T Consensus       143 ~d~~~A~~~~~~A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          143 EDDVKASEYFKGSSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             CCHHHHHHHHHHHHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            8999999999987 2224555677777777543 3     89999999999877543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.81  E-value=9e-07  Score=76.25  Aligned_cols=165  Identities=8%  Similarity=-0.053  Sum_probs=124.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-H----hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCC--CCC--
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-A----ITFVGVLVACSHAGLVDERISHFNLMSEKYGI--RPS--  140 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~----~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~--~p~--  140 (352)
                      ...+...+..+...|++++|++.+++..+.....+ .    ..+..+...+...|++++|...+++..+...-  .+.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            34566778889999999999999998877532211 1    22344566677889999999999988753111  111  


Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC--C----
Q 048142          141 IEHYGCLVYILGRAGRIAKAEELIKNM-------PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLP--D----  205 (352)
Q Consensus       141 ~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~----  205 (352)
                      ..+|+.+...|...|++++|...|++.       +..+.  ..+|..+...|...|++++|...+++..+..+  .    
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            458889999999999999999999875       22222  26888999999999999999999999765321  1    


Q ss_pred             CcchHHHHHHHHhhcCChHHH-HHHHHHHH
Q 048142          206 NGGSYVILSNRYSSSRKWKKV-KRIRELMA  234 (352)
Q Consensus       206 ~~~~~~~li~~~~~~g~~~~a-~~~~~~m~  234 (352)
                      -..+|..+...|.+.|++++| ...+++..
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            146788899999999999999 77777654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.80  E-value=1.9e-06  Score=79.08  Aligned_cols=193  Identities=9%  Similarity=-0.032  Sum_probs=151.5

Q ss_pred             CHHHHHHHHHHHhccC---ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc----CChHHHHHHHHHHH
Q 048142           25 DKVTMVSLLLACTHLG---ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC----GQGNKALEYFYEMQ   97 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~----g~~~~A~~~~~~m~   97 (352)
                      +...+..|-..+...|   +.++|.+.|.+..+.|.          ++...+..|...|...    +++++|+++|++..
T Consensus       175 ~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~----------~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa  244 (452)
T 3e4b_A          175 TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT----------VTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA  244 (452)
T ss_dssp             CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC----------SCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG
T ss_pred             CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC----------HHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc
Confidence            3337888888888899   89999999999999886          5556667777777655    79999999999987


Q ss_pred             HcCCCCCHhHHHHHHHH-H--hccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcC-----CHHHHHHHHHhCCC
Q 048142           98 IRGVKPDAITFVGVLVA-C--SHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAG-----RIAKAEELIKNMPM  169 (352)
Q Consensus        98 ~~g~~p~~~t~~~ll~~-~--~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g-----~~~~A~~~~~~m~~  169 (352)
                       .|   +...+..|-.. +  ...++.++|...|++..+. |   +...+..|...|. .|     ++++|...|++.- 
T Consensus       245 -~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-  314 (452)
T 3e4b_A          245 -PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-  314 (452)
T ss_dssp             -GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-
T ss_pred             -CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-
Confidence             43   44555555555 3  5689999999999998875 5   6777778888887 55     9999999999987 


Q ss_pred             CCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh----cCChHHHHHHHHHHHhcCCC
Q 048142          170 ALDHFVLGGLLGACRI----HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS----SRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       170 ~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~  239 (352)
                      .-++..+..|-..|..    ..+.++|...|++..+..  ++.....|...|..    ..+.++|...|+...+.|..
T Consensus       315 ~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~  390 (452)
T 3e4b_A          315 GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG--QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP  390 (452)
T ss_dssp             TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT--CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH
T ss_pred             CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC--hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH
Confidence            5567777777777765    349999999999987643  44567777777764    46899999999999888763

>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=98.76  E-value=7.2e-08  Score=76.48  Aligned_cols=159  Identities=13%  Similarity=0.007  Sum_probs=121.7

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhH
Q 048142           28 TMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAIT  107 (352)
Q Consensus        28 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  107 (352)
                      .+..+...+.+.|++++|...+++..+...          .+...|..+...|.+.|++++|+..|++....  .|+...
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P----------~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~   75 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQ----------SRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSY   75 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHH----------TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCC----------CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHH
Confidence            345666778899999999999998876543          46678999999999999999999999988664  344433


Q ss_pred             HHHHHHH-HhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc---HHHHHHHHH
Q 048142          108 FVGVLVA-CSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD---HFVLGGLLG  181 (352)
Q Consensus       108 ~~~ll~~-~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~---~~~~~~li~  181 (352)
                      +..+... +...+...+|...+++..+.   .| +...+..+...|...|++++|...|+++ ...|+   ...+..+..
T Consensus        76 ~~~~~~~~~~~~~~~~~a~~~~~~al~~---~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~  152 (176)
T 2r5s_A           76 KSLIAKLELHQQAAESPELKRLEQELAA---NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMD  152 (176)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHH
Confidence            3222111 12222333467888888764   55 5788999999999999999999999987 44554   568899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 048142          182 ACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       182 ~~~~~g~~~~a~~~~~~~~~  201 (352)
                      .+...|+.++|...|++...
T Consensus       153 ~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          153 ILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHhCCCCcHHHHHHHHHH
Confidence            99999999999999998654

>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=98.76  E-value=7.2e-08  Score=74.41  Aligned_cols=136  Identities=10%  Similarity=0.053  Sum_probs=69.1

Q ss_pred             cCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      +.|++++|++.|+.....  .| +...+..+...|.+.|++++|.+.|++.++...          .+...|..+..+|.
T Consensus         9 ~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p----------~~~~a~~~lg~~~~   76 (150)
T 4ga2_A            9 SKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE----------RDPKAHRFLGLLYE   76 (150)
T ss_dssp             CHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHH
T ss_pred             HcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHH
Confidence            345555666555554432  22 233444555555666666666666666555432          34455666666666


Q ss_pred             hcCChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhccCCHHHHHHH-HHHhhHhcCCCC-ChhHHHHHHHHHHHcC
Q 048142           82 MCGQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSHAGLVDERISH-FNLMSEKYGIRP-SIEHYGCLVYILGRAG  155 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~-~~~m~~~~g~~p-~~~~~~~li~~~~~~g  155 (352)
                      +.|++++|+..|++..+.  .| +..++..+...+.+.|+.++|... +++..+   +.| ++.+|......+.+.|
T Consensus        77 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~---l~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           77 LEENTDKAVECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK---LFPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH---HSTTCHHHHHHHHHHHHTCC
T ss_pred             HcCchHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH---hCcCCHHHHHHHHHHHHHhC
Confidence            666666666666665553  23 244555555555555555544333 344433   233 3444444444444443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.75  E-value=2.2e-06  Score=74.09  Aligned_cols=216  Identities=12%  Similarity=0.075  Sum_probs=167.3

Q ss_pred             CChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccC--ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH-
Q 048142            5 SACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLG--ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL-   80 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~-   80 (352)
                      ...++|+++++.+...  .| +...|+.--..+...|  +++++++.++.+.....          .+..+|+.--..+ 
T Consensus        47 e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nP----------k~y~aW~~R~~iL~  114 (306)
T 3dra_A           47 EYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNE----------KNYQIWNYRQLIIG  114 (306)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCT----------TCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCc----------ccHHHHHHHHHHHH
Confidence            3457899999988874  55 4667888777888888  99999999999998765          3445777665555 


Q ss_pred             ---Hhc---CChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHH--HHHHHHHHhhHhcCCCCChhHHHHHHHHHH
Q 048142           81 ---AMC---GQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVD--ERISHFNLMSEKYGIRPSIEHYGCLVYILG  152 (352)
Q Consensus        81 ---~~~---g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~--~a~~~~~~m~~~~g~~p~~~~~~~li~~~~  152 (352)
                         ...   +++++++++++++.+.. +-|..+|+.---.+.+.|.++  ++++.++++.+. . .-|-..|+.-...+.
T Consensus       115 ~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~-d-~~N~sAW~~R~~ll~  191 (306)
T 3dra_A          115 QIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT-D-LKNNSAWSHRFFLLF  191 (306)
T ss_dssp             HHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHH
T ss_pred             HHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHH
Confidence               555   78999999999999863 337778887777777888888  999999999875 2 236777777777777


Q ss_pred             HcCC------HHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHhC---CCCcchHHHHHHHHhhc
Q 048142          153 RAGR------IAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEA-AERAAQQLLELL---PDNGGSYVILSNRYSSS  220 (352)
Q Consensus       153 ~~g~------~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~---~~~~~~~~~li~~~~~~  220 (352)
                      +.++      ++++++.++++ ...| |...|+-+-..+...|.... +..++.+..+..   +.++..+..+.+.|.+.
T Consensus       192 ~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~  271 (306)
T 3dra_A          192 SKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQ  271 (306)
T ss_dssp             SSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHT
T ss_pred             hccccchhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHcc
Confidence            7776      88999998876 3334 68889888888888887444 555666655443   66778889999999999


Q ss_pred             CChHHHHHHHHHHHh
Q 048142          221 RKWKKVKRIRELMAE  235 (352)
Q Consensus       221 g~~~~a~~~~~~m~~  235 (352)
                      |+.++|.++++.+.+
T Consensus       272 ~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          272 KKYNESRTVYDLLKS  286 (306)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999999999875

>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=98.74  E-value=5.3e-07  Score=73.39  Aligned_cols=132  Identities=13%  Similarity=0.026  Sum_probs=109.7

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHH
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLV  148 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li  148 (352)
                      +...+..+...+...|++++|++.|++.    +.|+...+..+...+...|++++|...|++..+. . +.+...+..+.
T Consensus         5 ~~~~~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~-~~~~~~~~~lg   78 (213)
T 1hh8_A            5 EAISLWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR-D-KHLAVAYFQRG   78 (213)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C-ccchHHHHHHH
Confidence            3445677788889999999999999876    4678889999999999999999999999998874 2 33678888999


Q ss_pred             HHHHHcCCHHHHHHHHHhC----C-------------CCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 048142          149 YILGRAGRIAKAEELIKNM----P-------------MAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN  206 (352)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~m----~-------------~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  206 (352)
                      .+|...|++++|...|++.    +             ..| ....|..+...+...|++++|...+++..+..|.+
T Consensus        79 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           79 MLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            9999999999999999876    2             112 23778888899999999999999999998877654

>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=98.74  E-value=1.3e-07  Score=82.16  Aligned_cols=193  Identities=9%  Similarity=-0.053  Sum_probs=141.1

Q ss_pred             ccCChHHHHHHHHHHHHcCCCCCccccccCCc----HHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-HhHH
Q 048142           38 HLGALEVGMWLHPYIMKKNIEVDVGLGMALKD----VMTLTALIVVLAMCGQGNKALEYFYEMQIR----GVKPD-AITF  108 (352)
Q Consensus        38 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~  108 (352)
                      ..|++++|.+++++..+.... .  .+..-++    ...|+.....|...|++++|.+.|.+..+.    |-.+. ..+|
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~-~--~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~   79 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT-S--FMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAF   79 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC-C--SSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc-c--ccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            357788899988877763111 0  0000022    236888888999999999999999987653    21111 3578


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhhHhcCC--CC--ChhHHHHHHHHHHHcCCHHHHHHHHHhC----C-C-CC--cHHHH
Q 048142          109 VGVLVACSHAGLVDERISHFNLMSEKYGI--RP--SIEHYGCLVYILGRAGRIAKAEELIKNM----P-M-AL--DHFVL  176 (352)
Q Consensus       109 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~--~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m----~-~-~p--~~~~~  176 (352)
                      +.+...|...|++++|...|++..+.+.-  .|  -..+++.+...|.. |++++|+..|++.    + . .+  ...++
T Consensus        80 ~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~  158 (307)
T 2ifu_A           80 EQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELI  158 (307)
T ss_dssp             HHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            88999999999999999999887653211  11  24577888888988 9999999999876    1 1 11  14678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCC------cchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          177 GGLLGACRIHDNLEAAERAAQQLLELLPDN------GGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       177 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      +.+...+...|++++|+..|++..+..+.+      ..++..+...+...|++++|...|++..
T Consensus       159 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          159 GKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            888999999999999999999987753322      2256677778888899999999999987

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.73  E-value=1.1e-07  Score=73.37  Aligned_cols=102  Identities=16%  Similarity=0.130  Sum_probs=81.7

Q ss_pred             CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHH
Q 048142          136 GIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVI  212 (352)
Q Consensus       136 g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  212 (352)
                      .+.| +...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..|++..+..|.++..|..
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            3455 4556777777888888888888888887 3344 47788888888888888888888888888888888888888


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          213 LSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       213 li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      +..+|...|++++|.+.|++..+..
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8888888888888888888887654

>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=98.73  E-value=4.9e-07  Score=73.61  Aligned_cols=126  Identities=11%  Similarity=0.032  Sum_probs=109.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHH
Q 048142          107 TFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACR  184 (352)
Q Consensus       107 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  184 (352)
                      .+..+...+...|++++|...|++..     .|+...+..+...|.+.|++++|...|++. ...| +...|..+...+.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHH
Confidence            45566777889999999999998763     568889999999999999999999999987 2233 5788999999999


Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCc----------------chHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          185 IHDNLEAAERAAQQLLELLPDNG----------------GSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       185 ~~g~~~~a~~~~~~~~~~~~~~~----------------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ..|++++|...+++..+..|.+.                ..+..+...|...|++++|.+.+++..+..
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            99999999999999999877766                788999999999999999999999988654

>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=98.71  E-value=1.1e-07  Score=81.62  Aligned_cols=195  Identities=10%  Similarity=-0.081  Sum_probs=135.3

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...+..+...+.+.|++++|...+++..+...          .+...|..+..+|.+.|++++|+..+++..+. .+.+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~-~p~~   71 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP----------LVAVYYTNRALCYLKMQQPEQALADCRRALEL-DGQS   71 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS----------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-CTTC
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-CCCC
Confidence            567788888899999999999999999988653          46678999999999999999999999998874 2335


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGAC  183 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~  183 (352)
                      ...+..+..++...|++++|...|++..+.   .|+ ...+...+....+......... .......++......+ ..+
T Consensus        72 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l-~~l  146 (281)
T 2c2l_A           72 VKAHFFLGQCQLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYL-TRL  146 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHH-HHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHH-HHH
Confidence            677888999999999999999999988764   221 1111112222222111111111 1222222333333333 222


Q ss_pred             HhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhc-CChHHHHHHHHHHHhc
Q 048142          184 RIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSS-RKWKKVKRIRELMAER  236 (352)
Q Consensus       184 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~  236 (352)
                       ..|+.++|.+.++...+..|.+......+-..+.+. +.+++|.++|.+..+.
T Consensus       147 -~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          147 -IAAERERELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             -HHHHHHHHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             -HHHHHHHHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence             368899999999888888777766666666666665 6788999999987653

>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=98.71  E-value=2.4e-06  Score=73.55  Aligned_cols=163  Identities=7%  Similarity=-0.122  Sum_probs=124.9

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC-
Q 048142           31 SLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDV----MTLTALIVVLAMCGQGNKALEYFYEMQIRGVK-PD-  104 (352)
Q Consensus        31 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~-  104 (352)
                      ..+..+...|++++|..++++..+....  .      |+.    ..+..+...+...+++++|+..|++....... ++ 
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~--~------~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~  151 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEY--H------PEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDV  151 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCC--C------HHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCT
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccC--C------hHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccH
Confidence            3466778999999999999998874321  1      332    23445777778888999999999999874322 23 


Q ss_pred             ---HhHHHHHHHHHhccCCHHHHHHHHHHhhHhc----CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-------CC
Q 048142          105 ---AITFVGVLVACSHAGLVDERISHFNLMSEKY----GIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-------PM  169 (352)
Q Consensus       105 ---~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~  169 (352)
                         ..+++.+...|...|++++|...|++..+..    +..+ ...++..+...|.+.|++++|...+++.       +.
T Consensus       152 ~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~  231 (293)
T 3u3w_A          152 YQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINS  231 (293)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTB
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCc
Confidence               2368999999999999999999999988521    1122 2347888999999999999999998876       22


Q ss_pred             CCc-HHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 048142          170 ALD-HFVLGGLLGACRIHD-NLEAAERAAQQLLE  201 (352)
Q Consensus       170 ~p~-~~~~~~li~~~~~~g-~~~~a~~~~~~~~~  201 (352)
                      .+. ..+|..+...+...| +.++|.+.+++...
T Consensus       232 ~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          232 MALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             CTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            233 678888999999999 47999999998765

>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=98.67  E-value=1.1e-06  Score=68.20  Aligned_cols=126  Identities=10%  Similarity=-0.051  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      .|..+...+...|++++|...|++..+. .+.+..++..+...+...|++++|...+++..+.  .+.+...+..+...|
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL-NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            4444555555555555555555555443 1223444555555555555555555555555442  122344555555555


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-cHHHH--HHHHHHHHhcCCHHHHHHHHHHHH
Q 048142          152 GRAGRIAKAEELIKNM-PMAL-DHFVL--GGLLGACRIHDNLEAAERAAQQLL  200 (352)
Q Consensus       152 ~~~g~~~~A~~~~~~m-~~~p-~~~~~--~~li~~~~~~g~~~~a~~~~~~~~  200 (352)
                      ...|++++|...|++. ...| +...+  ..+...+...|++++|...+....
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            5555555555555554 1111 22222  222223445555666666655543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.66  E-value=5.5e-07  Score=72.52  Aligned_cols=159  Identities=10%  Similarity=-0.011  Sum_probs=104.4

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcC--CCCCccccccCCcHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKN--IEVDVGLGMALKDVMTLTALIVV   79 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~~~~~~~~~l~~~~~~~~li~~   79 (352)
                      ...|++++|.++++..... ......++..+...+...|++++|...+++..+..  .....      .....++.+...
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~------~~~~~~~~l~~~   75 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHT------AEHRALHQVGMV   75 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHH------HHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcH------HHHHHHHHHHHH
Confidence            3579999999966555432 22356788888889999999999999999887631  11111      345678888899


Q ss_pred             HHhcCChHHHHHHHHHHHHc----CCCC--CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC----hhHHHHHHH
Q 048142           80 LAMCGQGNKALEYFYEMQIR----GVKP--DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS----IEHYGCLVY  149 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~----g~~p--~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~  149 (352)
                      |...|++++|.+.+++..+.    +-.|  ....+..+...+...|++++|...+++..+...-..+    ..++..+..
T Consensus        76 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  155 (203)
T 3gw4_A           76 ERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGD  155 (203)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHH
Confidence            99999999999999887653    2122  1344667777777888888888888776542111111    223455666


Q ss_pred             HHHHcCCHHHHHHHHHhC
Q 048142          150 ILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m  167 (352)
                      .|...|++++|.+.+++.
T Consensus       156 ~~~~~g~~~~A~~~~~~a  173 (203)
T 3gw4_A          156 LAQQEKNLLEAQQHWLRA  173 (203)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHCcCHHHHHHHHHHH
Confidence            666677777766666543

>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=98.66  E-value=8.3e-07  Score=68.86  Aligned_cols=128  Identities=10%  Similarity=-0.040  Sum_probs=107.0

Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGA  182 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~  182 (352)
                      ...+..+...+...|++++|...|++..+.  .+.+...+..+...|...|++++|...+++. ...| +...|..+...
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            345677788888999999999999998874  2336788889999999999999999999887 2233 57888899999


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHH--HhhcCChHHHHHHHHHHH
Q 048142          183 CRIHDNLEAAERAAQQLLELLPDNGGSYVILSNR--YSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       183 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~~m~  234 (352)
                      +...|++++|...+++..+..|.+...+..+..+  +...|++++|.+.+....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            9999999999999999999888887777544444  788899999999988765

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.65  E-value=7.2e-07  Score=65.32  Aligned_cols=63  Identities=19%  Similarity=0.126  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      ...|..+...+...|++++|.+.|+++.... +.+..++..+...+...|++++|...++++.+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~   71 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3445555555555555555555555554431 22334444444444445555555555444443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.63  E-value=2.7e-06  Score=73.25  Aligned_cols=169  Identities=7%  Similarity=-0.149  Sum_probs=124.7

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC-
Q 048142           29 MVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGV---KPD-  104 (352)
Q Consensus        29 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~-  104 (352)
                      +...+..+...|++++|.+.+.+..+........ .   .....+..+...+...|++++|+..|++..+...   .+. 
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~-~---~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEF-Q---QFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHH-H---HHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhH-H---HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH
Confidence            3456677789999999999999888754321000 0   1123345566777888999999999999875321   122 


Q ss_pred             -HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-----hhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCC
Q 048142          105 -AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-----IEHYGCLVYILGRAGRIAKAEELIKNM-------PMAL  171 (352)
Q Consensus       105 -~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p  171 (352)
                       ..+|+.+...|...|++++|...|++..+.....|+     ..++..+...|.+.|++++|...+++.       +...
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence             447889999999999999999999998732111222     258889999999999999999999876       1111


Q ss_pred             -cHHHHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q 048142          172 -DHFVLGGLLGACRIHDNLEAA-ERAAQQLLE  201 (352)
Q Consensus       172 -~~~~~~~li~~~~~~g~~~~a-~~~~~~~~~  201 (352)
                       -..+|..+...+...|+.++| ...+++...
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence             267888899999999999999 777887654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.63  E-value=2e-06  Score=62.86  Aligned_cols=116  Identities=15%  Similarity=0.040  Sum_probs=94.9

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      ...|..+...+...|++++|.+.++++.+...          .+...|..+...+.+.|++++|+..|+++.+.. +.+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~   77 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP----------NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNA   77 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc----------CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccH
Confidence            56788889999999999999999999988653          456789999999999999999999999998763 4467


Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHc
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRA  154 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  154 (352)
                      .++..+...+...|++++|...++++.+. . +.+...+..+...+.+.
T Consensus        78 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           78 EAWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PNNAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh-C-CCcHHHHHHHHHHHHhc
Confidence            78889999999999999999999998864 2 22455565655555443

>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=98.60  E-value=9e-07  Score=69.91  Aligned_cols=119  Identities=7%  Similarity=-0.033  Sum_probs=72.4

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHH-HH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVV-LA   81 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~-~~   81 (352)
                      ..|++++|+..|++..... +.+...|..+...+...|++++|...+++..+...          .+...|..+... |.
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p----------~~~~~~~~la~~l~~   90 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG----------ENAELYAALATVLYY   90 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC----------SCHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC----------CCHHHHHHHHHHHHH
Confidence            4566677777776666542 23556666677777777777777777777666442          344556666666 55


Q ss_pred             hcCCh--HHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142           82 MCGQG--NKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus        82 ~~g~~--~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      ..|++  ++|+..|++..+.. +.+...+..+...+...|++++|...|++..+
T Consensus        91 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A           91 QASQHMTAQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hcCCcchHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            66776  77777777766642 22345566666666777777777777776664

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.60  E-value=1e-06  Score=65.62  Aligned_cols=104  Identities=12%  Similarity=-0.046  Sum_probs=50.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHh
Q 048142          108 FVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRI  185 (352)
Q Consensus       108 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~  185 (352)
                      +...-..+.+.|++++|...|++..+.  -+.+...|..+..+|.+.|++++|+..|++. ...| +...|..+..++..
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            333444444444444444444444432  1113444444555555555555555555443 2222 24455555555555


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCcchHHHH
Q 048142          186 HDNLEAAERAAQQLLELLPDNGGSYVIL  213 (352)
Q Consensus       186 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l  213 (352)
                      .|++++|.+.|++..+..|.+...+..|
T Consensus        94 ~~~~~~A~~~~~~al~l~P~~~~a~~~l  121 (126)
T 4gco_A           94 MREWSKAQRAYEDALQVDPSNEEAREGV  121 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCcCCHHHHHHH
Confidence            6666666666666555555555444443

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.58  E-value=3.5e-06  Score=80.86  Aligned_cols=220  Identities=7%  Similarity=-0.084  Sum_probs=164.6

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHH-HHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCCh
Q 048142            8 EEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGM-WLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQG   86 (352)
Q Consensus         8 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~-~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~   86 (352)
                      +.+..+|++.... .+-+...|...+.-+.+.|+.++|. .+++.....-.          .+...|-..+...-+.|++
T Consensus       326 ~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P----------~s~~Lwl~~a~~ee~~~~~  394 (679)
T 4e6h_A          326 ARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIP----------NSAVLAFSLSEQYELNTKI  394 (679)
T ss_dssp             HHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHhCCH
Confidence            3455678777764 3336778888888788889998996 99999887432          4566788888999999999


Q ss_pred             HHHHHHHHHHHHcC---------CCCC------------HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHH
Q 048142           87 NKALEYFYEMQIRG---------VKPD------------AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYG  145 (352)
Q Consensus        87 ~~A~~~~~~m~~~g---------~~p~------------~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~  145 (352)
                      ++|.++|+++....         ..|+            ...|...+....+.|.++.|..+|....+. --.+....|.
T Consensus       395 e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~-~~~~~~~lyi  473 (679)
T 4e6h_A          395 PEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL-KKLVTPDIYL  473 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT-GGGSCTHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-cCCCChHHHH
Confidence            99999999998641         0142            235777788888889999999999999864 1112233443


Q ss_pred             HHHHHHHHc-CCHHHHHHHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC---CcchHHHHHHHHhh
Q 048142          146 CLVYILGRA-GRIAKAEELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPD---NGGSYVILSNRYSS  219 (352)
Q Consensus       146 ~li~~~~~~-g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~li~~~~~  219 (352)
                      ..+..-.+. ++.+.|..+|+..  .+.-+...|...+.-....|+.+.|..+|++.....++   ....|...+..-.+
T Consensus       474 ~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~  553 (679)
T 4e6h_A          474 ENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESK  553 (679)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Confidence            333333344 4589999999987  22235667788888888899999999999999887663   44678888888899


Q ss_pred             cCChHHHHHHHHHHHhcCCC
Q 048142          220 SRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       220 ~g~~~~a~~~~~~m~~~g~~  239 (352)
                      .|+.+.+.++.+++.+.-..
T Consensus       554 ~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          554 VGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             TCCSHHHHHHHHHHHHHSTT
T ss_pred             cCCHHHHHHHHHHHHHhCCC
Confidence            99999999999999876543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.58  E-value=1.2e-06  Score=64.67  Aligned_cols=81  Identities=17%  Similarity=-0.010  Sum_probs=40.1

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh
Q 048142          142 EHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS  219 (352)
Q Consensus       142 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~  219 (352)
                      ..+..+...|...|++++|...+++. ...| +...|..+...+...|++++|...+++..+..|.+...+..+...+..
T Consensus        47 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  126 (131)
T 2vyi_A           47 VYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELK  126 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHH
Confidence            33444444444444444444444443 1112 244455555555555566666666665555555555555555555555


Q ss_pred             cCC
Q 048142          220 SRK  222 (352)
Q Consensus       220 ~g~  222 (352)
                      .|+
T Consensus       127 ~~~  129 (131)
T 2vyi_A          127 LRE  129 (131)
T ss_dssp             HTT
T ss_pred             Hhc
Confidence            444

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.57  E-value=1.5e-06  Score=69.93  Aligned_cols=155  Identities=14%  Similarity=0.017  Sum_probs=107.6

Q ss_pred             hccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHhHHHHH
Q 048142           37 THLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR----GVKP-DAITFVGV  111 (352)
Q Consensus        37 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~l  111 (352)
                      ...|++++|.++++.+... ..         .....++.+...|...|++++|...|++....    +..| ...++..+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~---------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   72 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PA---------TASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQV   72 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TT---------THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHhcCC-hH---------HHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            4678999999965555331 11         35578889999999999999999999988752    2222 24567778


Q ss_pred             HHHHhccCCHHHHHHHHHHhhHhcCCCC-----ChhHHHHHHHHHHHcCCHHHHHHHHHhC----C--CCCc--HHHHHH
Q 048142          112 LVACSHAGLVDERISHFNLMSEKYGIRP-----SIEHYGCLVYILGRAGRIAKAEELIKNM----P--MALD--HFVLGG  178 (352)
Q Consensus       112 l~~~~~~g~~~~a~~~~~~m~~~~g~~p-----~~~~~~~li~~~~~~g~~~~A~~~~~~m----~--~~p~--~~~~~~  178 (352)
                      ...+...|++++|...+++..+...-.+     ....+..+...+...|++++|...+++.    .  ..+.  ..++..
T Consensus        73 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  152 (203)
T 3gw4_A           73 GMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRG  152 (203)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            8888899999999998888765321122     2345777788888889999888888765    1  1111  334566


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 048142          179 LLGACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       179 li~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      +...+...|++++|.+.+++..+
T Consensus       153 la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          153 LGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHH
Confidence            77778888888888888887655

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.57  E-value=5.9e-07  Score=66.97  Aligned_cols=100  Identities=12%  Similarity=0.057  Sum_probs=89.2

Q ss_pred             CCCC-hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHH
Q 048142          137 IRPS-IEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVIL  213 (352)
Q Consensus       137 ~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  213 (352)
                      +.|+ ...+......|.+.|++++|.+.|++. ...| +...|..+..++...|++++|+..+++..+..|.+...|..+
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l   87 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRK   87 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence            4553 456778889999999999999999987 3344 588999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCChHHHHHHHHHHHhc
Q 048142          214 SNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       214 i~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      ..+|...|++++|.+.|++..+.
T Consensus        88 g~~~~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           88 AACLVAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHH
Confidence            99999999999999999998764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.57  E-value=7.3e-07  Score=81.92  Aligned_cols=92  Identities=10%  Similarity=0.068  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHcC---CHHHHHHHHHhC--CCCCcHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHhCCCCcchHHHH
Q 048142          143 HYGCLVYILGRAG---RIAKAEELIKNM--PMALDHFVLGGLLGACRIH----DNLEAAERAAQQLLELLPDNGGSYVIL  213 (352)
Q Consensus       143 ~~~~li~~~~~~g---~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~l  213 (352)
                      .+..|...|.+.|   +.++|+..|++.  .-.++...+..|...|...    ++.++|...|++..   +.++..+..|
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa---~g~~~a~~~L  254 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA---PGYPASWVSL  254 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG---GGSTHHHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc---CCCHHHHHHH
Confidence            4444444444444   444455444443  1122333333333333222    34445555444443   3333444444


Q ss_pred             HHH-H--hhcCChHHHHHHHHHHHhcC
Q 048142          214 SNR-Y--SSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       214 i~~-~--~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ... |  ...+++++|.+.|++..+.|
T Consensus       255 g~~~~~~~~~~d~~~A~~~~~~Aa~~g  281 (452)
T 3e4b_A          255 AQLLYDFPELGDVEQMMKYLDNGRAAD  281 (452)
T ss_dssp             HHHHHHSGGGCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHCC
Confidence            443 2  23444455555554444433

>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=98.56  E-value=4.4e-07  Score=69.80  Aligned_cols=96  Identities=10%  Similarity=0.007  Sum_probs=65.3

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHH
Q 048142          140 SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY  217 (352)
Q Consensus       140 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~  217 (352)
                      +...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..|++..+..|.++..|..+..+|
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3445555666677777777777777665 2223 4666666667777777777777777777777777777777777777


Q ss_pred             hhcCChHHHHHHHHHHHh
Q 048142          218 SSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       218 ~~~g~~~~a~~~~~~m~~  235 (352)
                      ...|++++|.+.|++..+
T Consensus       100 ~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            777777777777776654

>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=98.55  E-value=7.8e-07  Score=78.37  Aligned_cols=94  Identities=17%  Similarity=0.069  Sum_probs=77.6

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHh
Q 048142          141 IEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS  218 (352)
Q Consensus       141 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~  218 (352)
                      ...|..+..+|.+.|++++|...+++. ...| +...|..+..++...|++++|...|++..+..|.+...+..+...+.
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            467788888888889999998888876 3334 57788888889999999999999999999988988889999999999


Q ss_pred             hcCChHHH-HHHHHHHH
Q 048142          219 SSRKWKKV-KRIRELMA  234 (352)
Q Consensus       219 ~~g~~~~a-~~~~~~m~  234 (352)
                      ..|+.++| .+.++.|.
T Consensus       276 ~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          276 RIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999888 44566554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.55  E-value=1.3e-06  Score=74.00  Aligned_cols=202  Identities=12%  Similarity=-0.053  Sum_probs=139.6

Q ss_pred             cCCChhHHHHHHHHHHHCCCCC-CHHHHHHH-------HHHHhccCChHHHHHHHHHHHHcCCCCCcccc----cc----
Q 048142            3 EDSACEEALLLFREVQHKGLTG-DKVTMVSL-------LLACTHLGALEVGMWLHPYIMKKNIEVDVGLG----MA----   66 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~l-------i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~----~~----   66 (352)
                      +.++..+|.+.|.+....  .| ....|+.+       ...+.+.++..++...+..-.  ++.|+....    ..    
T Consensus        18 ~~~d~~~A~~~F~~a~~~--dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l--~l~p~~l~a~~~~~g~y~~   93 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNY--DESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSV--QISMSTLNARIAIGGLYGD   93 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTT--TCCGGGGCCEEECCTTTCC
T ss_pred             cCCCHHHHHHHHHHHHHh--ChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHh--cCChhhhhhhhccCCcccc
Confidence            468999999999999985  45 57788877       455555555444444333332  333221100    00    


Q ss_pred             C-----CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-
Q 048142           67 L-----KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-  140 (352)
Q Consensus        67 l-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-  140 (352)
                      +     --...+-.+...+...|++++|.++|..+...  .|+....-.+...+.+.+++++|+..|+...+. . .|. 
T Consensus        94 ~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~  169 (282)
T 4f3v_A           94 ITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFL  169 (282)
T ss_dssp             CEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHH
T ss_pred             cccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-Cccc
Confidence            0     01234556778889999999999999988764  355545555666888999999999999855432 1 221 


Q ss_pred             -hhHHHHHHHHHHHcCCHHHHHHHHHhC--CCC-Cc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHH
Q 048142          141 -IEHYGCLVYILGRAGRIAKAEELIKNM--PMA-LD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVIL  213 (352)
Q Consensus       141 -~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~-p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  213 (352)
                       ...+..+-.++.+.|++++|+..|++.  +.. |.  ...+.....++...|+.++|..+|+++....|. ...+..|
T Consensus       170 ~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL  247 (282)
T 4f3v_A          170 AGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHH
Confidence             236777888999999999999999988  222 43  346667777889999999999999999998776 5444433

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.54  E-value=1.4e-06  Score=64.70  Aligned_cols=97  Identities=11%  Similarity=-0.018  Sum_probs=58.1

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCL  147 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  147 (352)
                      .+...|..+...+.+.|++++|++.|++..+. .+.+...+..+...+...|++++|...+++..+.  .+.+...+..+
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l   90 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKR-NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQL--EPTFIKGYTRK   90 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT-CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCchHHHHHH
Confidence            45556777777777777777777777776654 1224556666666666777777777776666553  11234445555


Q ss_pred             HHHHHHcCCHHHHHHHHHhC
Q 048142          148 VYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m  167 (352)
                      ...|.+.|++++|...|++.
T Consensus        91 a~~~~~~~~~~~A~~~~~~~  110 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKA  110 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHH
Confidence            55555555555555555443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.52  E-value=4.2e-05  Score=66.02  Aligned_cols=197  Identities=11%  Similarity=0.020  Sum_probs=156.3

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH----hcc---CChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHH
Q 048142            6 ACEEALLLFREVQHKGLTGDKVTMVSLLLAC----THL---GALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIV   78 (352)
Q Consensus         6 ~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~----~~~---g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~   78 (352)
                      +++++++.++.+.... +-+..+|+.--..+    ...   +++++++++++.+.+...          .|-.+|+.-.-
T Consensus        84 ~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~p----------kny~aW~~R~~  152 (306)
T 3dra_A           84 NLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDP----------KNHHVWSYRKW  152 (306)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCT----------TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHH
Confidence            8999999999998853 23566777644444    445   789999999999998765          68889999988


Q ss_pred             HHHhcCChH--HHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCC------HHHHHHHHHHhhHhcCCCCChhHHHHHHHH
Q 048142           79 VLAMCGQGN--KALEYFYEMQIRGVKPDAITFVGVLVACSHAGL------VDERISHFNLMSEKYGIRPSIEHYGCLVYI  150 (352)
Q Consensus        79 ~~~~~g~~~--~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~------~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  150 (352)
                      .+.+.|+++  ++++.++++.+.... |...|+.-...+.+.+.      ++++++.++.+...  -+-|...|+-+-..
T Consensus       153 vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~--~p~n~SaW~y~~~l  229 (306)
T 3dra_A          153 LVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVK--CPQNPSTWNYLLGI  229 (306)
T ss_dssp             HHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHH--CSSCHHHHHHHHHH
T ss_pred             HHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHh--CCCCccHHHHHHHH
Confidence            888899988  999999999987443 77788877777777776      89999999988864  23378889999889


Q ss_pred             HHHcCCHHH-HHHHHHhC-CC----CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-hCCCCcchHHHHHHH
Q 048142          151 LGRAGRIAK-AEELIKNM-PM----ALDHFVLGGLLGACRIHDNLEAAERAAQQLLE-LLPDNGGSYVILSNR  216 (352)
Q Consensus       151 ~~~~g~~~~-A~~~~~~m-~~----~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~li~~  216 (352)
                      +.+.|+..+ +..+..+. ..    ..+...+..+...+.+.|+.++|.++++.+.+ .+|.....|+..++.
T Consensus       230 l~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~~Dpir~~yW~~~~~~  302 (306)
T 3dra_A          230 HERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSKYNPIRSNFWDYQISK  302 (306)
T ss_dssp             HHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHHHT
T ss_pred             HHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhccChHHHHHHHHHHhh
Confidence            999888554 55677765 21    24678899999999999999999999999987 688877777765543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.51  E-value=4.7e-06  Score=61.40  Aligned_cols=118  Identities=8%  Similarity=-0.053  Sum_probs=71.7

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...+..+...+...|++++|...+++..+...          .+...|..+...+...|++++|++.+++..+. .+.+
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~   79 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNP----------ANAVYFCNRAAAYSKLGNYAGAVQDCERAICI-DPAY   79 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTC
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCC----------CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc-CccC
Confidence            344556666666667777777777776665432          34456666666666777777777777666654 2223


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCC
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGR  156 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~  156 (352)
                      ...+..+...+...|++++|...+++..+.   .| +...+..+..++.+.|+
T Consensus        80 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           80 SKAYGRMGLALSSLNKHVEAVAYYKKALEL---DPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHhc---CccchHHHHHHHHHHHHHhc
Confidence            555666666666677777777766666543   23 44555555555555554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.51  E-value=3.7e-06  Score=62.33  Aligned_cols=119  Identities=10%  Similarity=-0.083  Sum_probs=98.1

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048142           23 TGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVK  102 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  102 (352)
                      +.+...|..+...+...|++++|...+++..+...          .+...|..+...|...|++++|+..|++..+.. +
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~----------~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~   81 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP----------KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-P   81 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT----------TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-T
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC----------CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-C
Confidence            34567888999999999999999999999987643          466789999999999999999999999998852 3


Q ss_pred             CCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcC
Q 048142          103 PDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAG  155 (352)
Q Consensus       103 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g  155 (352)
                      .+...+..+..++...|++++|...|++..+.   .| +...+..+..++.+.|
T Consensus        82 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           82 TFIKGYTRKAAALEAMKDYTKAMDVYQKALDL---DSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CGGGTHHHHHHHHHHHHHT
T ss_pred             CchHHHHHHHHHHHHHhhHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHHhc
Confidence            35778889999999999999999999998864   34 4556666777766655

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.51  E-value=3.3e-06  Score=71.61  Aligned_cols=186  Identities=10%  Similarity=-0.068  Sum_probs=141.2

Q ss_pred             ccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHH-------HHHHHhcCChHHHHHHHHHHHHcCCCCCHh----
Q 048142           38 HLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTAL-------IVVLAMCGQGNKALEYFYEMQIRGVKPDAI----  106 (352)
Q Consensus        38 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----  106 (352)
                      ..++...|.+.|.++.+...          .....|+.+       ...+.+.++..+++..+..-..  +.|+..    
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP----------~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~   85 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDE----------SACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARI   85 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhCh----------hhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhh
Confidence            68999999999999998765          355688888       5777777777777766665443  333321    


Q ss_pred             ------------------HHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCC
Q 048142          107 ------------------TFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMP  168 (352)
Q Consensus       107 ------------------t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  168 (352)
                                        ........+...|++++|.++|+.+...   .|+......+...+.+.+++++|+..|+...
T Consensus        86 ~~~g~y~~~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~---~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~  162 (282)
T 4f3v_A           86 AIGGLYGDITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA---GSEHLVAWMKAVVYGAAERWTDVIDQVKSAG  162 (282)
T ss_dssp             ECCTTTCCCEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT---TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGG
T ss_pred             ccCCcccccccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHcCCHHHHHHHHHHhh
Confidence                              1234566778899999999999998753   4644366667778999999999999999874


Q ss_pred             CCCcH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CC-CcchHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          169 MALDH----FVLGGLLGACRIHDNLEAAERAAQQLLELL--PD-NGGSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       169 ~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      ..|+.    ..+..+-.++...|++++|+..|++...+.  |. ..........++.+.|+.++|..+|+++....-
T Consensus       163 ~~~d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P  239 (282)
T 4f3v_A          163 KWPDKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP  239 (282)
T ss_dssp             GCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC
T ss_pred             ccCCcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            44432    367777889999999999999999987643  32 334567778889999999999999999987543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.50  E-value=5.1e-06  Score=64.00  Aligned_cols=92  Identities=10%  Similarity=-0.059  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYI  150 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~  150 (352)
                      .|..+...+.+.|++++|+..|++..... +-+...|..+..++...|++++|...|++..+.   .| ++..|..+..+
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l---~P~~~~~~~~lg~~  113 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFAL---GKNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---SSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhh---CCCCcHHHHHHHHH
Confidence            34444444444444444444444444421 112334444444444444444444444444432   22 33444444444


Q ss_pred             HHHcCCHHHHHHHHHhC
Q 048142          151 LGRAGRIAKAEELIKNM  167 (352)
Q Consensus       151 ~~~~g~~~~A~~~~~~m  167 (352)
                      |.+.|++++|...|++.
T Consensus       114 ~~~lg~~~eA~~~~~~a  130 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELV  130 (151)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHH
Confidence            44444444444444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.48  E-value=2.7e-05  Score=70.58  Aligned_cols=202  Identities=7%  Similarity=-0.129  Sum_probs=143.6

Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCCcccc-ccC------CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCC
Q 048142           33 LLACTHLGALEVGMWLHPYIMKKNIEVDVGLG-MAL------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIR-GVKPD  104 (352)
Q Consensus        33 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~-~~l------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~  104 (352)
                      ...+.+.|++++|.+.|..+.+.......... ...      .....+..|...|.+.|++++|.+.+.+.... +..++
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            45567889999999999999885433211111 000      11234788999999999999999999987652 11222


Q ss_pred             Hh----HHHHHHHHHhccCCHHHHHHHHHHhhHhc---CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-------CC
Q 048142          105 AI----TFVGVLVACSHAGLVDERISHFNLMSEKY---GIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-------PM  169 (352)
Q Consensus       105 ~~----t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~  169 (352)
                      ..    ..+.+-..+...|+.++|..++.......   +..+ -..++..+...|...|++++|..+++++       ..
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            22    23334444556789999999888766421   2233 2567788999999999999999999876       22


Q ss_pred             CCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CCCC----cchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          170 ALD-HFVLGGLLGACRIHDNLEAAERAAQQLLEL---LPDN----GGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       170 ~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      +|. ..+|..++..|...|++++|..++++....   .+.+    ...+..+...+...|++++|...|.+..
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            333 567888899999999999999999987652   2222    2456777888899999999998877664

>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=98.47  E-value=2.6e-06  Score=65.34  Aligned_cols=99  Identities=14%  Similarity=0.000  Sum_probs=70.6

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...+..+...+.+.|++++|...|++..+...          .+...|..+..+|...|++++|+..|++..... +.+
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~   88 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH----------YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXE   88 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTC
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc----------ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCC
Confidence            445566677777778888888888887776543          455677777777888888888888888777642 224


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHh
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEK  134 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  134 (352)
                      ...+..+..++...|++++|...|+...+.
T Consensus        89 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           89 PRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             THHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            556677777777788888888877777654

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.45  E-value=1e-05  Score=77.59  Aligned_cols=203  Identities=9%  Similarity=-0.023  Sum_probs=151.1

Q ss_pred             CCChhHHH-HHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC------CCCccccccCC--------
Q 048142            4 DSACEEAL-LLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNI------EVDVGLGMALK--------   68 (352)
Q Consensus         4 ~g~~~~A~-~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~------~~~~~~~~~l~--------   68 (352)
                      .|+.++|. ++|++.... .+.+...|...+...-+.|+++.|.++|+.+.+...      .++.      |        
T Consensus       356 ~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~------p~~~~~~~~  428 (679)
T 4e6h_A          356 KNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDD------PTNESAINQ  428 (679)
T ss_dssp             HSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHS------TTCHHHHHH
T ss_pred             cCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhcc------Ccchhhhhh
Confidence            46778896 999998864 344566677788888899999999999999886420      0000      2        


Q ss_pred             ----cHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-C-CCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChh
Q 048142           69 ----DVMTLTALIVVLAMCGQGNKALEYFYEMQIR-G-VKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIE  142 (352)
Q Consensus        69 ----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~  142 (352)
                          ....|...+....+.|+.+.|..+|.+..+. + ..+......+.+.-. ..++.+.|..+|+...+.  +.-+..
T Consensus       429 ~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~-~~~d~e~Ar~ife~~Lk~--~p~~~~  505 (679)
T 4e6h_A          429 LKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYH-ISKDTKTACKVLELGLKY--FATDGE  505 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHT-TTSCCHHHHHHHHHHHHH--HTTCHH
T ss_pred             hccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH--CCCchH
Confidence                2346888888888999999999999999875 2 223333333333322 235699999999999986  333566


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC----cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHH
Q 048142          143 HYGCLVYILGRAGRIAKAEELIKNM-PMAL----DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY  217 (352)
Q Consensus       143 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~  217 (352)
                      .+...++.....|+.+.|..+|++. ...|    ....|...+.--...|+.+.+..+.+++.+..|.+. ....+++-|
T Consensus       506 ~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~-~~~~f~~ry  584 (679)
T 4e6h_A          506 YINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN-KLEEFTNKY  584 (679)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC-HHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc-HHHHHHHHh
Confidence            6788888888999999999999986 3233    367899999999999999999999999999888764 444444444

>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=98.43  E-value=2.7e-07  Score=74.59  Aligned_cols=132  Identities=13%  Similarity=-0.025  Sum_probs=90.6

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC--------------ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP--------------SIEHYGCLVYILGRAGRIAKAEELIKNM-PMA  170 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p--------------~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~  170 (352)
                      ..+..+...+...|++++|...|++..+...-.|              ....+..+..+|.+.|++++|...+++. ...
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            3455556666666777777777766664211111              0267778888889999999999998876 223


Q ss_pred             C-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHH-HHHHHHHhcC
Q 048142          171 L-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVK-RIRELMAERN  237 (352)
Q Consensus       171 p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~m~~~g  237 (352)
                      | +...|..+..++...|++++|...|++..+..|.+...+..+...+...++.+++. ..+..|...+
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            3 57788888889999999999999999999988888888888888888888887776 5566665443

>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=98.43  E-value=2.8e-05  Score=68.12  Aligned_cols=217  Identities=13%  Similarity=0.051  Sum_probs=144.9

Q ss_pred             CCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccC-ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLG-ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+..++|+++++.+...  .| +..+|+.--..+...| .+++++++++.+.....          .+..+|+.-...+.
T Consensus        67 ~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP----------Kny~aW~hR~wlL~  134 (349)
T 3q7a_A           67 EEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL----------KSYQVWHHRLLLLD  134 (349)
T ss_dssp             TCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC----------CCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC----------CcHHHHHHHHHHHH
Confidence            34557788888888874  44 5566777666666777 58899999998887654          56678888777777


Q ss_pred             hc-C-ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHH--------HHHHHHHHhhHhcCCCCChhHHHHHHHHH
Q 048142           82 MC-G-QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVD--------ERISHFNLMSEKYGIRPSIEHYGCLVYIL  151 (352)
Q Consensus        82 ~~-g-~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~--------~a~~~~~~m~~~~g~~p~~~~~~~li~~~  151 (352)
                      +. + ++++++++++++.+.. +-|..+|+--.-.+.+.|.++        ++++.++++.+. . .-|...|+.....+
T Consensus       135 ~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~-d-p~N~SAW~~R~~lL  211 (349)
T 3q7a_A          135 RISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV-D-GRNNSAWGWRWYLR  211 (349)
T ss_dssp             HHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHH
T ss_pred             HhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh-C-CCCHHHHHHHHHHH
Confidence            66 6 8889999998888753 236667766555555555555        788888888764 2 23677777777777


Q ss_pred             HHcCC-------HHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCH--------------------HHHHHHHHHHHHh
Q 048142          152 GRAGR-------IAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNL--------------------EAAERAAQQLLEL  202 (352)
Q Consensus       152 ~~~g~-------~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~~~~~  202 (352)
                      .+.++       ++++++.+++. ...| |...|+-+-..+.+.|..                    .........+...
T Consensus       212 ~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  291 (349)
T 3q7a_A          212 VSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSD  291 (349)
T ss_dssp             TTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-
T ss_pred             HhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhc
Confidence            77765       67788887765 3334 577777766666655543                    1222222222221


Q ss_pred             C------CCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          203 L------PDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       203 ~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      .      ++++.....|.+.|...|+.++|.++++.+.+
T Consensus       292 ~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          292 PLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            1      34555667888888888888899998888753

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.43  E-value=2.8e-06  Score=60.82  Aligned_cols=97  Identities=11%  Similarity=-0.002  Sum_probs=63.9

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC--CcchHHHHHHH
Q 048142          141 IEHYGCLVYILGRAGRIAKAEELIKNM-PMA-LDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPD--NGGSYVILSNR  216 (352)
Q Consensus       141 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~li~~  216 (352)
                      ...+..+...+.+.|++++|...|++. ... .+...|..+...+...|++++|...+++..+..|.  +...+..+...
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            344555566666666666666666654 112 24556666666777777777777777777776666  66677777777


Q ss_pred             Hhhc-CChHHHHHHHHHHHhcC
Q 048142          217 YSSS-RKWKKVKRIRELMAERN  237 (352)
Q Consensus       217 ~~~~-g~~~~a~~~~~~m~~~g  237 (352)
                      |... |++++|.+.++......
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcc
Confidence            7777 77777777777776544

>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=98.40  E-value=3.2e-06  Score=66.66  Aligned_cols=126  Identities=11%  Similarity=0.041  Sum_probs=94.4

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH-HHHcCCH--
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI-LGRAGRI--  157 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~-~~~~g~~--  157 (352)
                      ...|++++|+..|++..+.. +.+...+..+...+...|++++|...|++..+. . +.+...+..+..+ |...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL-R-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-H-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-C-CCCHHHHHHHHHHHHHhcCCcch
Confidence            35678888999988887752 346678888888899999999999999988764 1 2256677777777 7788888  


Q ss_pred             HHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcch
Q 048142          158 AKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGS  209 (352)
Q Consensus       158 ~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  209 (352)
                      ++|...|++. ...| +...|..+...+...|++++|...+++..+..|.+...
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  151 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINR  151 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccH
Confidence            9999988886 3334 46778888888899999999999999988887776543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.40  E-value=4.3e-06  Score=63.46  Aligned_cols=94  Identities=11%  Similarity=-0.072  Sum_probs=55.6

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh
Q 048142          142 EHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS  219 (352)
Q Consensus       142 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~  219 (352)
                      ..+..+...+.+.|++++|...|++. ...| +...|..+...+...|++++|...|++..+..|.++..|..+..+|..
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            33444455556666666666666654 2222 355555566666666666666666666666666666666666666666


Q ss_pred             cCChHHHHHHHHHHHh
Q 048142          220 SRKWKKVKRIRELMAE  235 (352)
Q Consensus       220 ~g~~~~a~~~~~~m~~  235 (352)
                      .|++++|.+.|+...+
T Consensus        99 ~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           99 LGDLDGAESGFYSARA  114 (142)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6666666666665543

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.39  E-value=8.1e-06  Score=71.81  Aligned_cols=139  Identities=11%  Similarity=-0.084  Sum_probs=98.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccc---cC--CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGM---AL--KDVMTLTALIVVLAMCGQGNKALEYFYEMQIR   99 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~---~l--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~   99 (352)
                      +...|..+...+.+.|++++|...|++..+...........   .+  .....|..+..+|.+.|++++|+..|++..+.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45678889999999999999999999999865321000000   00  00467888888888888888888888888775


Q ss_pred             CCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHH-HHHHhC
Q 048142          100 GVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAE-ELIKNM  167 (352)
Q Consensus       100 g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~-~~~~~m  167 (352)
                      . +.+...|..+..++...|++++|...|++..+.   .| +...+..+..++.+.|+.++|. ..|+.|
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l---~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL---YPNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2 335667778888888888888888888887753   44 5667777777777777777773 344433

>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=98.38  E-value=5.2e-06  Score=61.38  Aligned_cols=91  Identities=10%  Similarity=-0.058  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcC
Q 048142          144 YGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSR  221 (352)
Q Consensus       144 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g  221 (352)
                      +..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..+++..+..|.+...|..+..+|...|
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~   86 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVK   86 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHh
Confidence            333444444455555555554443 1112 24444444455555555555555555555555555555555555555555


Q ss_pred             ChHHHHHHHHHHH
Q 048142          222 KWKKVKRIRELMA  234 (352)
Q Consensus       222 ~~~~a~~~~~~m~  234 (352)
                      ++++|.+.|++..
T Consensus        87 ~~~~A~~~~~~al   99 (126)
T 3upv_A           87 EYASALETLDAAR   99 (126)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            5555555555443

>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=98.37  E-value=0.00027  Score=61.51  Aligned_cols=216  Identities=12%  Similarity=0.008  Sum_probs=153.8

Q ss_pred             CCh-hHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCC----------hHHHHHHHHHHHHcCCCCCccccccCCcHHH
Q 048142            5 SAC-EEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGA----------LEVGMWLHPYIMKKNIEVDVGLGMALKDVMT   72 (352)
Q Consensus         5 g~~-~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~   72 (352)
                      |.+ ++|++++..+...  .| +..+|+.--..+...+.          +++++.+++.+.....          .+..+
T Consensus        43 ~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~P----------Kny~a  110 (331)
T 3dss_A           43 GELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP----------KSYGT  110 (331)
T ss_dssp             TCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT----------TCHHH
T ss_pred             CCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCC----------CCHHH
Confidence            444 5899999999874  56 45567653333333332          6788999999988654          67788


Q ss_pred             HHHHHHHHHhcC--ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCC-HHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           73 LTALIVVLAMCG--QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGL-VDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        73 ~~~li~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~-~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      |+.-.-.+.+.+  ++++++++++++.+.. +-|..+|+.---.+...|. .+++++.++.+.+. . .-|...|+....
T Consensus       111 W~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~-~-p~N~SAW~~R~~  187 (331)
T 3dss_A          111 WHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR-N-FSNYSSWHYRSC  187 (331)
T ss_dssp             HHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-C-SCCHHHHHHHHH
T ss_pred             HHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH-C-CCCHHHHHHHHH
Confidence            998888888887  4899999999999864 3377788877777777888 68999999999875 2 337777877776


Q ss_pred             HHHHc--------------CCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHHh
Q 048142          150 ILGRA--------------GRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIH-----------DNLEAAERAAQQLLEL  202 (352)
Q Consensus       150 ~~~~~--------------g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~-----------g~~~~a~~~~~~~~~~  202 (352)
                      .+.+.              +.++++++.+.+. ...| |...|+-+-..+...           +.++++++.++++.+.
T Consensus       188 ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~  267 (331)
T 3dss_A          188 LLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL  267 (331)
T ss_dssp             HHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh
Confidence            66655              4578888888876 2234 577776555444444           4578999999999999


Q ss_pred             CCCCcchHHHHHHH---HhhcCChHHHHHHHHHHHh
Q 048142          203 LPDNGGSYVILSNR---YSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       203 ~~~~~~~~~~li~~---~~~~g~~~~a~~~~~~m~~  235 (352)
                      .|.+...+..++..   ....|..+++...+.++.+
T Consensus       268 ~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          268 EPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             CTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             CcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence            99885555444322   2245667777778887765

>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=98.35  E-value=8.4e-06  Score=61.00  Aligned_cols=95  Identities=9%  Similarity=-0.115  Sum_probs=49.3

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHH
Q 048142          140 SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY  217 (352)
Q Consensus       140 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~  217 (352)
                      +...+..+...+...|++++|...|++. ...| +...|..+...+...|++++|...+++..+..|.+...+..+...|
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   87 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   87 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHH
Confidence            3444445555555555555555555543 1112 2445555555555555555555555555555555555555555555


Q ss_pred             hhcCChHHHHHHHHHHH
Q 048142          218 SSSRKWKKVKRIRELMA  234 (352)
Q Consensus       218 ~~~g~~~~a~~~~~~m~  234 (352)
                      ...|++++|.+.|++..
T Consensus        88 ~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           88 LEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHH
Confidence            55555555555555544

>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=98.35  E-value=1.1e-05  Score=58.12  Aligned_cols=95  Identities=13%  Similarity=-0.004  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      ...|..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++..+.  .+.+...+..+..
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~   80 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL--KPDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh--CcccHHHHHHHHH
Confidence            4455555556666666666666666655431 223444555555555555555555555555442  1113444444444


Q ss_pred             HHHHcCCHHHHHHHHHhC
Q 048142          150 ILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m  167 (352)
                      +|...|++++|...+++.
T Consensus        81 ~~~~~~~~~~A~~~~~~~   98 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEG   98 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHH
Confidence            555555555555555443

>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=98.35  E-value=1.1e-05  Score=60.00  Aligned_cols=97  Identities=9%  Similarity=-0.022  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCCC
Q 048142           27 VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRG--VKPD  104 (352)
Q Consensus        27 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~  104 (352)
                      .++..+-..+.+.|++++|++.|++.++...          .+...|+.+..+|.+.|++++|++.|++..+..  ..++
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p----------~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~   78 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDP----------SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRAD   78 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchh
Confidence            3455556666666666666666666665432          344556666666666666666666666655421  1111


Q ss_pred             ----HhHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142          105 ----AITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus       105 ----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                          ..+|..+-.++...|++++|...|++...
T Consensus        79 ~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           79 YKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                12344455555556666666666655544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.34  E-value=1.8e-05  Score=61.53  Aligned_cols=99  Identities=11%  Similarity=-0.057  Sum_probs=61.4

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...|..+...+.+.|++++|...|++..+...          .+...|..+..+|.+.|++++|+..|++..+.. +-+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~   78 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAP----------ANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKY   78 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCC
Confidence            344556666666666777777776666666442          344566666666666677777777666666542 223


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHh
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEK  134 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  134 (352)
                      ...|..+..++...|++++|...|++..+.
T Consensus        79 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           79 SKAWSRLGLARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            555666666666666666666666666553

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.32  E-value=2.1e-05  Score=59.46  Aligned_cols=93  Identities=16%  Similarity=0.050  Sum_probs=44.0

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhH
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD----AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEH  143 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~  143 (352)
                      +...|..+...+...|++++|++.|++..+.  .|+    ...+..+..++...|++++|...+++..+.   .| +...
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~  101 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK---DGGDVKA  101 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---TSCCHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh---CccCHHH
Confidence            4445555555555666666666666655542  333    334444444444555555555555444432   12 2333


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHh
Q 048142          144 YGCLVYILGRAGRIAKAEELIKN  166 (352)
Q Consensus       144 ~~~li~~~~~~g~~~~A~~~~~~  166 (352)
                      +..+..+|...|++++|...|++
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~  124 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQR  124 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            33444444444444444444433

>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=98.30  E-value=4e-05  Score=55.09  Aligned_cols=109  Identities=9%  Similarity=-0.072  Sum_probs=87.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...+..+...+...|++++|...+++..+...          .+...|..+...|...|++++|...+++..+.. +.+
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~   71 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDP----------HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDW   71 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTC
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC----------CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-ccc
Confidence            456778888889999999999999999988653          456788899999999999999999999988752 335


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCL  147 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~l  147 (352)
                      ...+..+..++...|++++|...+++..+   ..| +...+..+
T Consensus        72 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~l  112 (118)
T 1elw_A           72 GKGYSRKAAALEFLNRFEEAKRTYEEGLK---HEANNPQLKEGL  112 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT---TCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHH---cCCCCHHHHHHH
Confidence            77788889999999999999999998875   344 34444433

>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=98.30  E-value=3.6e-06  Score=72.07  Aligned_cols=179  Identities=11%  Similarity=0.007  Sum_probs=120.6

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      .+.|++++|+..|++....  .| +...|..+..++.+.|++++|...+++..+...          .+...|..+..+|
T Consensus        15 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p----------~~~~~~~~lg~~~   82 (281)
T 2c2l_A           15 FVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDG----------QSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT----------TCHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHH
Confidence            4679999999999999885  44 788889999999999999999999999987543          4667899999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCH-hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDA-ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~  159 (352)
                      ...|++++|+..|++..+.  .|+. ..+...+....+   ..++.. +...... ....+......+...  ..|+.++
T Consensus        83 ~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~-~~~~~~~i~~~l~~l--~~~~~~~  153 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSL--AKEQRLNFGDDIPSALR---IAKKKR-WNSIEER-RIHQESELHSYLTRL--IAAERER  153 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--HHHTTCCCCSHHHHHHH---HHHHHH-HHHHHHT-CCCCCCHHHHHHHHH--HHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh--CccchhhHHHHHHHHHH---HHHHHH-HHHHHHH-HHhhhHHHHHHHHHH--HHHHHHH
Confidence            9999999999999998763  2221 111112222111   111222 1222222 344455554444333  2689999


Q ss_pred             HHHHHHhC-CCCCcHH-HHHHHHHHHHhc-CCHHHHHHHHHHHHH
Q 048142          160 AEELIKNM-PMALDHF-VLGGLLGACRIH-DNLEAAERAAQQLLE  201 (352)
Q Consensus       160 A~~~~~~m-~~~p~~~-~~~~li~~~~~~-g~~~~a~~~~~~~~~  201 (352)
                      |.+.++.. ...|+.. ....+-..+... +.+++|.++|+...+
T Consensus       154 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          154 ELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            99998876 5566643 333343344444 567888899888755

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.30  E-value=8.2e-06  Score=63.47  Aligned_cols=104  Identities=13%  Similarity=-0.045  Sum_probs=82.3

Q ss_pred             CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHH
Q 048142          104 DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLL  180 (352)
Q Consensus       104 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li  180 (352)
                      +...+..+...+...|++++|...|++..+.   .| +...|..+..+|.+.|++++|...|++. ...| +...|..+.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg   86 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI---APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            4556777888888889999999888888764   34 6777888888888888999888888876 3334 477888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCcchH
Q 048142          181 GACRIHDNLEAAERAAQQLLELLPDNGGSY  210 (352)
Q Consensus       181 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  210 (352)
                      ..+...|++++|...|++..+..|.+...|
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  116 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEAEGNGGSDA  116 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHSSSCCHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCCCchHHH
Confidence            888888889999888888888777776654

>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=98.29  E-value=1.3e-05  Score=59.03  Aligned_cols=98  Identities=12%  Similarity=0.023  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CCC
Q 048142           27 VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGV--KPD  104 (352)
Q Consensus        27 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~  104 (352)
                      ..|..+...+...|++++|...+.+..+...          .+...|..+...|...|++++|...|++......  .++
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~----------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~   74 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDP----------TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENRED   74 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC----------ccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchh
Confidence            4455666666667777777777776666542          3445666666667777777777777766655321  112


Q ss_pred             ----HhHHHHHHHHHhccCCHHHHHHHHHHhhHh
Q 048142          105 ----AITFVGVLVACSHAGLVDERISHFNLMSEK  134 (352)
Q Consensus       105 ----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  134 (352)
                          ..++..+..++...|++++|...|+...+.
T Consensus        75 ~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           75 YRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence                445556666666666666666666666553

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.29  E-value=1.4e-05  Score=60.48  Aligned_cols=108  Identities=13%  Similarity=-0.076  Sum_probs=64.1

Q ss_pred             CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHH
Q 048142          104 DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS----IEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLG  177 (352)
Q Consensus       104 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~  177 (352)
                      +...+..+...+...|++++|...|++..+   ..|+    ...+..+...|...|++++|...+++. ...| +...|.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHH
Confidence            345556666666666677777666666653   3444    455566666666666666666666654 2222 355555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHH
Q 048142          178 GLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILS  214 (352)
Q Consensus       178 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li  214 (352)
                      .+...+...|++++|...+++..+..|.+...+..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~  140 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALR  140 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHH
Confidence            6666666666666666666666666555554444333

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.29  E-value=3.5e-05  Score=69.80  Aligned_cols=194  Identities=9%  Similarity=-0.069  Sum_probs=140.0

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCC----------------HHHHHHHHHHHhccCChHHHHHHHHHHHHcC-CCCCcccc
Q 048142            2 VEDSACEEALLLFREVQHKGLTGD----------------KVTMVSLLLACTHLGALEVGMWLHPYIMKKN-IEVDVGLG   64 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~----------------~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~~   64 (352)
                      .+.|++++|++.|....+......                ...+..+...|...|++++|.+.+.++.+.- ..++.   
T Consensus        15 ~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~---   91 (434)
T 4b4t_Q           15 VNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS---   91 (434)
T ss_dssp             HHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH---
T ss_pred             HHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch---
Confidence            356899999999999987432211                1247789999999999999999999877531 11111   


Q ss_pred             ccCCcH-HHHHHHHHHHHhcCChHHHHHHHHHHHH----cCCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCC
Q 048142           65 MALKDV-MTLTALIVVLAMCGQGNKALEYFYEMQI----RGVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIR  138 (352)
Q Consensus        65 ~~l~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~  138 (352)
                         +.. ...+.+-..+...|++++|.+++++...    .+..+. ..++..+...+...|++++|..++++......-.
T Consensus        92 ---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~  168 (434)
T 4b4t_Q           92 ---KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKL  168 (434)
T ss_dssp             ---HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTS
T ss_pred             ---HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhc
Confidence               111 2334444555567899999999988754    334444 4567789999999999999999999877642221


Q ss_pred             ---C-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048142          139 ---P-SIEHYGCLVYILGRAGRIAKAEELIKNM-------PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       139 ---p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  201 (352)
                         + ...++..++..|...|++++|..++++.       +..|.  ...+..+...+...|++++|...|.+..+
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          169 DDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             SCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence               1 2567888999999999999999998875       22222  34566677778889999999999888765

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.28  E-value=4.4e-06  Score=61.64  Aligned_cols=94  Identities=9%  Similarity=-0.143  Sum_probs=78.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhc
Q 048142          143 HYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSS  220 (352)
Q Consensus       143 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~  220 (352)
                      .+..+...+.+.|++++|...|++. ...| +...|..+...+...|++++|+..+++..+..|.+...+..+...|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3455667788889999999998887 3344 5778888888889999999999999999998888888999999999999


Q ss_pred             CChHHHHHHHHHHHhc
Q 048142          221 RKWKKVKRIRELMAER  236 (352)
Q Consensus       221 g~~~~a~~~~~~m~~~  236 (352)
                      |++++|...+++..+.
T Consensus        99 g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           99 HNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999887653

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.28  E-value=2e-05  Score=56.20  Aligned_cols=99  Identities=7%  Similarity=-0.147  Sum_probs=72.7

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP-  103 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-  103 (352)
                      +...+..+...+...|++++|...+++..+...          .+...|..+...|...|++++|++.|++..+.. +. 
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~----------~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~   73 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDP----------EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDE   73 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC----------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCT
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc----------CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-ccc
Confidence            345566677777788888888888888777543          345677778888888888888888888877642 22 


Q ss_pred             -CHhHHHHHHHHHhcc-CCHHHHHHHHHHhhHh
Q 048142          104 -DAITFVGVLVACSHA-GLVDERISHFNLMSEK  134 (352)
Q Consensus       104 -~~~t~~~ll~~~~~~-g~~~~a~~~~~~m~~~  134 (352)
                       +...+..+..++... |++++|.+.++.....
T Consensus        74 ~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           74 YNKDVWAAKADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             TCHHHHHHHHHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             chHHHHHHHHHHHHHHhCCHHHHHHHHHHHhhc
Confidence             466677777788888 8888888888887754

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.27  E-value=1e-05  Score=61.97  Aligned_cols=96  Identities=10%  Similarity=-0.069  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC----h
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVK-PD----AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS----I  141 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~  141 (352)
                      .++..+...|...|++++|++.+++..+.... ++    ..++..+...+...|++++|...+++..+...-.++    .
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            46777788888888888888888877653110 11    135556666666777777777777665542111111    2


Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHh
Q 048142          142 EHYGCLVYILGRAGRIAKAEELIKN  166 (352)
Q Consensus       142 ~~~~~li~~~~~~g~~~~A~~~~~~  166 (352)
                      ..+..+...|...|++++|...+++
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~  114 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLK  114 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            3444455555555555555555544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.27  E-value=3.3e-05  Score=58.44  Aligned_cols=98  Identities=11%  Similarity=-0.036  Sum_probs=69.3

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      ...+..+...+.+.|++++|...|++..+...          .+...|..+..+|.+.|++++|+..|++..... +.+.
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p----------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~   86 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLDH----------YDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEP   86 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCT
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhCC----------ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCc
Confidence            34555666677777888888888887777543          455677777777888888888888888777642 2245


Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHh
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEK  134 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  134 (352)
                      ..+..+..++...|++++|...|+...+.
T Consensus        87 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           87 RFPFHAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            56667777777788888888877777653

>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=98.26  E-value=4.8e-05  Score=56.04  Aligned_cols=96  Identities=6%  Similarity=-0.119  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHh
Q 048142           27 VTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAI  106 (352)
Q Consensus        27 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  106 (352)
                      ..|..+...+.+.|++++|...|++..+...          .+...|..+..+|.+.|++++|+..|++..+.. +.+..
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p----------~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~   73 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRAP----------EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVR   73 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC----------CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHH
Confidence            3455555555666666666666666655432          344556666666666666666666666665531 22344


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142          107 TFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus       107 t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      .|..+..++...|++++|...|++..+
T Consensus        74 ~~~~lg~~~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           74 AYIRKATAQIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCHHHHHHHHHHHHH
Confidence            555556666666666666666665554

>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=98.25  E-value=4.5e-06  Score=62.18  Aligned_cols=92  Identities=5%  Similarity=-0.066  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc-------chHHHHH
Q 048142          144 YGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG-------GSYVILS  214 (352)
Q Consensus       144 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-------~~~~~li  214 (352)
                      +..+...|.+.|++++|+..|++. ...| +...|..+..+|...|++++|++.+++..+..|.+.       .+|..+.
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg   90 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAG   90 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHH
Confidence            334444555555555555555543 2222 244455555555555555555555555444322221       2344444


Q ss_pred             HHHhhcCChHHHHHHHHHHHh
Q 048142          215 NRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       215 ~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..+...|++++|.+.|++...
T Consensus        91 ~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           91 NAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHh
Confidence            455555555555555555443

>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=98.25  E-value=6.6e-06  Score=60.63  Aligned_cols=97  Identities=8%  Similarity=-0.071  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCC-CCC----hhHH
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGI-RPS----IEHY  144 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~-~p~----~~~~  144 (352)
                      ...|..+...+...|++++|+..|++..... +.+...+..+...+...|++++|...+++..+...- .++    ...+
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            3467777777888888888888888877652 335566777777777777888777777776653110 111    4555


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC
Q 048142          145 GCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      ..+...|.+.|++++|...|++.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~  105 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKS  105 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHH
Confidence            56666666666666666666654

>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=98.23  E-value=4.3e-05  Score=56.99  Aligned_cols=98  Identities=8%  Similarity=-0.159  Sum_probs=52.2

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  104 (352)
                      +...|..+...+...|++++|...|.+..+...          .+...|..+..+|...|++++|+..|++..+.. +.+
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~----------~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~   76 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP----------LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQS   76 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc----------CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chh
Confidence            345555555555555666666655555555432          234455555555555555666655555555431 123


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      ...+..+..++...|++++|...|++..+
T Consensus        77 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           77 VKAHFFLGQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            44455555555555555555555555443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.19  E-value=1.1e-05  Score=74.55  Aligned_cols=123  Identities=11%  Similarity=0.019  Sum_probs=97.7

Q ss_pred             HHhccCCHHHHHHHHHHhhHhcC--CC---C-ChhHHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCc-HHHHH
Q 048142          114 ACSHAGLVDERISHFNLMSEKYG--IR---P-SIEHYGCLVYILGRAGRIAKAEELIKNM---------PMALD-HFVLG  177 (352)
Q Consensus       114 ~~~~~g~~~~a~~~~~~m~~~~g--~~---p-~~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~  177 (352)
                      .+...|++++|..++++..+...  +.   | ...+++.|..+|...|++++|..++++.         +..|+ ..+++
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            35578999999999988776422  11   2 2567899999999999999999998875         45566 57799


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHh-----CCCC---cchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          178 GLLGACRIHDNLEAAERAAQQLLEL-----LPDN---GGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       178 ~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      .|...|...|++++|+.++++..+.     ++..   ..+.+.+-.++...+.+++|..+|..+++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999997652     3333   344567777888999999999999999863

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.17  E-value=1.5e-05  Score=60.88  Aligned_cols=130  Identities=14%  Similarity=-0.008  Sum_probs=100.5

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCc-H
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS----IEHYGCLVYILGRAGRIAKAEELIKNM-------PMALD-H  173 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~  173 (352)
                      .++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|...+++.       +..+. .
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            46777888889999999999999988764111122    247788889999999999999999876       11111 4


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhC---C---CCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          174 FVLGGLLGACRIHDNLEAAERAAQQLLELL---P---DNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       174 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      .++..+...+...|++++|...+++..+..   .   ....++..+...|...|++++|.+.+++..+
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            567778889999999999999999976531   1   1235677888999999999999999998764

>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=98.15  E-value=7.9e-06  Score=75.54  Aligned_cols=119  Identities=11%  Similarity=-0.003  Sum_probs=91.4

Q ss_pred             HHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcC
Q 048142          111 VLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHD  187 (352)
Q Consensus       111 ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g  187 (352)
                      +...+.+.|++++|...+++..+.   .| +...|..+..+|.+.|++++|...+++. ...| +...|..+..++...|
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   88 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            334556778888888888887764   34 5777888888888888888888888876 3344 4778888889999999


Q ss_pred             CHHHHHHHHHHHHHhCCCCcchHHHHHHH--HhhcCChHHHHHHHHH
Q 048142          188 NLEAAERAAQQLLELLPDNGGSYVILSNR--YSSSRKWKKVKRIREL  232 (352)
Q Consensus       188 ~~~~a~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~~  232 (352)
                      ++++|.+.+++..+..|.+...+..+..+  +.+.|++++|.+.+++
T Consensus        89 ~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           89 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             CHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            99999999999998888888888877777  8888999999999883

>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=98.15  E-value=2.5e-05  Score=71.73  Aligned_cols=95  Identities=17%  Similarity=0.122  Sum_probs=74.4

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHh
Q 048142          141 IEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS  218 (352)
Q Consensus       141 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~  218 (352)
                      ...|..+..+|.+.|++++|+..+++. ...| +...|..+..+|...|++++|...|++..+..|.+...+..+..++.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            467788888899999999999998886 3333 57888888899999999999999999999999999999999999999


Q ss_pred             hcCChHHHH-HHHHHHHh
Q 048142          219 SSRKWKKVK-RIRELMAE  235 (352)
Q Consensus       219 ~~g~~~~a~-~~~~~m~~  235 (352)
                      +.++.+++. +.+..|..
T Consensus       397 ~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          397 KAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            999988776 45555543

>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=98.11  E-value=5e-05  Score=70.13  Aligned_cols=157  Identities=8%  Similarity=-0.041  Sum_probs=113.1

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHH
Q 048142           31 SLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVG  110 (352)
Q Consensus        31 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  110 (352)
                      .+...+.+.|++++|.+.+++..+...          .+...|..+..+|.+.|++++|++.|++..+.. +-+..++..
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~p----------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~   79 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELNP----------SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYR   79 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhCC----------ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            334456788999999999999988643          457889999999999999999999999999852 335778899


Q ss_pred             HHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHH--HHHcCCHHHHHHHHH-----------hC-CC------
Q 048142          111 VLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYI--LGRAGRIAKAEELIK-----------NM-PM------  169 (352)
Q Consensus       111 ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~--~~~~g~~~~A~~~~~-----------~m-~~------  169 (352)
                      +..++...|++++|...|++..+.   .| +...+..+..+  +.+.|++++|.+.++           +. ..      
T Consensus        80 lg~~~~~~g~~~eA~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~al~~~~~~~~  156 (477)
T 1wao_1           80 RAASNMALGKFRAALRDYETVVKV---KPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSLDIESMTIEDEYSG  156 (477)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH---STTCTTHHHHHHHHHHHHHHHHHCCC------CCSTTTCCTTSSCCCCTTCCS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHHHHHHHhccccccchhHhhhhhhhccccccccc
Confidence            999999999999999999999875   33 34455555555  888899999999998           32 11      


Q ss_pred             ------CCcHHHHHHHHHHHHhcCCH--HHHHHHHHHHHH
Q 048142          170 ------ALDHFVLGGLLGACRIHDNL--EAAERAAQQLLE  201 (352)
Q Consensus       170 ------~p~~~~~~~li~~~~~~g~~--~~a~~~~~~~~~  201 (352)
                            ..+......++..+...+.+  +.+..++.+..+
T Consensus       157 ~~~~~~~itl~~l~~lie~l~~~~~l~e~~v~~L~~~a~e  196 (477)
T 1wao_1          157 PKLEDGKVTISFMKELMQWYKDQKKLHRKCAYQILVQVKE  196 (477)
T ss_dssp             CCCGGGSCCHHHHHHHHHHHHTCCCCCHHHHHHHHHHHHH
T ss_pred             cccccccccHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence                  12344566677777665553  344445555544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.11  E-value=5.6e-05  Score=55.69  Aligned_cols=91  Identities=15%  Similarity=0.015  Sum_probs=42.2

Q ss_pred             HHhccCCHHHHHHHHHHhhHhcCCCCC-h---hHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc----HHHHHHHHHHHH
Q 048142          114 ACSHAGLVDERISHFNLMSEKYGIRPS-I---EHYGCLVYILGRAGRIAKAEELIKNM-PMALD----HFVLGGLLGACR  184 (352)
Q Consensus       114 ~~~~~g~~~~a~~~~~~m~~~~g~~p~-~---~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~li~~~~  184 (352)
                      .+...|++++|...|+...+.   .|+ .   ..+..+..+|.+.|++++|...|++. ...|+    ...+..+...+.
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A           11 DALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHH
Confidence            334444455555544444432   111 1   23444444455555555555555443 11111    334444555555


Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCc
Q 048142          185 IHDNLEAAERAAQQLLELLPDNG  207 (352)
Q Consensus       185 ~~g~~~~a~~~~~~~~~~~~~~~  207 (352)
                      ..|++++|...++++.+..|.+.
T Consensus        88 ~~g~~~~A~~~~~~~~~~~p~~~  110 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVATQYPGSD  110 (129)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTSH
T ss_pred             HcCCHHHHHHHHHHHHHHCCCCh
Confidence            55666666666655555544443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.10  E-value=1.9e-05  Score=58.33  Aligned_cols=93  Identities=15%  Similarity=0.123  Sum_probs=78.7

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCCc-H---HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC---cchHHHHHHH
Q 048142          145 GCLVYILGRAGRIAKAEELIKNM-PMALD-H---FVLGGLLGACRIHDNLEAAERAAQQLLELLPDN---GGSYVILSNR  216 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~li~~  216 (352)
                      ..+...+.+.|++++|...|++. ...|+ .   ..+..+...+...|++++|...+++..+..|.+   +..+..+..+
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            34567788999999999999987 22233 2   577788889999999999999999999988887   6678889999


Q ss_pred             HhhcCChHHHHHHHHHHHhcC
Q 048142          217 YSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       217 ~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      |...|++++|.+.|++..+..
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHcCCHHHHHHHHHHHHHHC
Confidence            999999999999999998754

>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=98.08  E-value=7e-05  Score=60.10  Aligned_cols=132  Identities=10%  Similarity=0.009  Sum_probs=93.4

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-CccccccCCc-----------HHHHHHHHHHHHhcCChHHHHHHH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEV-DVGLGMALKD-----------VMTLTALIVVLAMCGQGNKALEYF   93 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~l~~-----------~~~~~~li~~~~~~g~~~~A~~~~   93 (352)
                      ...+..+...+...|++++|...|.+..+..... +.      +.           ...|..+..+|.+.|++++|+..+
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~------~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  111 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEW------DDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHA  111 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTC------CCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccccc------chhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            4567778888899999999999999998854221 00      11           267888888888899999999999


Q ss_pred             HHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHH-HHHHhC
Q 048142           94 YEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAE-ELIKNM  167 (352)
Q Consensus        94 ~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~-~~~~~m  167 (352)
                      ++..+. .+.+...+..+..++...|++++|...|++..+.   .| +...+..+..++...++.+++. ..|..+
T Consensus       112 ~~al~~-~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          112 SKVLKI-DKNNVKALYKLGVANMYFGFLEEAKENLYKAASL---NPNNLDIRNSYELCVNKLKEARKKDKLTFGGM  183 (198)
T ss_dssp             HHHHHH-STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHHHC---------
T ss_pred             HHHHHh-CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888875 2335667788888888888888888888888754   34 5666777777777777666665 334433

>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=98.05  E-value=0.00074  Score=58.72  Aligned_cols=195  Identities=9%  Similarity=-0.007  Sum_probs=145.4

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC--ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC
Q 048142            7 CEEALLLFREVQHKGLTGDKVTMVSLLLACTHLG--ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG   84 (352)
Q Consensus         7 ~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g   84 (352)
                      +++++.+++.+.... +-+..+|+.--..+.+.+  .+++++.+++.+.+...          .|-..|+.-.-.+...|
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dp----------rNy~AW~~R~~vl~~l~  158 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE----------RNFHCWDYRRFVAAQAA  158 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHhC
Confidence            578899999998753 337889988777777778  48999999999998765          78889999888888888


Q ss_pred             C-hHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhcc--------------CCHHHHHHHHHHhhHhcCCCC-ChhHHHHHH
Q 048142           85 Q-GNKALEYFYEMQIRGVKPDAITFVGVLVACSHA--------------GLVDERISHFNLMSEKYGIRP-SIEHYGCLV  148 (352)
Q Consensus        85 ~-~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~--------------g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li  148 (352)
                      . ++++++.+.++.+... -|...|+.....+.+.              +.++++++.+......   .| |...|+-+-
T Consensus       159 ~~~~eel~~~~~~I~~~p-~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~---~P~d~SaW~Y~r  234 (331)
T 3dss_A          159 VAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT---DPNDQSAWFYHR  234 (331)
T ss_dssp             CCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH---STTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence            8 5999999999998743 3777777665555544              4578888988888764   45 677777655


Q ss_pred             HHHHHc-----------CCHHHHHHHHHhC-CCCCcHHHHHHHHH-----HHHhcCCHHHHHHHHHHHHHhCCCCcchHH
Q 048142          149 YILGRA-----------GRIAKAEELIKNM-PMALDHFVLGGLLG-----ACRIHDNLEAAERAAQQLLELLPDNGGSYV  211 (352)
Q Consensus       149 ~~~~~~-----------g~~~~A~~~~~~m-~~~p~~~~~~~li~-----~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  211 (352)
                      -.+.+.           +.++++++.++++ ...||. .|..+-.     +....|..+++...+.++.+.+|....-|.
T Consensus       235 ~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~  313 (331)
T 3dss_A          235 WLLGAGSGRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLD  313 (331)
T ss_dssp             HHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             HHHHhccCccccchHHHHHHHHHHHHHHHHHhhCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHH
Confidence            555554           4578888888887 455664 3433222     223467788899999999999998877777


Q ss_pred             HHHHHH
Q 048142          212 ILSNRY  217 (352)
Q Consensus       212 ~li~~~  217 (352)
                      -+.+.+
T Consensus       314 d~~~~~  319 (331)
T 3dss_A          314 DLRSKF  319 (331)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            665544

>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=98.04  E-value=5.7e-05  Score=67.29  Aligned_cols=89  Identities=8%  Similarity=-0.054  Sum_probs=75.5

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHH
Q 048142          140 SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY  217 (352)
Q Consensus       140 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~  217 (352)
                      +...|..+..+|.+.|++++|...+++. ...| +...|..+..++...|++++|...+++..+..|.+...+..+...+
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            4677888888999999999999999887 4455 4778888889999999999999999999999898888888888888


Q ss_pred             hhcCChHHHHH
Q 048142          218 SSSRKWKKVKR  228 (352)
Q Consensus       218 ~~~g~~~~a~~  228 (352)
                      ...++.+++.+
T Consensus       352 ~~~~~~~~a~k  362 (370)
T 1ihg_A          352 QKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            88887777654

>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=98.04  E-value=0.00097  Score=62.82  Aligned_cols=171  Identities=9%  Similarity=-0.062  Sum_probs=138.4

Q ss_pred             ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCCCHhHHHH
Q 048142           41 ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQ----------GNKALEYFYEMQIRGVKPDAITFVG  110 (352)
Q Consensus        41 ~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~~~t~~~  110 (352)
                      ..++|.+.++++.+...          .+...|+.--.++...|+          ++++++.++++.+..-+ +..+|+.
T Consensus        44 ~~eeal~~~~~~l~~nP----------~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~h  112 (567)
T 1dce_A           44 LDESVLELTSQILGANP----------DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHH  112 (567)
T ss_dssp             CSHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             CCHHHHHHHHHHHHHCc----------hhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHH
Confidence            44788999999998765          455678877777777776          99999999999986333 6778888


Q ss_pred             HHHHHhccC--CHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcC-CHHHHHHHHHhC-CCCC-cHHHHHHHHHHHH
Q 048142          111 VLVACSHAG--LVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAG-RIAKAEELIKNM-PMAL-DHFVLGGLLGACR  184 (352)
Q Consensus       111 ll~~~~~~g--~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g-~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~  184 (352)
                      --..+.+.+  +++++...++++.+.   .| +-..|+.-...+.+.| .++++++.++++ ...| |...|+.....+.
T Consensus       113 R~w~l~~l~~~~~~~el~~~~k~l~~---d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~  189 (567)
T 1dce_A          113 RCWLLSRLPEPNWARELELCARFLEA---DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLP  189 (567)
T ss_dssp             HHHHHHTCSSCCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHhh---ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHH
Confidence            888888888  779999999999975   44 7788888888888889 899999999988 4445 5788877776665


Q ss_pred             hc--------------CCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHH
Q 048142          185 IH--------------DNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKK  225 (352)
Q Consensus       185 ~~--------------g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  225 (352)
                      ..              +.++++.+.+++.....|.+...|..+-..+.+.++.++
T Consensus       190 ~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          190 QLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             HHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             hhcccccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence            52              557999999999999999999999999888888887544

>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=98.03  E-value=0.00012  Score=67.30  Aligned_cols=130  Identities=10%  Similarity=-0.054  Sum_probs=97.6

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCc-------------HHHHHHHHHHHHhcCChHHHHHH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKD-------------VMTLTALIVVLAMCGQGNKALEY   92 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~-------------~~~~~~li~~~~~~g~~~~A~~~   92 (352)
                      ...|..+...+.+.|++++|...|++.++.....        ++             ...|+.+..+|.+.|++++|+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~--------~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~  339 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEME--------YGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVEC  339 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTC--------CSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--------ccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            4577888889999999999999999998854320        11             46788888888888999999998


Q ss_pred             HHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHH-HHHhC
Q 048142           93 FYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEE-LIKNM  167 (352)
Q Consensus        93 ~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~-~~~~m  167 (352)
                      |++..+.. +.+...|..+..+|...|++++|...|++..+   +.| +...+..+..++.+.++.++|.. .+..|
T Consensus       340 ~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~---l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          340 CDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE---VNPQNKAARLQISMCQKKAKEHNERDRRIYANM  412 (457)
T ss_dssp             HHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---TC----CHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888752 33567788888888888888888888888864   355 55677777778888888777653 44444

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.03  E-value=7.7e-05  Score=54.81  Aligned_cols=91  Identities=11%  Similarity=0.074  Sum_probs=53.6

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHhHH
Q 048142           30 VSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP-DAITF  108 (352)
Q Consensus        30 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~  108 (352)
                      ..+...+.+.|++++|...+++..+...          .+...|..+..++...|++++|+..|++..+.  .| +...+
T Consensus        21 ~~~g~~~~~~g~~~~A~~~~~~al~~~P----------~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~   88 (121)
T 1hxi_A           21 MEEGLSMLKLANLAEAALAFEAVCQKEP----------EREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVH   88 (121)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHST----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCC----------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHH
Confidence            3444455566666666666666665432          34455666666666666666666666666553  22 34455


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhh
Q 048142          109 VGVLVACSHAGLVDERISHFNLMS  132 (352)
Q Consensus       109 ~~ll~~~~~~g~~~~a~~~~~~m~  132 (352)
                      ..+..++...|++++|...+++..
T Consensus        89 ~~la~~~~~~g~~~~A~~~~~~al  112 (121)
T 1hxi_A           89 AALAVSHTNEHNANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            556666666666666666666654

>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=98.02  E-value=3.5e-05  Score=59.20  Aligned_cols=61  Identities=15%  Similarity=0.066  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHh-------CCCCcchH----HHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          175 VLGGLLGACRIHDNLEAAERAAQQLLEL-------LPDNGGSY----VILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       175 ~~~~li~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~~----~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      .|..+-.++...|++++|+..+++.++.       .|.+...|    .....++...|++++|.+.|++..+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6777777777777777777777777776       77777777    7777777778888888877777653

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.01  E-value=1.8e-05  Score=57.68  Aligned_cols=87  Identities=13%  Similarity=0.037  Sum_probs=57.0

Q ss_pred             cCCChhHHHHHHHHHHHCCC-CC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGL-TG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~-~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      ..|++++|+..|++....+. .| +...|..+...+...|++++|...+++..+...          .+...|..+..+|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p----------~~~~~~~~l~~~~   71 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP----------NHQALRVFYAMVL   71 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC----------CchHHHHHHHHHH
Confidence            35777778888877776431 12 345667777777777888888887777777643          3455677777777


Q ss_pred             HhcCChHHHHHHHHHHHHc
Q 048142           81 AMCGQGNKALEYFYEMQIR   99 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~   99 (352)
                      .+.|++++|++.|++....
T Consensus        72 ~~~g~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           72 YNLGRYEQGVELLLKIIAE   90 (117)
T ss_dssp             HHHTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            7778888888777776653

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.00  E-value=1.4e-05  Score=58.36  Aligned_cols=89  Identities=9%  Similarity=-0.065  Sum_probs=59.0

Q ss_pred             ccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc
Q 048142           38 HLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSH  117 (352)
Q Consensus        38 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  117 (352)
                      ..|++++|...|++..+.+.. ++      .+...|..+..+|.+.|++++|++.|++..+.. +-+..++..+..++..
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~-~p------~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~   73 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQ-GK------DLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYN   73 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCC-HH------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCC-Cc------cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHH
Confidence            356777788888877775411 11      345667777788888888888888888877652 2245667777777788


Q ss_pred             cCCHHHHHHHHHHhhHh
Q 048142          118 AGLVDERISHFNLMSEK  134 (352)
Q Consensus       118 ~g~~~~a~~~~~~m~~~  134 (352)
                      .|++++|...+++....
T Consensus        74 ~g~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           74 LGRYEQGVELLLKIIAE   90 (117)
T ss_dssp             HTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            88888888888777664

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.98  E-value=4.3e-05  Score=59.19  Aligned_cols=62  Identities=11%  Similarity=0.075  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          174 FVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       174 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..|..+..++...|++++|+..+++..+..|.+...|..+..+|...|++++|.+.|++..+
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            34444555555555555555555555555555555555555555555555555555555443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.96  E-value=3e-05  Score=68.19  Aligned_cols=148  Identities=10%  Similarity=-0.086  Sum_probs=75.4

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHH
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLV  148 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li  148 (352)
                      ....|..+...+.+.|++++|+..|++....  .|+...       +...|+.+++...+   .        ...|..+.
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~--------~~~~~nla  237 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K--------NPCHLNIA  237 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H--------THHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H--------HHHHHHHH
Confidence            4456777788888899999999999987763  444331       22333333333211   1        12566777


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHH-hhcCChHH
Q 048142          149 YILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY-SSSRKWKK  225 (352)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~~~~  225 (352)
                      .+|.+.|++++|...+++. ...| +...|..+..++...|++++|...|++..+..|.+...+..+.... ...+..+.
T Consensus       238 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          238 ACLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            7777888888888877765 2233 4677777777888888888888888887777777776776666653 34556677


Q ss_pred             HHHHHHHHHhc
Q 048142          226 VKRIRELMAER  236 (352)
Q Consensus       226 a~~~~~~m~~~  236 (352)
                      +.++|..|...
T Consensus       318 a~~~~~~~l~~  328 (338)
T 2if4_A          318 QKEMYKGIFKG  328 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHHhhCC
Confidence            77777777543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.90  E-value=4e-05  Score=67.43  Aligned_cols=147  Identities=6%  Similarity=-0.085  Sum_probs=87.4

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHh
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRI  185 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~  185 (352)
                      ..+..+...+.+.|++++|...|++....   .|+...       +...|+.+++...+.       ...|..+..++..
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~-------~~~~~~~~~~~~~l~-------~~~~~nla~~~~~  242 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDFM-------FQLYGKYQDMALAVK-------NPCHLNIAACLIK  242 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHHH-------HTCCHHHHHHHHHHH-------THHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH---hccchh-------hhhcccHHHHHHHHH-------HHHHHHHHHHHHH
Confidence            34566777778888888888888887653   343321       223344444443332       2378889999999


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCc
Q 048142          186 HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNK  265 (352)
Q Consensus       186 ~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~  265 (352)
                      .|++++|+..+++.++..|.+...|..+..+|...|++++|.+.|++..+..  |+.......+..+.  ....+....+
T Consensus       243 ~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~--p~~~~a~~~L~~l~--~~~~~~~~~a  318 (338)
T 2if4_A          243 LKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA--PDDKAIRRELRALA--EQEKALYQKQ  318 (338)
T ss_dssp             TTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------------------
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHH--HHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999886533  33222222222111  2344555666


Q ss_pred             hhhhhcCC
Q 048142          266 SEVLFDMD  273 (352)
Q Consensus       266 ~~~~~~~~  273 (352)
                      ...+..+-
T Consensus       319 ~~~~~~~l  326 (338)
T 2if4_A          319 KEMYKGIF  326 (338)
T ss_dssp             --------
T ss_pred             HHHHHHhh
Confidence            66665553

>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=97.89  E-value=0.0028  Score=55.38  Aligned_cols=175  Identities=10%  Similarity=0.037  Sum_probs=133.1

Q ss_pred             HHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCCHhHHHHHHH
Q 048142           35 ACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG-QGNKALEYFYEMQIRGVKPDAITFVGVLV  113 (352)
Q Consensus        35 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  113 (352)
                      ...+.+..++|++++++++....          .+...||.--..+...| ++++++++++.+..... -+..+|+.--.
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~nP----------~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~w  131 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMNP----------AHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL-KSYQVWHHRLL  131 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHhCc----------hhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHH
Confidence            33445566789999999998765          45667888888888888 59999999999998532 25667777666


Q ss_pred             HHhcc-C-CHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHH--------HHHHHHHhC-CCC-CcHHHHHHHH
Q 048142          114 ACSHA-G-LVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIA--------KAEELIKNM-PMA-LDHFVLGGLL  180 (352)
Q Consensus       114 ~~~~~-g-~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~--------~A~~~~~~m-~~~-p~~~~~~~li  180 (352)
                      .+.+. + ++++++.+++.+.+.   .| +-..|+--.-.+.+.|.++        ++++.++++ ... -|...|+.-.
T Consensus       132 lL~~l~~~~~~~EL~~~~k~L~~---dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~N~SAW~~R~  208 (349)
T 3q7a_A          132 LLDRISPQDPVSEIEYIHGSLLP---DPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGRNNSAWGWRW  208 (349)
T ss_dssp             HHHHHCCSCCHHHHHHHHHHTSS---CTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHhcCCChHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            66665 6 889999999999853   44 6777776666666666666        888888877 223 3688888888


Q ss_pred             HHHHhcCC-------HHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCCh
Q 048142          181 GACRIHDN-------LEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKW  223 (352)
Q Consensus       181 ~~~~~~g~-------~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  223 (352)
                      ..+...+.       ++++++.+++.....|.|...|+.+-..+.+.|+-
T Consensus       209 ~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~  258 (349)
T 3q7a_A          209 YLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLP  258 (349)
T ss_dssp             HHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCC
Confidence            77777775       78999999999999999999999887777766654

>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=97.86  E-value=0.00022  Score=63.46  Aligned_cols=126  Identities=6%  Similarity=-0.040  Sum_probs=94.2

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCC------------CCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHH
Q 048142           27 VTMVSLLLACTHLGALEVGMWLHPYIMKKNIE------------VDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFY   94 (352)
Q Consensus        27 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~------------~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~   94 (352)
                      ..+..+...+.+.|++++|...|++.++.-..            .+.      .+...|+.+..+|.+.|++++|++.++
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~------~~~~~~~nla~~~~~~g~~~~A~~~~~  297 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQP------VALSCVLNIGACKLKMSDWQGAVDSCL  297 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHH------HHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHH------HHHHHHHHHHHHHHhccCHHHHHHHHH
Confidence            45777888899999999999999988862100            011      345678888888889999999999998


Q ss_pred             HHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHH
Q 048142           95 EMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        95 ~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      +..+.. +.+...|..+..++...|++++|...|++..+.   .| +...+..+...+.+.++.+++.+
T Consensus       298 ~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l---~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          298 EALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI---APEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            888742 224667888888888889999998888888764   44 56667777777777777776654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.85  E-value=7.1e-05  Score=69.04  Aligned_cols=123  Identities=11%  Similarity=-0.126  Sum_probs=95.4

Q ss_pred             HHHhcCChHHHHHHHHHHHHc---CCCC---C-HhHHHHHHHHHhccCCHHHHHHHHHHhhHh----cCC-CC-ChhHHH
Q 048142           79 VLAMCGQGNKALEYFYEMQIR---GVKP---D-AITFVGVLVACSHAGLVDERISHFNLMSEK----YGI-RP-SIEHYG  145 (352)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~~---g~~p---~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~----~g~-~p-~~~~~~  145 (352)
                      .+...|++++|+.++++..+.   -+.|   + ..+++.|..+|...|++++|..++++....    +|- .| ...+++
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            456789999999999987653   1222   2 457899999999999999999999887653    222 23 356789


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC---------CCCCcH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048142          146 CLVYILGRAGRIAKAEELIKNM---------PMALDH-FVLGGLLGACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m---------~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      .|...|...|++++|+.++++.         +..|++ .+.+.+-.++...+.++.|+.+++++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999876         344654 3445566677888999999999999876

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.84  E-value=3.8e-05  Score=54.91  Aligned_cols=96  Identities=9%  Similarity=0.019  Sum_probs=75.0

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-------
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-------  140 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-------  140 (352)
                      ++...|..+...+.+.|++++|++.|++..+. .+.+...+..+..++...|++++|...+++..+   +.|+       
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~   77 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITA-QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR---YTSTAEHVAIR   77 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SCSSTTSHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCccHHHHH
Confidence            45667888999999999999999999998875 233677888899999999999999999999874   4554       


Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142          141 IEHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       141 ~~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      ...+..+..++...|++++|...++++
T Consensus        78 ~~~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           78 SKLQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            455666666777777777776666555

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.82  E-value=0.00057  Score=52.66  Aligned_cols=107  Identities=10%  Similarity=-0.090  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcC------CCCCcccc---ccCCcHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKN------IEVDVGLG---MALKDVMTLTALIVVLAMCGQGNKALEYFYEM   96 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g------~~~~~~~~---~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m   96 (352)
                      ...+......+.+.|++++|...|.+.++.-      -.|+....   .. .+...|..+..+|.+.|++++|+..+++.
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDR-KNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHH-THHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHH-HHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            4567778888999999999999999988750      00000000   00 34467888889999999999999999988


Q ss_pred             HHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHh
Q 048142           97 QIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEK  134 (352)
Q Consensus        97 ~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  134 (352)
                      .+.. +.+...|..+..++...|++++|...|+...+.
T Consensus        90 l~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           90 LKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            8752 335677888888889999999999988888754

>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=97.77  E-value=0.00011  Score=56.44  Aligned_cols=114  Identities=9%  Similarity=-0.075  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVY  149 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~  149 (352)
                      ..+......+.+.|++++|++.|++..+.  .|+...  .      .      +          ....| +...|+.+..
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~--~------~------a----------~~~~~~~a~a~~n~g~   65 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPP--E------E------A----------FDHAGFDAFCHAGLAE   65 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCT--T------S------C----------CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcc--h------h------h----------hhhccchHHHHHHHHH
Confidence            34555666667777777777777777663  333100  0      0      0          00000 1225666666


Q ss_pred             HHHHcCCHHHHHHHHHhC-C-------CCCc-HHHH----HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchH
Q 048142          150 ILGRAGRIAKAEELIKNM-P-------MALD-HFVL----GGLLGACRIHDNLEAAERAAQQLLELLPDNGGSY  210 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m-~-------~~p~-~~~~----~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  210 (352)
                      ++.+.|++++|+..+++. .       ..|+ ...|    ...-.++...|++++|+..|++..+..|.|...+
T Consensus        66 al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~  139 (159)
T 2hr2_A           66 ALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGET  139 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCC
T ss_pred             HHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            666666666666665554 2       3676 5677    8888889999999999999999888766665443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.63  E-value=0.00042  Score=47.22  Aligned_cols=79  Identities=20%  Similarity=0.109  Sum_probs=52.6

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHh
Q 048142          141 IEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYS  218 (352)
Q Consensus       141 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~  218 (352)
                      ...+..+...|.+.|++++|...|++. ...| +...|..+...+...|++++|...+++..+..|.+...+..+...+.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            445556666677777777777777665 2222 45666677777777777777777777777777777666666666554


Q ss_pred             h
Q 048142          219 S  219 (352)
Q Consensus       219 ~  219 (352)
                      .
T Consensus        89 ~   89 (91)
T 1na3_A           89 K   89 (91)
T ss_dssp             H
T ss_pred             h
Confidence            4

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.63  E-value=0.00026  Score=51.09  Aligned_cols=62  Identities=10%  Similarity=-0.090  Sum_probs=29.3

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048142          140 SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       140 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      +...+..+...|...|++++|...|++. ...| +...|..+...+...|++++|...|++..+
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444555555555555555555443 1112 234444444455555555555555554443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.63  E-value=0.00013  Score=51.91  Aligned_cols=66  Identities=14%  Similarity=-0.054  Sum_probs=37.0

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 048142          141 IEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN  206 (352)
Q Consensus       141 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  206 (352)
                      ...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|...+++..+..|.+
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~   71 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTA   71 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCc
Confidence            334455555555666666666666554 1222 35555556666666666666666666666655554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.60  E-value=0.00047  Score=48.49  Aligned_cols=64  Identities=25%  Similarity=0.204  Sum_probs=44.2

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          172 DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       172 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      +...|..+...+...|++++|+..|++..+..|.+...|..+..+|...|++++|.+.+++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3556666666777777777777777777776676667777777777777777777777766543

>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=97.58  E-value=0.0028  Score=47.47  Aligned_cols=110  Identities=9%  Similarity=-0.122  Sum_probs=78.8

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh--
Q 048142            5 SACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM--   82 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~--   82 (352)
                      +++++|++.|++....| .|+..    |-..|...+.+++|.+.|++..+.|.            ...++.|...|..  
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~------------~~a~~~Lg~~y~~G~   71 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELNS------------GNGCRFLGDFYENGK   71 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHCS
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCCC------------HHHHHHHHHHHHcCC
Confidence            35778888888888776 33333    55556666777888888888877653            2567777777777  


Q ss_pred             --cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc----cCCHHHHHHHHHHhhHh
Q 048142           83 --CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSH----AGLVDERISHFNLMSEK  134 (352)
Q Consensus        83 --~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~  134 (352)
                        .+++++|+++|++..+.|   +...+..|-..|..    .++.++|..+|++..+.
T Consensus        72 g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           72 YVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             SSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             CCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence              778888888888887765   45566666666666    77888888888877764

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.57  E-value=0.0097  Score=54.97  Aligned_cols=202  Identities=5%  Similarity=-0.078  Sum_probs=131.8

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChH
Q 048142            8 EEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGN   87 (352)
Q Consensus         8 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~   87 (352)
                      +.+..+|+++... .+-+...|...+.-+.+.|+++.|..+++.....   |        .+...|..    |+...+.+
T Consensus       196 ~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P--------~~~~l~~~----y~~~~e~~  259 (493)
T 2uy1_A          196 SRMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---S--------DGMFLSLY----YGLVMDEE  259 (493)
T ss_dssp             HHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---C--------CSSHHHHH----HHHHTTCT
T ss_pred             HHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---C--------CcHHHHHH----HHhhcchh
Confidence            4567788888875 3446778888888888999999999999999988   3        23233332    22222222


Q ss_pred             HHHHHHHHHHHcC---------CCC---CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHH-c
Q 048142           88 KALEYFYEMQIRG---------VKP---DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGR-A  154 (352)
Q Consensus        88 ~A~~~~~~m~~~g---------~~p---~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~-~  154 (352)
                      +.   ++.+.+.-         ..+   ....|...+....+.+.++.|..+|+.. +..+  .+...|-.....-.. .
T Consensus       260 ~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~--~~~~v~i~~A~lE~~~~  333 (493)
T 2uy1_A          260 AV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNEG--VGPHVFIYCAFIEYYAT  333 (493)
T ss_dssp             HH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTSC--CCHHHHHHHHHHHHHHH
T ss_pred             HH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCCC--CChHHHHHHHHHHHHHC
Confidence            22   22222210         011   1234666666666778899999999988 3212  244444432222222 3


Q ss_pred             CCHHHHHHHHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHH
Q 048142          155 GRIAKAEELIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIREL  232 (352)
Q Consensus       155 g~~~~A~~~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  232 (352)
                      ++.+.|..+|+..  ...-++..|...+.-....|+.+.|..+|+.+.    .....|...+..=...|+.+.+.+++++
T Consensus       334 ~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~----k~~~lw~~~~~fE~~~G~~~~~r~v~~~  409 (493)
T 2uy1_A          334 GSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE----KTSRMWDSMIEYEFMVGSMELFRELVDQ  409 (493)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC----CBHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3699999999876  121124456667777788899999999999872    3456788888777788999999998888


Q ss_pred             HHh
Q 048142          233 MAE  235 (352)
Q Consensus       233 m~~  235 (352)
                      +..
T Consensus       410 ~~~  412 (493)
T 2uy1_A          410 KMD  412 (493)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            763

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.55  E-value=0.00078  Score=48.46  Aligned_cols=80  Identities=8%  Similarity=-0.133  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHH
Q 048142           44 VGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDE  123 (352)
Q Consensus        44 ~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  123 (352)
                      .|.+.+++..+...          .+...|..+...|...|++++|+..|++..+.. +.+...|..+..++...|++++
T Consensus         3 ~a~~~~~~al~~~p----------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~   71 (115)
T 2kat_A            3 AITERLEAMLAQGT----------DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAG   71 (115)
T ss_dssp             CHHHHHHHHHTTTC----------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHhCC----------CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHH
Confidence            35566666665432          455677788888888888888888888877642 2345667777778888888888


Q ss_pred             HHHHHHHhhHh
Q 048142          124 RISHFNLMSEK  134 (352)
Q Consensus       124 a~~~~~~m~~~  134 (352)
                      |...|++..+.
T Consensus        72 A~~~~~~al~~   82 (115)
T 2kat_A           72 ARQAWESGLAA   82 (115)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            88888777653

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.48  E-value=0.014  Score=53.95  Aligned_cols=172  Identities=9%  Similarity=-0.122  Sum_probs=115.0

Q ss_pred             HHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHH
Q 048142           43 EVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVD  122 (352)
Q Consensus        43 ~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  122 (352)
                      +.+..+|++++....          .+...|-..+.-+.+.|+.++|..+|++....   |+....-.   .|+...+.+
T Consensus       196 ~Rv~~~ye~al~~~p----------~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~---~y~~~~e~~  259 (493)
T 2uy1_A          196 SRMHFIHNYILDSFY----------YAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSL---YYGLVMDEE  259 (493)
T ss_dssp             HHHHHHHHHHHHHTT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH---HHHHHTTCT
T ss_pred             HHHHHHHHHHHHcCC----------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHH---HHHhhcchh
Confidence            456778888887543          34568888888889999999999999999987   55443222   222221112


Q ss_pred             HHHHHHHHhhHhc---C-----CCC---ChhHHHHHHHHHHHcCCHHHHHHHHHhCCCC-CcHHHHHHHHHHHHh-cCCH
Q 048142          123 ERISHFNLMSEKY---G-----IRP---SIEHYGCLVYILGRAGRIAKAEELIKNMPMA-LDHFVLGGLLGACRI-HDNL  189 (352)
Q Consensus       123 ~a~~~~~~m~~~~---g-----~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-p~~~~~~~li~~~~~-~g~~  189 (352)
                      +.   ++.+.+.+   .     ..+   ....|-..+..+.+.+.++.|..+|++.... ++...|......-.. .++.
T Consensus       260 ~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~~~~~v~i~~A~lE~~~~~d~  336 (493)
T 2uy1_A          260 AV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIELGNEGVGPHVFIYCAFIEYYATGSR  336 (493)
T ss_dssp             HH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHCCS
T ss_pred             HH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCCCChHHHHHHHHHHHHHCCCh
Confidence            21   33333221   0     011   2345667777777788899999999988211 234445332222222 3369


Q ss_pred             HHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHH
Q 048142          190 EAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELM  233 (352)
Q Consensus       190 ~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  233 (352)
                      +.|..+|+...+..|.++..+...++...+.|+.+.|..+|+..
T Consensus       337 ~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          337 ATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999998877777777777888888999999999999986

>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=97.45  E-value=0.00025  Score=64.33  Aligned_cols=81  Identities=10%  Similarity=0.076  Sum_probs=66.6

Q ss_pred             cCCHHHHHHHHHhC---------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--------CCCCcchHHHHHH
Q 048142          154 AGRIAKAEELIKNM---------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLEL--------LPDNGGSYVILSN  215 (352)
Q Consensus       154 ~g~~~~A~~~~~~m---------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~~~~li~  215 (352)
                      .|++++|+.++++.         +..|+ ..+++.|...|...|++++|+.++++.++.        .|....+++.|..
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            57889999988765         34455 578999999999999999999999997653        2334567899999


Q ss_pred             HHhhcCChHHHHHHHHHHH
Q 048142          216 RYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       216 ~~~~~g~~~~a~~~~~~m~  234 (352)
                      .|...|++++|..++++..
T Consensus       391 ~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHH
Confidence            9999999999999998865

>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=97.44  E-value=0.001  Score=50.01  Aligned_cols=111  Identities=12%  Similarity=-0.084  Sum_probs=74.5

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHH----cCCHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGR----AGRIA  158 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~----~g~~~  158 (352)
                      .+++++|+++|++..+.| .|+..    |-..|...+.+++|..+|++..+. |   ++..+..|-..|..    .++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~-g---~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC-C---CHHHHHHHHHHHHcCCCCCccHH
Confidence            346788888888888776 33333    556666667777888888877764 3   55666677777776    67777


Q ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHh
Q 048142          159 KAEELIKNMPMALDHFVLGGLLGACRI----HDNLEAAERAAQQLLEL  202 (352)
Q Consensus       159 ~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~  202 (352)
                      +|...|++.-..-++..+..|-..|..    .++.++|...|++..+.
T Consensus        79 ~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           79 KAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            777777776222355566666666666    66777777777766554

>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=97.43  E-value=0.00031  Score=53.85  Aligned_cols=99  Identities=9%  Similarity=-0.040  Sum_probs=78.5

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCCh----------HHHHHHHHHHHHcCCCCCccccccCCcHHHH
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGAL----------EVGMWLHPYIMKKNIEVDVGLGMALKDVMTL   73 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~----------~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~   73 (352)
                      .+.+++|++.++...... +-+...|+.+-.++.+.+++          ++|+..|++.++...          .+...|
T Consensus        15 ~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP----------~~~~A~   83 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP----------KKDEAV   83 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT----------TCHHHH
T ss_pred             HhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCc----------CcHHHH
Confidence            456889999999988753 33788888888888887764          599999999998764          466789


Q ss_pred             HHHHHHHHhcC-----------ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHH
Q 048142           74 TALIVVLAMCG-----------QGNKALEYFYEMQIRGVKPDAITFVGVLVAC  115 (352)
Q Consensus        74 ~~li~~~~~~g-----------~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~  115 (352)
                      +.+..+|.+.|           ++++|++.|++..+  +.|+...|...+...
T Consensus        84 ~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~  134 (158)
T 1zu2_A           84 WCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT  134 (158)
T ss_dssp             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            99999998874           89999999999988  678877776555543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.39  E-value=0.0025  Score=43.11  Aligned_cols=61  Identities=20%  Similarity=0.140  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      .|..+...+...|++++|+..|++..+.. +.+..++..+..++...|++++|...+++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34444444455555555555555444431 11333444444455555555555555555443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.38  E-value=0.00099  Score=46.77  Aligned_cols=85  Identities=15%  Similarity=0.017  Sum_probs=61.4

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCL  147 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  147 (352)
                      .+...|..+...|.+.|++++|++.|++..+.. +.+...|..+..++...|++++|...|++..+...-.++......+
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l   83 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSEL   83 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHH
Confidence            456678888899999999999999999988753 2245678888889999999999999988877531223344444444


Q ss_pred             HHHHHH
Q 048142          148 VYILGR  153 (352)
Q Consensus       148 i~~~~~  153 (352)
                      ...+.+
T Consensus        84 ~~~l~~   89 (100)
T 3ma5_A           84 QDAKLK   89 (100)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>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=97.36  E-value=0.00048  Score=62.49  Aligned_cols=87  Identities=14%  Similarity=0.064  Sum_probs=70.4

Q ss_pred             HHHHHHcCCHHHHHHHHHhC---------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--------CCCCcch
Q 048142          148 VYILGRAGRIAKAEELIKNM---------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLEL--------LPDNGGS  209 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~  209 (352)
                      +..+.+.|++++|+.++++.         +..|+ ..+++.|...|...|++++|+.++++.++.        .|....+
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            45566789999999998765         23344 568899999999999999999999997653        2334567


Q ss_pred             HHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          210 YVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       210 ~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      ++.|...|...|++++|..++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            8899999999999999999998865

>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=97.35  E-value=0.0089  Score=56.23  Aligned_cols=167  Identities=11%  Similarity=-0.036  Sum_probs=129.7

Q ss_pred             ChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCC----------hHHHHHHHHHHHHcCCCCCccccccCCcHHHHH
Q 048142            6 ACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGA----------LEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLT   74 (352)
Q Consensus         6 ~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~----------~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~   74 (352)
                      ..++|++.++++...  .| +..+|+.--..+...|+          ++++.+.++.+.+...          .+..+|+
T Consensus        44 ~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p----------K~y~aW~  111 (567)
T 1dce_A           44 LDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP----------KSYGTWH  111 (567)
T ss_dssp             CSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT----------TCHHHHH
T ss_pred             CCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC----------CCHHHHH
Confidence            346788888888875  45 56678776666666676          8999999999998765          6778999


Q ss_pred             HHHHHHHhcC--ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccC-CHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHH
Q 048142           75 ALIVVLAMCG--QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAG-LVDERISHFNLMSEKYGIRP-SIEHYGCLVYI  150 (352)
Q Consensus        75 ~li~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g-~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~  150 (352)
                      .-.-.+.+.+  +++++++.++++.+.... |..+|+.--..+.+.| ..+++.+.++++.+   ..| +...|+.....
T Consensus       112 hR~w~l~~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~---~~p~n~saW~~r~~l  187 (567)
T 1dce_A          112 HRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLIT---RNFSNYSSWHYRSCL  187 (567)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTT---TTCCCHHHHHHHHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHH---HCCCCccHHHHHHHH
Confidence            9888888999  679999999999997433 7788888887888888 89999999999875   345 77888887777


Q ss_pred             HHHc--------------CCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCC
Q 048142          151 LGRA--------------GRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDN  188 (352)
Q Consensus       151 ~~~~--------------g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~  188 (352)
                      +.+.              +.+++|++.+++. ...| |...|.-+-..+...+.
T Consensus       188 l~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          188 LPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             HHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCC
T ss_pred             HHhhcccccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCC
Confidence            7663              5578898888776 3344 46777777766666665

>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=97.21  E-value=0.002  Score=58.36  Aligned_cols=85  Identities=14%  Similarity=-0.000  Sum_probs=69.9

Q ss_pred             ccCCHHHHHHHHHHhhHhcC--CCC----ChhHHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCc-HHHHHHHH
Q 048142          117 HAGLVDERISHFNLMSEKYG--IRP----SIEHYGCLVYILGRAGRIAKAEELIKNM---------PMALD-HFVLGGLL  180 (352)
Q Consensus       117 ~~g~~~~a~~~~~~m~~~~g--~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~li  180 (352)
                      ..|++++|..++++..+...  +.|    ...+++.|..+|...|++++|+.++++.         +..|+ ..+++.|.
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            46789999999988776422  222    2577899999999999999999999876         45676 57799999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 048142          181 GACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       181 ~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      ..|...|++++|+.++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999999765

>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=0.0067  Score=54.92  Aligned_cols=91  Identities=4%  Similarity=-0.090  Sum_probs=73.8

Q ss_pred             HHHHHhccCCHHHHHHHHHHhhHhcC--CCC----ChhHHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCc-HH
Q 048142          111 VLVACSHAGLVDERISHFNLMSEKYG--IRP----SIEHYGCLVYILGRAGRIAKAEELIKNM---------PMALD-HF  174 (352)
Q Consensus       111 ll~~~~~~g~~~~a~~~~~~m~~~~g--~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~  174 (352)
                      .+..+.+.|++++|..++++..+...  +.|    ...+++.|..+|...|++++|+.++++.         +..|+ ..
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            35556678999999999998875321  222    2567899999999999999999998876         45566 57


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048142          175 VLGGLLGACRIHDNLEAAERAAQQLLE  201 (352)
Q Consensus       175 ~~~~li~~~~~~g~~~~a~~~~~~~~~  201 (352)
                      +++.|...|...|++++|+.++++..+
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            789999999999999999999999765

>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=96.88  E-value=0.004  Score=47.64  Aligned_cols=85  Identities=19%  Similarity=0.019  Sum_probs=59.5

Q ss_pred             hccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChH----------HHHHHHHHHHHcCCCCC-H
Q 048142           37 THLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGN----------KALEYFYEMQIRGVKPD-A  105 (352)
Q Consensus        37 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~----------~A~~~~~~m~~~g~~p~-~  105 (352)
                      .+.+.+++|.+.++...+...          .+...|+.+..++...++++          +|+..|++..+.  .|+ .
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P----------~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~   80 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNP----------LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKD   80 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHhHHHHHHHHHHHHHHHCC----------CCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcH
Confidence            456778999999999988764          57778888888888877654          777777777663  443 4


Q ss_pred             hHHHHHHHHHhccC-----------CHHHHHHHHHHhhH
Q 048142          106 ITFVGVLVACSHAG-----------LVDERISHFNLMSE  133 (352)
Q Consensus       106 ~t~~~ll~~~~~~g-----------~~~~a~~~~~~m~~  133 (352)
                      .+|..+-.+|...|           ++++|...|++..+
T Consensus        81 ~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~  119 (158)
T 1zu2_A           81 EAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD  119 (158)
T ss_dssp             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHH
Confidence            56666766766553           55666666655553

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.77  E-value=0.012  Score=40.61  Aligned_cols=68  Identities=15%  Similarity=0.112  Sum_probs=49.7

Q ss_pred             CcHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          171 LDHFVLGGLLGACRIHDN---LEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       171 p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      .|+..+..+..++...++   .++|..++++.++..|.++.....+...+.+.|++++|...|+++.+...
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            345666666666644433   67888888888888888888888888888888888888888888876544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.75  E-value=0.0076  Score=41.61  Aligned_cols=63  Identities=19%  Similarity=0.105  Sum_probs=43.7

Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCC-cHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchH
Q 048142          148 VYILGRAGRIAKAEELIKNM-PMAL-DHF-VLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSY  210 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  210 (352)
                      ...+.+.|++++|...|++. ...| +.. .|..+...+...|++++|...|++..+..|.+...+
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~   72 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            44566777777777777765 2233 345 677777777777888888888888777777766555

>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=96.56  E-value=0.04  Score=48.28  Aligned_cols=36  Identities=14%  Similarity=0.023  Sum_probs=24.5

Q ss_pred             CCCCHHHHHHHHHHHhc--c---CChHHHHHHHHHHHHcCC
Q 048142           22 LTGDKVTMVSLLLACTH--L---GALEVGMWLHPYIMKKNI   57 (352)
Q Consensus        22 ~~p~~~t~~~li~~~~~--~---g~~~~a~~~~~~m~~~g~   57 (352)
                      .+.+...|...+.+...  .   ..+.+|..+|++..+...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP  230 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSP  230 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCT
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCC
Confidence            34567777777766533  2   245789999999988653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.43  E-value=0.011  Score=40.82  Aligned_cols=59  Identities=20%  Similarity=0.311  Sum_probs=53.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCCCcc-hHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          179 LLGACRIHDNLEAAERAAQQLLELLPDNGG-SYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       179 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      ....+...|++++|...+++..+..|.+.. .|..+...|...|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            345677899999999999999999999988 99999999999999999999999988764

>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=96.40  E-value=0.091  Score=46.04  Aligned_cols=126  Identities=10%  Similarity=-0.005  Sum_probs=75.7

Q ss_pred             ChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhc---cC--ChHHHHHHHHHHHH-cCCCCCccccccCCcHHHHHHHHH
Q 048142            6 ACEEALLLFREVQHKGLTGD-KVTMVSLLLACTH---LG--ALEVGMWLHPYIMK-KNIEVDVGLGMALKDVMTLTALIV   78 (352)
Q Consensus         6 ~~~~A~~~~~~m~~~g~~p~-~~t~~~li~~~~~---~g--~~~~a~~~~~~m~~-~g~~~~~~~~~~l~~~~~~~~li~   78 (352)
                      ...+|..+|++....  .|+ ...|..+.-++..   .+  .-.....+-..+.. .....+.      .+..+|.++..
T Consensus       214 ~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~------~~a~~~~alal  285 (372)
T 3ly7_A          214 SLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELN------NLSIIYQIKAV  285 (372)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGT------TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCC------cCHHHHHHHHH
Confidence            357899999999874  565 4455544433321   11  11111111111111 1112222      56667777776


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHH
Q 048142           79 VLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHY  144 (352)
Q Consensus        79 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~  144 (352)
                      .+...|++++|+..+++....+  |+...|..+-..+.-.|++++|.+.|++...   +.|...+|
T Consensus       286 ~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr---L~P~~~t~  346 (372)
T 3ly7_A          286 SALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN---LRPGANTL  346 (372)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSCSHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCcChH
Confidence            6666788888888888888764  6777777777777778888888888877764   36666554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.32  E-value=0.056  Score=52.81  Aligned_cols=129  Identities=15%  Similarity=-0.001  Sum_probs=73.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHH
Q 048142           74 TALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGR  153 (352)
Q Consensus        74 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~  153 (352)
                      ..++..+.+.|..++|+++.+.         ..   .-+......|++++|.++.+.+       .+...|..|...+.+
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~~A~~~~~~~-------~~~~~W~~la~~al~  693 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLTLARDLLTDE-------SAEMKWRALGDASLQ  693 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHHHHHHHHTTC-------CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHHHHHHHHHhh-------CcHhHHHHHHHHHHH
Confidence            6666667777777777765531         11   1122334567777777764333       356677778888888


Q ss_pred             cCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHH
Q 048142          154 AGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIREL  232 (352)
Q Consensus       154 ~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  232 (352)
                      .|+++.|.+.|.+++   |   |..+...+...|+.+...++.+.....     .-++....+|.+.|++++|.+++.+
T Consensus       694 ~~~~~~A~~~y~~~~---d---~~~l~~l~~~~~~~~~~~~~~~~a~~~-----~~~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          694 RFNFKLAIEAFTNAH---D---LESLFLLHSSFNNKEGLVTLAKDAETT-----GKFNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             TTCHHHHHHHHHHHT---C---HHHHHHHHHHTTCHHHHHHHHHHHHHT-----TCHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHcc---C---hhhhHHHHHHcCCHHHHHHHHHHHHHc-----CchHHHHHHHHHcCCHHHHHHHHHH
Confidence            888888888887775   1   223344444456666555544443321     1233334445556666666665553

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.28  E-value=0.27  Score=38.07  Aligned_cols=128  Identities=13%  Similarity=0.093  Sum_probs=88.7

Q ss_pred             HHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHH
Q 048142           35 ACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVA  114 (352)
Q Consensus        35 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  114 (352)
                      ...+.|+++.|.++.+++               .+...|..|.....+.|+++-|.+.|.+..+         |..+.-.
T Consensus        14 LAL~lg~l~~A~e~a~~l---------------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~L   69 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL---------------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFL   69 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH---------------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh---------------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHH
Confidence            345789999999987765               3456899999999999999999999987653         3445555


Q ss_pred             HhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 048142          115 CSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAER  194 (352)
Q Consensus       115 ~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~  194 (352)
                      |.-.|+.+.-..+-+....+ |      -++.-...+.-.|+++++.++|.+.+.-|....+      ....|..+.|.+
T Consensus        70 y~~tg~~e~L~kla~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~~~------A~t~g~~~~a~~  136 (177)
T 3mkq_B           70 YLVTGDVNKLSKMQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAYAV------AKANGDEAAASA  136 (177)
T ss_dssp             HHHHTCHHHHHHHHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHH------HHHTTCHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHHHH------HHHcCcHHHHHH
Confidence            66677777666554444332 2      2455566677789999999999888743432221      223666777777


Q ss_pred             HHHHH
Q 048142          195 AAQQL  199 (352)
Q Consensus       195 ~~~~~  199 (352)
                      +.+.+
T Consensus       137 ~~~~~  141 (177)
T 3mkq_B          137 FLEQA  141 (177)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            76665

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.94  E-value=0.32  Score=35.78  Aligned_cols=140  Identities=7%  Similarity=0.010  Sum_probs=100.0

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  160 (352)
                      .-.|..++..++..+.....   +..-||-+|--....-+-+-..++++.+-+.+.+.              .+|++...
T Consensus        18 ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis--------------~C~NlKrV   80 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKSV   80 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHHH
T ss_pred             HHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCcH--------------hhhcHHHH
Confidence            44677888888888876642   44445555555555566666677776665432222              35555555


Q ss_pred             HHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCC
Q 048142          161 EELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       161 ~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      ...+-.++  .+..-.+.-+..+...|.-|.-.++...+....++++.....+..+|.+.|+..+|.+++.+.-++|++
T Consensus        81 i~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           81 VECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            55555554  244455667788889999999999999977778888889999999999999999999999999999985

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.94  E-value=0.06  Score=40.68  Aligned_cols=88  Identities=16%  Similarity=0.075  Sum_probs=58.9

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC---ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            7 CEEALLLFREVQHKGLTGDKVTMVSLLLACTHLG---ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         7 ~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      ...+.+-|.+....|. ++..+...+..++++.+   +++++..++++..+... |+       .+...+-.|.-+|.+.
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~-p~-------~~rd~lY~LAv~~~kl   84 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGS-KE-------EQRDYVFYLAVGNYRL   84 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSC-HH-------HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCC-cc-------chHHHHHHHHHHHHHc
Confidence            4556666666666554 67777777777777777   56688888888887651 10       1223444556667888


Q ss_pred             CChHHHHHHHHHHHHcCCCCCH
Q 048142           84 GQGNKALEYFYEMQIRGVKPDA  105 (352)
Q Consensus        84 g~~~~A~~~~~~m~~~g~~p~~  105 (352)
                      |++++|.+.++...+  +.|+.
T Consensus        85 ~~Y~~A~~y~~~lL~--ieP~n  104 (152)
T 1pc2_A           85 KEYEKALKYVRGLLQ--TEPQN  104 (152)
T ss_dssp             SCHHHHHHHHHHHHH--HCTTC
T ss_pred             cCHHHHHHHHHHHHh--cCCCC
Confidence            888888888888887  56653

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.86  E-value=0.068  Score=52.24  Aligned_cols=84  Identities=15%  Similarity=0.046  Sum_probs=42.2

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCL  147 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  147 (352)
                      .+...|..|...+.+.++++.|.+.|.++..         |..+...+...|+.+....+-+..... |      -++.-
T Consensus       679 ~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~-~------~~~~A  742 (814)
T 3mkq_A          679 SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETT-G------KFNLA  742 (814)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHT-T------CHHHH
T ss_pred             CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHc-C------chHHH
Confidence            3445677777777777777777777766542         223333333355554444433333322 1      12223


Q ss_pred             HHHHHHcCCHHHHHHHHHhC
Q 048142          148 VYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~m  167 (352)
                      ..+|.+.|++++|.+++.++
T Consensus       743 ~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          743 FNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHc
Confidence            33444555555555555554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.84  E-value=0.12  Score=35.44  Aligned_cols=66  Identities=6%  Similarity=-0.097  Sum_probs=45.9

Q ss_pred             CCHHHHHHHHHHHhccCC---hHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048142           24 GDKVTMVSLLLACTHLGA---LEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR   99 (352)
Q Consensus        24 p~~~t~~~li~~~~~~g~---~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~   99 (352)
                      +|...+..+..++...++   .++|..++++..+...          .++.....+...+.+.|++++|+..|+++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp----------~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEP----------YNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCc----------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            456666666666644443   5788888888777554          45566777777778888888888888888764

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.59  E-value=0.13  Score=35.95  Aligned_cols=70  Identities=20%  Similarity=0.054  Sum_probs=45.2

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHhC-----C----CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHH
Q 048142          142 EHYGCLVYILGRAGRIAKAEELIKNM-----P----MALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYV  211 (352)
Q Consensus       142 ~~~~~li~~~~~~g~~~~A~~~~~~m-----~----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  211 (352)
                      ..+-.|...+.+.|+++.|...|+..     +    -.+....+..|..++.+.|+++.|...+++..+..|.+..+.+
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~   84 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANG   84 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHh
Confidence            33445555566666666666665553     0    1234667777777888888888888888888777777755533

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.10  E-value=0.2  Score=34.99  Aligned_cols=77  Identities=13%  Similarity=0.012  Sum_probs=58.4

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 048142           24 GDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP  103 (352)
Q Consensus        24 p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  103 (352)
                      .+..-+..+...+.+.|++..|...+++..+.-...+.   ...+....+..|..+|.+.|++++|+..+++..+  +.|
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~---~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P   77 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEI---STIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDP   77 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCC---CSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCT
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCC---CcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCC
Confidence            35556677888899999999999999988764211100   0005667899999999999999999999999987  466


Q ss_pred             CH
Q 048142          104 DA  105 (352)
Q Consensus       104 ~~  105 (352)
                      +.
T Consensus        78 ~~   79 (104)
T 2v5f_A           78 EH   79 (104)
T ss_dssp             TC
T ss_pred             CC
Confidence            64

>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=94.50  E-value=0.23  Score=41.89  Aligned_cols=83  Identities=8%  Similarity=0.021  Sum_probs=68.8

Q ss_pred             HHHHHHHHHhC-CCCCc---HHHHHHHHHHHHh-----cCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHhhc-CChHH
Q 048142          157 IAKAEELIKNM-PMALD---HFVLGGLLGACRI-----HDNLEAAERAAQQLLELLPD-NGGSYVILSNRYSSS-RKWKK  225 (352)
Q Consensus       157 ~~~A~~~~~~m-~~~p~---~~~~~~li~~~~~-----~g~~~~a~~~~~~~~~~~~~-~~~~~~~li~~~~~~-g~~~~  225 (352)
                      ..+|...+++. .+.|+   ...|..|...|..     .|+.++|.+.|++.++..|. +..++......++.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            45666666665 44555   6688888888888     49999999999999999886 489999999999884 99999


Q ss_pred             HHHHHHHHHhcCCC
Q 048142          226 VKRIRELMAERNIK  239 (352)
Q Consensus       226 a~~~~~~m~~~g~~  239 (352)
                      +.+.+++.......
T Consensus       259 a~~~L~kAL~a~p~  272 (301)
T 3u64_A          259 FDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHcCCCC
Confidence            99999999988777

>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=94.44  E-value=0.39  Score=40.50  Aligned_cols=85  Identities=9%  Similarity=-0.035  Sum_probs=51.4

Q ss_pred             hhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhcc-----CChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHH
Q 048142            7 CEEALLLFREVQHKGLTGD---KVTMVSLLLACTHL-----GALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIV   78 (352)
Q Consensus         7 ~~~A~~~~~~m~~~g~~p~---~~t~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~   78 (352)
                      ...|...+++...  +.|+   ...|..+...|.+.     |+.++|.+.|++.++.+..         .+..++.....
T Consensus       179 l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~---------~~id~~v~YA~  247 (301)
T 3u64_A          179 VHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSA---------HDPDHHITYAD  247 (301)
T ss_dssp             HHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCT---------TCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCC---------CCchHHHHHHH
Confidence            3455555555555  3454   45666666666663     6777777777777765432         12455666666


Q ss_pred             HHHhc-CChHHHHHHHHHHHHcCCC
Q 048142           79 VLAMC-GQGNKALEYFYEMQIRGVK  102 (352)
Q Consensus        79 ~~~~~-g~~~~A~~~~~~m~~~g~~  102 (352)
                      .++.. |+.++|.+.+++.......
T Consensus       248 ~l~~~~gd~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          248 ALCIPLNNRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             HTTTTTTCHHHHHHHHHHHHHCCGG
T ss_pred             HHHHhcCCHHHHHHHHHHHHcCCCC
Confidence            66663 7777777777777665444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.32  E-value=0.98  Score=34.01  Aligned_cols=65  Identities=9%  Similarity=-0.036  Sum_probs=32.0

Q ss_pred             CcHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHcCCCC--CHhHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142           68 KDVMTLTALIVVLAMCG---QGNKALEYFYEMQIRGVKP--DAITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p--~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      ++..+...+.-++++.+   +.++++.+|++..+.. .|  +...+-.|.-++.+.|++++|.+.++.+.+
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            34444444555555555   4446666666655542 23  122222333344556666666666666554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.17  E-value=1.5  Score=42.34  Aligned_cols=51  Identities=18%  Similarity=0.043  Sum_probs=36.4

Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHH
Q 048142          183 CRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELM  233 (352)
Q Consensus       183 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  233 (352)
                      |...|+++.|..+.++.....|.+-.+|..|...|...|+++.|+-.+..+
T Consensus       347 Ll~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          347 LLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            445677777777777777777777777777777777777777777766665

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.04  E-value=1.6  Score=33.74  Aligned_cols=126  Identities=18%  Similarity=0.141  Sum_probs=91.2

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      +.|+++.|.++-+++      -+...|..|-....+.|+++-|.+.|.....                  |..+.-.|..
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D------------------~~~L~~Ly~~   72 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS------------------FDKLSFLYLV   72 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC------------------HHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC------------------HHHHHHHHHH
Confidence            569999999998766      3688999999999999999999999987632                  4556666777


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      .|+.++-.++-+.....|      -++....++.-.|+++++.+++.+..+    -|..      .-.-...|..+.|.+
T Consensus        73 tg~~e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r----~~eA------~~~A~t~g~~~~a~~  136 (177)
T 3mkq_B           73 TGDVNKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS----LPLA------YAVAKANGDEAAASA  136 (177)
T ss_dssp             HTCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC----HHHH------HHHHHHTTCHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC----hHHH------HHHHHHcCcHHHHHH
Confidence            888877665555544443      245666677778999999998866532    2211      111223677888999


Q ss_pred             HHHhCC
Q 048142          163 LIKNMP  168 (352)
Q Consensus       163 ~~~~m~  168 (352)
                      +.++++
T Consensus       137 ~~~~~~  142 (177)
T 3mkq_B          137 FLEQAE  142 (177)
T ss_dssp             HHHHTT
T ss_pred             HHHHhC
Confidence            988875

>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=93.91  E-value=0.18  Score=44.81  Aligned_cols=69  Identities=13%  Similarity=-0.024  Sum_probs=59.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH-----hcCCCCCCce
Q 048142          176 LGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA-----ERNIKKPPGC  244 (352)
Q Consensus       176 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~~~  244 (352)
                      ...++..+...|+.+++...++.+....|.+...|..+|.+|.+.|+..+|.+.|+...     +.|+.|.+.+
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            34466777889999999999999999999999999999999999999999999998875     4699987543

>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=92.36  E-value=0.81  Score=40.59  Aligned_cols=67  Identities=9%  Similarity=-0.028  Sum_probs=49.5

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCcHHHH
Q 048142          108 FVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM--------PMALDHFVL  176 (352)
Q Consensus       108 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~~~~~  176 (352)
                      ...++.++...|+.+++...+..+...  -+.+...|..+|.+|.+.|+..+|++.|+..        |+.|+..+-
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~--~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            345666777788888888888777653  2336778888888888888888888887664        778887664

>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=91.98  E-value=2  Score=29.68  Aligned_cols=64  Identities=13%  Similarity=0.157  Sum_probs=51.6

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH
Q 048142           85 QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI  150 (352)
Q Consensus        85 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  150 (352)
                      +.-+..+-++.+....+.|++....+.+++|.+.+++..|.++|+-++.+  +.+...+|..+++-
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K--~~~~~~iY~~~lqE   88 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQE   88 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--hcCchhhHHHHHHH
Confidence            45567777777777889999999999999999999999999999999875  44445567777654

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=91.77  E-value=1.4  Score=31.99  Aligned_cols=67  Identities=16%  Similarity=0.041  Sum_probs=33.0

Q ss_pred             CCHHHHHHHHHHHhccCChHH---HHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048142           24 GDKVTMVSLLLACTHLGALEV---GMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQI   98 (352)
Q Consensus        24 p~~~t~~~li~~~~~~g~~~~---a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~   98 (352)
                      |+..+--.+..++.+..+...   +..+++.+.+.+.+ .       ......-.|.-++.+.|++++|.+.++.+.+
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p-~-------~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSK-E-------EQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCH-H-------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCc-c-------hHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            444444445555555554433   55666665554310 0       0111222344555666666666666666665

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=91.40  E-value=3.3  Score=30.52  Aligned_cols=78  Identities=14%  Similarity=-0.020  Sum_probs=45.1

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHH
Q 048142           83 CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      +|+.......+-.+-     -+...+...++.+...|+-++-..++..+..  ..+|++...-.+..+|.+-|+..+|.+
T Consensus        74 C~NlKrVi~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~--n~~~~~~~l~kia~Ay~Klg~~r~a~e  146 (172)
T 1wy6_A           74 CQNLKSVVECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDERDATT  146 (172)
T ss_dssp             CSCTHHHHHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhcHHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc--cCCCChHHHHHHHHHHHHhcchhhHHH
Confidence            445555555544322     1334445556666666777666666666432  345566666666667777777777777


Q ss_pred             HHHhC
Q 048142          163 LIKNM  167 (352)
Q Consensus       163 ~~~~m  167 (352)
                      ++.+.
T Consensus       147 Ll~~A  151 (172)
T 1wy6_A          147 LLIEA  151 (172)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66665

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.21  E-value=8.2  Score=34.77  Aligned_cols=187  Identities=11%  Similarity=0.033  Sum_probs=97.6

Q ss_pred             CChhHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH-cCCCCCccccccCCcHHHH--HHH
Q 048142            5 SACEEALLLFREVQHK-----GLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMK-KNIEVDVGLGMALKDVMTL--TAL   76 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~-----g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~~~~~~~~~l~~~~~~--~~l   76 (352)
                      |++++|++.+..+.+.     ...-+......++..|...|+++...+.+..+.+ +|..         +...+.  +.+
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql---------k~ai~~~V~~~  100 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL---------KLSIQYMIQKV  100 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS---------HHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh---------HHHHHHHHHHH
Confidence            5677787777666542     2333566677788888888888887776665554 3332         222221  222


Q ss_pred             HHHHHhcCChHHHHH--HHHHHHH--cC-CCC---CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhc-CCCCC---hhHH
Q 048142           77 IVVLAMCGQGNKALE--YFYEMQI--RG-VKP---DAITFVGVLVACSHAGLVDERISHFNLMSEKY-GIRPS---IEHY  144 (352)
Q Consensus        77 i~~~~~~g~~~~A~~--~~~~m~~--~g-~~p---~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-g~~p~---~~~~  144 (352)
                      +.........+....  +.+....  .| +-.   .......|...+-..|++.+|..++..+.... |..+.   ...+
T Consensus       101 ~~~l~~~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~  180 (445)
T 4b4t_P          101 MEYLKSSKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFI  180 (445)
T ss_dssp             HHHHHHHCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHH
T ss_pred             HHHHhcCCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            222222332222111  1111100  01 111   11122345666667777777777777765431 22221   3455


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-------CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048142          145 GCLVYILGRAGRIAKAEELIKNM-------PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLL  200 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~~m-------~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~  200 (352)
                      ..-++.|...+++..|..+++++       +..|+  ...+..++..+...+++.+|-+.|.+..
T Consensus       181 l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          181 LEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            56666777777777777776664       11222  2334445555566666766666666654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=90.37  E-value=6.6  Score=37.93  Aligned_cols=128  Identities=17%  Similarity=0.079  Sum_probs=81.9

Q ss_pred             HHHHHHHhccCC-hHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHc------CC
Q 048142           30 VSLLLACTHLGA-LEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG-QGNKALEYFYEMQIR------GV  101 (352)
Q Consensus        30 ~~li~~~~~~g~-~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~------g~  101 (352)
                      ..++.-+...++ .+.|..+++++.+....         .+......+|..+.+.+ +--+|..++.+..+.      ..
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~---------~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l  322 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPI---------HDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDL  322 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGG---------GHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCc---------hhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhh
Confidence            345555555666 58899999999887532         12222233444433333 233566666655431      12


Q ss_pred             CCCHh------HH-HHH----HHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhCCC
Q 048142          102 KPDAI------TF-VGV----LVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNMPM  169 (352)
Q Consensus       102 ~p~~~------t~-~~l----l~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  169 (352)
                      .+...      .+ ..|    ..-|...|+++-|+.+-++...   +.| +-.+|..|..+|...|+++.|+-.++.+|+
T Consensus       323 ~~~~~~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~---~aPseF~tW~~La~vYi~l~d~e~ALLtLNScPm  399 (754)
T 4gns_B          323 PPRDADSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTE---LALDSFESWYNLARCHIKKEEYEKALFAINSMPR  399 (754)
T ss_dssp             SSCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSCC
T ss_pred             cccccccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHh---cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCCC
Confidence            22211      01 112    3345568999999999988875   466 578999999999999999999999999863

>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=90.12  E-value=3.8  Score=30.74  Aligned_cols=36  Identities=17%  Similarity=0.204  Sum_probs=22.6

Q ss_pred             CcHHHHHHHHHHHHhcCCh------HHHHHHHHHHHHcCCCCC
Q 048142           68 KDVMTLTALIVVLAMCGQG------NKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~------~~A~~~~~~m~~~g~~p~  104 (352)
                      .|..+|-..+...-+.|+.      ++..++|++.... ++|+
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~   52 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPD   52 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGG
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCcc
Confidence            4566666666666666666      6666666666554 5554

>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=90.02  E-value=0.92  Score=34.00  Aligned_cols=101  Identities=12%  Similarity=0.104  Sum_probs=43.8

Q ss_pred             CHhHHHHHHHHHhccCCH------HHHHHHHHHhhHhcCCCCChh-HHHHHHHH------HHHcCCHHHHHHHHHhC---
Q 048142          104 DAITFVGVLVACSHAGLV------DERISHFNLMSEKYGIRPSIE-HYGCLVYI------LGRAGRIAKAEELIKNM---  167 (352)
Q Consensus       104 ~~~t~~~ll~~~~~~g~~------~~a~~~~~~m~~~~g~~p~~~-~~~~li~~------~~~~g~~~~A~~~~~~m---  167 (352)
                      |..+|-..+...-+.|+.      +...++|++...  .++|+.. .|...|..      +...+++++|.++|+.+   
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            344555555555545555      555556655554  3444311 11111110      11224555555555544   


Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 048142          168 PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG  207 (352)
Q Consensus       168 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  207 (352)
                      .-+- ...|-....--.+.|+++.|.+++.+..+..|...
T Consensus        90 hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~  128 (161)
T 4h7y_A           90 CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL  128 (161)
T ss_dssp             CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH
T ss_pred             hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH
Confidence            1111 44444444444455555555555555554444333

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=89.86  E-value=2.9  Score=30.29  Aligned_cols=79  Identities=15%  Similarity=0.005  Sum_probs=40.9

Q ss_pred             hHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHH---HHHHHHHhhHhcCCCC--ChhHHHHHHHHHHHcCCHHHH
Q 048142           86 GNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDE---RISHFNLMSEKYGIRP--SIEHYGCLVYILGRAGRIAKA  160 (352)
Q Consensus        86 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~---a~~~~~~m~~~~g~~p--~~~~~~~li~~~~~~g~~~~A  160 (352)
                      ...+.+-|.+....|. |+..+-..+..++.+.....+   ++.++++..+. + .|  .....-.|.-++.+.|++++|
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~-~-~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT-S-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CcchHHHHHHHHHHHHHHhhhHHHH
Confidence            3444455554444443 555555555566666665554   66666666543 1 12  122222344455566666666


Q ss_pred             HHHHHhC
Q 048142          161 EELIKNM  167 (352)
Q Consensus       161 ~~~~~~m  167 (352)
                      .+.++.+
T Consensus        94 ~~~~~~l  100 (126)
T 1nzn_A           94 LKYVRGL  100 (126)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666555

>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=89.60  E-value=2.9  Score=28.86  Aligned_cols=48  Identities=15%  Similarity=0.224  Sum_probs=37.7

Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHH
Q 048142          168 PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSN  215 (352)
Q Consensus       168 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~  215 (352)
                      ...|++.+..+.+.+|.+.+++..|.++++-++....+...+|..++.
T Consensus        40 DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lq   87 (109)
T 1v54_E           40 DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   87 (109)
T ss_dssp             SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            566888888888899988889999999988887765555556776654

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=89.08  E-value=0.0022  Score=57.76  Aligned_cols=179  Identities=12%  Similarity=0.201  Sum_probs=130.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI  150 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  150 (352)
                      ..|..|..++.+.++..+|++-|-+      .-|+..|..++.+..+.|.+++-...+...++. .-  ++..=+.|+-+
T Consensus        55 ~VWs~LgkAqL~~~~v~eAIdsyIk------A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~-~k--e~~IDteLi~a  125 (624)
T 3lvg_A           55 AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK-AR--ESYVETELIFA  125 (624)
T ss_dssp             CCSSSHHHHTTTSSSCTTTTTSSCC------CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT-CC--STTTTHHHHHH
T ss_pred             cHHHHHHHHHHccCchHHHHHHHHh------CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-hc--ccccHHHHHHH
Confidence            4699999999999999999877622      125667889999999999999998877666543 33  44445589999


Q ss_pred             HHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---------------------CCCCcch
Q 048142          151 LGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLEL---------------------LPDNGGS  209 (352)
Q Consensus       151 ~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---------------------~~~~~~~  209 (352)
                      |++.+++.+-.+++.    .|+..-...+-.-|...|.++.|.-+|..+..-                     ...++.|
T Consensus       126 yAk~~rL~elEefl~----~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          126 LAKTNRLAELEEFIN----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             HHTSCSSSTTTSTTS----CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             HHhhCcHHHHHHHHc----CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            999999887766653    355555556677777788887777766654321                     2347789


Q ss_pred             HHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhc
Q 048142          210 YVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFD  271 (352)
Q Consensus       210 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~  271 (352)
                      |.-+-.+|...+.+.-|--.--.+.   +.||      .+..+++.|...|+.++.+.+++.
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniI---vhad------eL~elv~~YE~~G~f~ELIsLlEa  254 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIV---VHAD------ELEELINYYQDRGYFEELITMLEA  254 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHH---CCSS------CCSGGGSSSSTTCCCTTSTTTHHH
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhc---ccHH------HHHHHHHHHHhCCCHHHHHHHHHH
Confidence            9999999999999887755433332   2222      234577778999999999988763

>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=88.66  E-value=4.6  Score=29.53  Aligned_cols=64  Identities=13%  Similarity=0.157  Sum_probs=50.1

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH
Q 048142           85 QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI  150 (352)
Q Consensus        85 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  150 (352)
                      |.-+..+-++.+....+.|++....+.+++|.+.+++..|.++|+-++.+  +.+....|..+++-
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K--~~~~~~iY~y~lqE  131 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQE  131 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--cCCchhhHHHHHHH
Confidence            44466666777777788999999999999999999999999999998875  44556667777654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=87.85  E-value=2.1  Score=43.76  Aligned_cols=145  Identities=8%  Similarity=-0.080  Sum_probs=94.5

Q ss_pred             HHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC--CCCC-----------------
Q 048142          111 VLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM--PMAL-----------------  171 (352)
Q Consensus       111 ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p-----------------  171 (352)
                      ++..+.+.+..+.+.++....      +.++..--.+..+|...|++++|.++|++.  ++.+                 
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~------~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWL------NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHS------CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHhhhHHHHHHHhhhc------cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            444444555555554433222      224433345667788999999999999887  1110                 


Q ss_pred             ------cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc-----chHHHHHHHHhhcCChHHHHHHHHHHHhcCCCC
Q 048142          172 ------DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG-----GSYVILSNRYSSSRKWKKVKRIRELMAERNIKK  240 (352)
Q Consensus       172 ------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  240 (352)
                            -..=|..++..+-+.+.++.+.++.+...+..+++.     ..|..+.+.+...|++++|...+-.+.+...+.
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~  971 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKK  971 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCH
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHH
Confidence                  112356677788889999999999888776433322     257888999999999999999998887766653


Q ss_pred             CCceeEEEEcceeehhhhcCcccCchh
Q 048142          241 PPGCILIEVDGVVHEFVKAGFVPNKSE  267 (352)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~G~~~~~~~  267 (352)
                      +      .++.++..+|+.|..+.-..
T Consensus       972 ~------cLr~LV~~lce~~~~~~L~~  992 (1139)
T 4fhn_B          972 S------CLLDFVNQLTKQGKINQLLN  992 (1139)
T ss_dssp             H------HHHHHHHHHHHHCCHHHHHH
T ss_pred             H------HHHHHHHHHHhCCChhhhhC
Confidence            2      23445566666665544433

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=86.74  E-value=6.1  Score=30.06  Aligned_cols=58  Identities=10%  Similarity=0.023  Sum_probs=42.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc-CCCCCH-------hHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142           76 LIVVLAMCGQGNKALEYFYEMQIR-GVKPDA-------ITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus        76 li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~-------~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      -+..+...+.++.|+-+...+... +..|+.       .++..+.+++...+++..|...|++..+
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            356677888999988887775432 123332       3566778888999999999999988654

>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=84.20  E-value=7.4  Score=28.47  Aligned_cols=49  Identities=14%  Similarity=0.218  Sum_probs=39.8

Q ss_pred             CCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHH
Q 048142          167 MPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSN  215 (352)
Q Consensus       167 m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~  215 (352)
                      +..-|++.+..+.+.+|.+.+|+..|.++++-++....+...+|..++.
T Consensus        82 ~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~lq  130 (152)
T 2y69_E           82 YDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ  130 (152)
T ss_dssp             SSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHHH
Confidence            3567899999999999999999999999999988766555667876655

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.03  E-value=26  Score=31.46  Aligned_cols=187  Identities=14%  Similarity=0.107  Sum_probs=118.9

Q ss_pred             CChHHHHHHHHHHHHcC-CCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCHhHH--HHHHHHH
Q 048142           40 GALEVGMWLHPYIMKKN-IEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR-GVKPDAITF--VGVLVAC  115 (352)
Q Consensus        40 g~~~~a~~~~~~m~~~g-~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~--~~ll~~~  115 (352)
                      |+++.|.+.+-.+.+.. ...|..     .+......++..|...++++...+.+..+... |..+...+.  ..++...
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~-----s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l  104 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLA-----SSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYL  104 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTT-----TCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchh-----hHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            67888888777666532 111211     34567788999999999999998888766543 433333331  2222322


Q ss_pred             hccCCHHH--HHHHHHHhhHhcCCCC--------ChhHHHHHHHHHHHcCCHHHHHHHHHhC-----CCCCc---HHHHH
Q 048142          116 SHAGLVDE--RISHFNLMSEKYGIRP--------SIEHYGCLVYILGRAGRIAKAEELIKNM-----PMALD---HFVLG  177 (352)
Q Consensus       116 ~~~g~~~~--a~~~~~~m~~~~g~~p--------~~~~~~~li~~~~~~g~~~~A~~~~~~m-----~~~p~---~~~~~  177 (352)
                      ......+.  -..+.+...   .+..        .......|...|...|++.+|.+++..+     +..+.   ...|.
T Consensus       105 ~~~~~~d~~~~~~~i~~l~---~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l  181 (445)
T 4b4t_P          105 KSSKSLDLNTRISVIETIR---VVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFIL  181 (445)
T ss_dssp             HHHCTTHHHHHHHHHHCCS---SSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHH
T ss_pred             hcCCchhHHHHHHHHHHHH---HHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            22333222  222222221   1211        1233456788899999999999999987     21111   45667


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH---hCCCC----cchHHHHHHHHhhcCChHHHHHHHHHHH
Q 048142          178 GLLGACRIHDNLEAAERAAQQLLE---LLPDN----GGSYVILSNRYSSSRKWKKVKRIRELMA  234 (352)
Q Consensus       178 ~li~~~~~~g~~~~a~~~~~~~~~---~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~  234 (352)
                      ..+..|...+++..|..+++++..   ..++.    ...|...+..+...+++.+|.+.|.+..
T Consensus       182 ~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          182 EQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            777899999999999999998753   22222    2456777888888999999888877764

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=82.42  E-value=7.1  Score=31.09  Aligned_cols=190  Identities=9%  Similarity=-0.026  Sum_probs=97.1

Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHH--HH
Q 048142           33 LLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITF--VG  110 (352)
Q Consensus        33 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~--~~  110 (352)
                      +...++.|+.+....+++.+.+.|..++.      +|..-++.| ...+..|+.+    +++.+.+.|..|+....  .+
T Consensus        13 L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~------~~~~g~t~L-~~A~~~~~~~----~v~~Ll~~g~~~~~~~~~g~t   81 (241)
T 1k1a_A           13 LHIAVVQGNLPAVHRLVNLFQQGGRELDI------YNNLRQTPL-HLAVITTLPS----VVRLLVTAGASPMALDRHGQT   81 (241)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTCCSCC------CCTTSCCHH-HHHHHTTCHH----HHHHHHHTTCCTTCCCTTSCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCc------ccccCCCHH-HHHHHcCCHH----HHHHHHHcCCCccccCCCCCC
Confidence            44457789999998888888888776655      333333333 3334566654    44555566766554321  13


Q ss_pred             HHHHHhccCCHHHHHHHHHHhhHhcCCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHhCCCCCcH---HHHHHHHHHHH
Q 048142          111 VLVACSHAGLVDERISHFNLMSEKYGIRP---SIEHYGCLVYILGRAGRIAKAEELIKNMPMALDH---FVLGGLLGACR  184 (352)
Q Consensus       111 ll~~~~~~g~~~~a~~~~~~m~~~~g~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~---~~~~~li~~~~  184 (352)
                      .+...+..|+.+-+..+++..... ++.+   +....+ .+..-++.|+.+-...+++.- ..++.   ..-.+.+...+
T Consensus        82 ~l~~A~~~~~~~~~~~Ll~~~~~~-~~~~~~~~~~g~t-~L~~A~~~~~~~~~~~Ll~~g-~~~~~~~~~~g~t~L~~A~  158 (241)
T 1k1a_A           82 AAHLACEHRSPTCLRALLDSAAPG-TLDLEARNYDGLT-ALHVAVNTECQETVQLLLERG-ADIDAVDIKSGRSPLIHAV  158 (241)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCTT-SCCTTCCCTTSCC-HHHHHHHHTCHHHHHHHHHTT-CCTTCCCTTTCCCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHcCCCc-cccccccCcCCCc-HHHHHHHcCCHHHHHHHHHcC-CCcccccccCCCcHHHHHH
Confidence            344455678887776666554321 1222   222222 233445667777666666543 22211   11223344455


Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCC
Q 048142          185 IHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKP  241 (352)
Q Consensus       185 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  241 (352)
                      ..|+.+-+..+++.-......+..-. +.+...+..|+.+    +.+.+.+.|..|+
T Consensus       159 ~~~~~~~v~~Ll~~g~~~~~~~~~g~-t~L~~A~~~~~~~----~v~~Ll~~ga~~~  210 (241)
T 1k1a_A          159 ENNSLSMVQLLLQHGANVNAQMYSGS-SALHSASGRGLLP----LVRTLVRSGADSS  210 (241)
T ss_dssp             HTTCHHHHHHHHHTTCCTTCBCTTSC-BHHHHHHHHTCHH----HHHHHHHTTCCTT
T ss_pred             HcCCHHHHHHHHHcCCCCCCcCCCCC-CHHHHHHHcCCHH----HHHHHHhcCCCCC
Confidence            67777665555543211111121112 2333445566655    4444555777654

>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=81.12  E-value=14  Score=26.97  Aligned_cols=72  Identities=13%  Similarity=0.017  Sum_probs=41.5

Q ss_pred             CCCHHHHHHHHHHHhccCC---hHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048142           23 TGDKVTMVSLLLACTHLGA---LEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR   99 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~g~---~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~   99 (352)
                      .|+..|--....++.+..+   ..++..+++++.+.+..         .....+--|.-++.+.|++++|.+..+.+.+ 
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~---------~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~-  106 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAES---------RRRECLYYLTIGCYKLGEYSMAKRYVDTLFE-  106 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGG---------GHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT-
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcc---------hhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh-
Confidence            4455444444445555443   34577777777765521         1223344455667777777777777777766 


Q ss_pred             CCCCCH
Q 048142          100 GVKPDA  105 (352)
Q Consensus       100 g~~p~~  105 (352)
                       +.|+.
T Consensus       107 -~eP~N  111 (134)
T 3o48_A          107 -HERNN  111 (134)
T ss_dssp             -TCTTC
T ss_pred             -hCCCC
Confidence             45553

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	352
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	4e-05

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (99), Expect = 4e-05
 Identities = 29/162 (17%), Positives = 55/162 (33%), Gaps = 9/162 (5%)

Query: 68  KDVMTLTALIVVLAMCGQGNKALEYFYEM-QIRGVKPDAITFVGVLVACSHAGLVDERIS 126
             +     L  VL      ++A+  +     +          +         GL+D  I 
Sbjct: 201 NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLAC--VYYEQGLIDLAID 258

Query: 127 HFNLMSEKYGIRPSI-EHYGCLVYILGRAGRIAKAEELIKN--MPMALDHFVLGGLLGAC 183
            +    E   ++P   + Y  L   L   G +A+AE+               L  L    
Sbjct: 259 TYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIK 315

Query: 184 RIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKK 225
           R   N+E A R  ++ LE+ P+   ++  L++      K ++
Sbjct: 316 REQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQE 357

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	352
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.65
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.64
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.61
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.39
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.19
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.17
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.11
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.11
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.11
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.06
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.0
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.74
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.6
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.56
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.55
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.5
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.48
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.47
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.46
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.43
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.38
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.38
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.36
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.33
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.32
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.12
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.12
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.02
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.02
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.0
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.0
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.95
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.94
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.94
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.84
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.81
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.8
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.8
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.77
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.73
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.65
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.56
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.52
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.48
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.44
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.39
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.31
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.28
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.12
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.09
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.94
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.79
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.32
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.25
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.59
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.44
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.79
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.03
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	90.61
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	87.6
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.41
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	83.62
d1khda1	69	Anthranilate phosphoribosyltransferase (TrpD) {Pec	81.99

>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=2e-14  Score=124.16  Aligned_cols=220  Identities=14%  Similarity=0.010  Sum_probs=181.2

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      .+.|++++|+..|++..+.  .| +..+|..+..++...|++++|...+.+..+...          .+...|..+...|
T Consensus        30 ~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p----------~~~~~~~~la~~~   97 (323)
T d1fcha_          30 LQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLELKP----------DNQTALMALAVSF   97 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc----------ccccccccccccc
Confidence            4689999999999999985  45 578899999999999999999999999988653          4567899999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhH----------------HHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAIT----------------FVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHY  144 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t----------------~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~  144 (352)
                      ...|++++|++.+++....  .|+...                ....+..+...+...+|...+.+..+...-.++..++
T Consensus        98 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~  175 (323)
T d1fcha_          98 TNESLQRQACEILRDWLRY--TPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQ  175 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHT--STTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHH
T ss_pred             cccccccccccchhhHHHh--ccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccc
Confidence            9999999999999998764  232111                1111223334466778888888877642334467788


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCC
Q 048142          145 GCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRK  222 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  222 (352)
                      ..+...+...|++++|...|++. ...| +...|..+...+...|++++|.+.|++..+..|.++.+|..+..+|.+.|+
T Consensus       176 ~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~  255 (323)
T d1fcha_         176 CGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGA  255 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             hhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCC
Confidence            88999999999999999999986 3344 478899999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHh
Q 048142          223 WKKVKRIRELMAE  235 (352)
Q Consensus       223 ~~~a~~~~~~m~~  235 (352)
                      +++|.+.|++..+
T Consensus       256 ~~~A~~~~~~al~  268 (323)
T d1fcha_         256 HREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998765

>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=99.64  E-value=3.3e-14  Score=124.92  Aligned_cols=198  Identities=13%  Similarity=0.036  Sum_probs=163.2

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHH
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLV  148 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li  148 (352)
                      +...+..+...+...|++++|...+++..+.. +-+..++..+...+...|++++|...+......  ...+...+..+.
T Consensus       168 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~  244 (388)
T d1w3ba_         168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVHGNLA  244 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             hhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHH--hhhHHHHHHHHH
Confidence            34667778888899999999999999988742 224667888999999999999999999998864  234667788889


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHH
Q 048142          149 YILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKV  226 (352)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  226 (352)
                      ..|.+.|++++|...|++. ...|+ ..+|..+...+...|++++|...++......|.+...+..+...+...|++++|
T Consensus       245 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  324 (388)
T d1w3ba_         245 CVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEA  324 (388)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHH
Confidence            9999999999999999886 44554 778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCCH
Q 048142          227 KRIRELMAERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       227 ~~~~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                      .+.|++..+.  .|+...   ....+...+.+.|..++|...+....+
T Consensus       325 ~~~~~~al~~--~p~~~~---~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         325 VRLYRKALEV--FPEFAA---AHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHHHTTS--CTTCHH---HHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHh--CCCCHH---HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999988753  455332   223455668899999999998876543

>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=99.61  E-value=1.1e-13  Score=121.39  Aligned_cols=221  Identities=16%  Similarity=0.110  Sum_probs=180.3

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhc
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMC   83 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~   83 (352)
                      .+....+...+....... +-+...+..+...+...|++++|...+.+..+...          .+...|..+...+...
T Consensus       148 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p----------~~~~~~~~l~~~~~~~  216 (388)
T d1w3ba_         148 LGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP----------NFLDAYINLGNVLKEA  216 (388)
T ss_dssp             TSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHTT
T ss_pred             cchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCc----------ccHHHHHHHhhhhhcc
Confidence            355666777777666542 23567778888888999999999999998887643          4556788899999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHH
Q 048142           84 GQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEE  162 (352)
Q Consensus        84 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~  162 (352)
                      |++++|+..|++....+ +.+...+..+...+.+.|++++|...|++..+.   .| +...+..+...|...|++++|..
T Consensus       217 ~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~~~A~~  292 (388)
T d1w3ba_         217 RIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSVAEAED  292 (388)
T ss_dssp             TCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             ccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999988763 345677788888899999999999999988753   44 57788889999999999999999


Q ss_pred             HHHhC--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCC
Q 048142          163 LIKNM--PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKK  240 (352)
Q Consensus       163 ~~~~m--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  240 (352)
                      .++..  ....+...+..+...+...|++++|+..+++..+..|.++.++..+...|.+.|++++|.+.|++..+.  .|
T Consensus       293 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--~P  370 (388)
T d1w3ba_         293 CYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SP  370 (388)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CT
T ss_pred             HHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CC
Confidence            99876  223467788888889999999999999999998888888889999999999999999999999988753  45


Q ss_pred             C
Q 048142          241 P  241 (352)
Q Consensus       241 ~  241 (352)
                      +
T Consensus       371 ~  371 (388)
T d1w3ba_         371 T  371 (388)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=99.39  E-value=7.1e-12  Score=107.79  Aligned_cols=224  Identities=13%  Similarity=0.042  Sum_probs=176.3

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHhHHH
Q 048142           31 SLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKP-DAITFV  109 (352)
Q Consensus        31 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~  109 (352)
                      .....+.+.|++++|...|+++.+...          .+..+|..+..+|...|++++|+..|.+..+.  .| +...+.
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P----------~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~   91 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDP----------KHMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALM   91 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCT----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCC----------CCHHHHHHHHHHHHHcCChHHHHHHHHhhhcc--ccccccccc
Confidence            345567899999999999999998653          46778999999999999999999999998875  34 467788


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhhHhcCCCCChh----------------HHHHHHHHHHHcCCHHHHHHHHHhC----CC
Q 048142          110 GVLVACSHAGLVDERISHFNLMSEKYGIRPSIE----------------HYGCLVYILGRAGRIAKAEELIKNM----PM  169 (352)
Q Consensus       110 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~----------------~~~~li~~~~~~g~~~~A~~~~~~m----~~  169 (352)
                      .+...+...|++++|...++.....   .|+..                .....+..+...+.+++|...|.+.    +.
T Consensus        92 ~la~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~  168 (323)
T d1fcha_          92 ALAVSFTNESLQRQACEILRDWLRY---TPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPT  168 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHT---STTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             cccccccccccccccccchhhHHHh---ccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhc
Confidence            8899999999999999999998753   22211                1111223344556788888888765    44


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeEEEE
Q 048142          170 ALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCILIEV  249 (352)
Q Consensus       170 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~~~  249 (352)
                      .++..+|..+...+...|++++|...+++.....|.+..+|..+...|...|++++|.+.|++..+.  .|+...   .+
T Consensus       169 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~---a~  243 (323)
T d1fcha_         169 SIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIR---SR  243 (323)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH---HH
T ss_pred             ccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHH--hhccHH---HH
Confidence            5567888899999999999999999999999999999999999999999999999999999998764  344222   12


Q ss_pred             cceeehhhhcCcccCchhhhhcCCH
Q 048142          250 DGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       250 ~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                      ..+...+.+.|..++|...+....+
T Consensus       244 ~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         244 YNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            2344557788999999888865443

>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=99.19  E-value=4.8e-09  Score=89.35  Aligned_cols=218  Identities=6%  Similarity=-0.088  Sum_probs=162.3

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHh--------------ccCChHHHHHHHHHHHHcCCCCCccccccCCcHHH
Q 048142            7 CEEALLLFREVQHKGLTGDKVTMVSLLLACT--------------HLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMT   72 (352)
Q Consensus         7 ~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~--------------~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~   72 (352)
                      .+++..+|+++... ++-+...|..-+.-+-              ..+..++|..+++...+...+         .+...
T Consensus        32 ~~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p---------~~~~l  101 (308)
T d2onda1          32 TKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK---------KNMLL  101 (308)
T ss_dssp             HHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTT---------TCHHH
T ss_pred             HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCC---------CCHHH
Confidence            45577788888764 2335566655443322              223457788899888765433         45568


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH-H
Q 048142           73 LTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI-L  151 (352)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~-~  151 (352)
                      |...+..+.+.|+.++|..+|+++...........|...+..+.+.|+++.|.++|+...+.  .+.+...|...... +
T Consensus       102 ~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~--~~~~~~~~~~~a~~e~  179 (308)
T d2onda1         102 YFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEY  179 (308)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCcHHHHHHHHHHHH
Confidence            88899999999999999999999987532223456889999999999999999999998764  22244445444443 3


Q ss_pred             HHcCCHHHHHHHHHhC-C-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc----chHHHHHHHHhhcCChHH
Q 048142          152 GRAGRIAKAEELIKNM-P-MALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG----GSYVILSNRYSSSRKWKK  225 (352)
Q Consensus       152 ~~~g~~~~A~~~~~~m-~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~  225 (352)
                      ...|+.+.|..+|+.+ . ...+...|...+..+...|+.+.|..+|++..+..|.++    ..|...+..-...|+.+.
T Consensus       180 ~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~  259 (308)
T d2onda1         180 YCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLAS  259 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHH
T ss_pred             HhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHH
Confidence            3468999999999987 2 223578899999999999999999999999887655432    478888888888999999


Q ss_pred             HHHHHHHHHhc
Q 048142          226 VKRIRELMAER  236 (352)
Q Consensus       226 a~~~~~~m~~~  236 (352)
                      +.++++++.+.
T Consensus       260 ~~~~~~r~~~~  270 (308)
T d2onda1         260 ILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988653

>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=99.17  E-value=4.5e-09  Score=89.52  Aligned_cols=189  Identities=7%  Similarity=-0.024  Sum_probs=150.6

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCC
Q 048142            6 ACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQ   85 (352)
Q Consensus         6 ~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~   85 (352)
                      ..++|..+|++......+.+...|...+....+.|+++.|..+|+.+.+....         .....|...+....+.|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~---------~~~~~w~~~~~~~~~~~~  149 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI---------DPTLVYIQYMKFARRAEG  149 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSS---------CTHHHHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcC---------ChHHHHHHHHHHHHHcCC
Confidence            45788899998886544446677888888889999999999999999875432         234579999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHhHHHHHHH-HHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHH
Q 048142           86 GNKALEYFYEMQIRGVKPDAITFVGVLV-ACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELI  164 (352)
Q Consensus        86 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~-~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  164 (352)
                      .++|.++|.+..+.+. .+...|..... -+...|+.+.|..+|+.+.+.  .+.+...|...++.+.+.|+++.|..+|
T Consensus       150 ~~~ar~i~~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~f  226 (308)
T d2onda1         150 IKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLF  226 (308)
T ss_dssp             HHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHH
Confidence            9999999999987632 23334433332 234568999999999999975  3446788999999999999999999999


Q ss_pred             HhC----CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 048142          165 KNM----PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN  206 (352)
Q Consensus       165 ~~m----~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  206 (352)
                      ++.    +..|+  ...|...+.--..+|+.+.+..+++++.+..|.+
T Consensus       227 e~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~  274 (308)
T d2onda1         227 ERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  274 (308)
T ss_dssp             HHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccc
Confidence            986    34443  5689999998899999999999999998876644

>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=99.11  E-value=5.5e-09  Score=89.30  Aligned_cols=198  Identities=8%  Similarity=0.029  Sum_probs=162.4

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCC
Q 048142           26 KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCG-QGNKALEYFYEMQIRGVKPD  104 (352)
Q Consensus        26 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~  104 (352)
                      ...|+.+-..+.+.+..++|+++++++++...          -+...|+....++...| ++++|+..+++..+.. +-+
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP----------~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~  111 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNA----------ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKN  111 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCC----------CChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-Hhh
Confidence            45667777778889999999999999999764          46678999999988876 5899999999998752 225


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHH
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLG  181 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~  181 (352)
                      ..+|..+...+.+.|++++|+..++.+.+.   .| +...|..+...+.+.|++++|++.++++ ...| +...|+.+..
T Consensus       112 ~~a~~~~~~~~~~l~~~~eAl~~~~kal~~---dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~  188 (315)
T d2h6fa1         112 YQVWHHRRVLVEWLRDPSQELEFIADILNQ---DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYF  188 (315)
T ss_dssp             HHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhHHHHHhHHHHhhccHHHHHHHHhhhhhh---hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHH
Confidence            778999999999999999999999999864   55 6889999999999999999999999998 4445 4778887766


Q ss_pred             HHHhcCC------HHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          182 ACRIHDN------LEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       182 ~~~~~g~------~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      .+...+.      .++|+..+.+..+..|.+...|+.+...+...| .+++.+.++...+...
T Consensus       189 ~l~~~~~~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~  250 (315)
T d2h6fa1         189 VISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQP  250 (315)
T ss_dssp             HHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTT
T ss_pred             HHHHccccchhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCC
Confidence            6655554      678999999999999999999998887776544 6778888887766433

>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=99.11  E-value=1.4e-09  Score=89.91  Aligned_cols=218  Identities=12%  Similarity=0.011  Sum_probs=148.5

Q ss_pred             CCChhHHHHHHHHHHHCCC-CC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            4 DSACEEALLLFREVQHKGL-TG--DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~-~p--~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      .++.+.|+.-+++....-. .+  ...+|..+-..+.+.|++++|.+.|++.++...          .+..+|+.+..+|
T Consensus        12 ~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p----------~~~~a~~~lg~~~   81 (259)
T d1xnfa_          12 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP----------DMPEVFNYLGIYL   81 (259)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC----------CCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCC----------CCHHHHhhhchHH
Confidence            3456777888888776422 11  234677788899999999999999999998654          4667899999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC-CHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKP-DAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIA  158 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~  158 (352)
                      .+.|++++|++.|++..+.  .| +..++..+..++...|++++|...|+...+.   .| +......+...+.+.+..+
T Consensus        82 ~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~  156 (259)
T d1xnfa_          82 TQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQ  156 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHH
T ss_pred             HHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh---ccccHHHHHHHHHHHHHhhhHH
Confidence            9999999999999999985  44 4567888889999999999999999999875   34 4444444444555666555


Q ss_pred             HHHHHHHhC-CCCCcHHHHHHHHHHHHhcCC----HHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHH
Q 048142          159 KAEELIKNM-PMALDHFVLGGLLGACRIHDN----LEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELM  233 (352)
Q Consensus       159 ~A~~~~~~m-~~~p~~~~~~~li~~~~~~g~----~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  233 (352)
                      .+..+.... ...++...++ ++..+.....    .+.+...+.......|....+|..+...|...|++++|.+.|++.
T Consensus       157 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a  235 (259)
T d1xnfa_         157 AKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLA  235 (259)
T ss_dssp             HHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccchhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            555544433 1112222222 2222222211    222222222222223334457778899999999999999999998


Q ss_pred             HhcC
Q 048142          234 AERN  237 (352)
Q Consensus       234 ~~~g  237 (352)
                      ...+
T Consensus       236 l~~~  239 (259)
T d1xnfa_         236 VANN  239 (259)
T ss_dssp             HTTC
T ss_pred             HHcC
Confidence            7644

>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=99.11  E-value=3e-09  Score=90.94  Aligned_cols=200  Identities=13%  Similarity=0.113  Sum_probs=158.1

Q ss_pred             cCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccC-ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLG-ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      +.+.+++|++++++....  .| +...|+....++...| ++++|...++...+...          .+..+|+.+...+
T Consensus        55 ~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p----------~~~~a~~~~~~~~  122 (315)
T d2h6fa1          55 RDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP----------KNYQVWHHRRVLV  122 (315)
T ss_dssp             HTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHH
T ss_pred             hCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH----------hhhhHHHHHhHHH
Confidence            567899999999999985  56 5678888888888876 58999999999988765          5778999999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCC---
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGR---  156 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~---  156 (352)
                      .+.|++++|++.|+++.+. -+-+...|..+...+.+.|++++|...++.+.+.   .| +...|+.+...+.+.+.   
T Consensus       123 ~~l~~~~eAl~~~~kal~~-dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~---~p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQ-DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HhhccHHHHHHHHhhhhhh-hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---CCccHHHHHHHHHHHHHccccch
Confidence            9999999999999999985 2335888999999999999999999999999864   55 67788887777777665   


Q ss_pred             ---HHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC--CcchHHHHHHHHhh
Q 048142          157 ---IAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPD--NGGSYVILSNRYSS  219 (352)
Q Consensus       157 ---~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~li~~~~~  219 (352)
                         +++|.+.+.+. ...| +...|+.+...+.. ...+++.+.++...+..|.  +...+..+...|..
T Consensus       199 ~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence               57788887775 4445 47777777665544 4467888888888776554  34455566666644

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.06  E-value=1.3e-09  Score=90.08  Aligned_cols=193  Identities=8%  Similarity=-0.111  Sum_probs=133.9

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTG-DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVL   80 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~   80 (352)
                      .+.|++++|++.|++....  .| +..+|+.+..++.+.|++++|...|+++.+...          .+..+|..+..+|
T Consensus        48 ~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p----------~~~~a~~~lg~~~  115 (259)
T d1xnfa_          48 DSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP----------TYNYAHLNRGIAL  115 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCTHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh----------hhhhhHHHHHHHH
Confidence            4679999999999999885  45 678999999999999999999999999998654          3446788999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCC----
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGR----  156 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~----  156 (352)
                      ...|++++|++.|++..+.. +.+......+..++.+.+..+.+..+.......   .++...++ ++..+.....    
T Consensus       116 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~~~~~~~~~  190 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS---DKEQWGWN-IVEFYLGNISEQTL  190 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS---CCCSTHHH-HHHHHTTSSCHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc---chhhhhhh-HHHHHHHHHHHHHH
Confidence            99999999999999998753 234444444445555566655555555554432   22222222 2222222222    


Q ss_pred             HHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHH
Q 048142          157 IAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYV  211 (352)
Q Consensus       157 ~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  211 (352)
                      .+.+...+... ...|+ ..+|..+...+...|++++|...|++.....|.+..-|.
T Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  247 (259)
T d1xnfa_         191 MERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHR  247 (259)
T ss_dssp             HHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHH
T ss_pred             HHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence            22222222111 11233 356777888999999999999999999998887765554

>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=99.00  E-value=2.9e-08  Score=84.91  Aligned_cols=262  Identities=12%  Similarity=-0.027  Sum_probs=168.6

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCC------HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-CccccccCCcHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGD------KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEV-DVGLGMALKDVMTLT   74 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~------~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~l~~~~~~~   74 (352)
                      ...|++++|+++|++....  .|+      ..++..+...+...|++++|...+++..+..... +..     .....+.
T Consensus        23 ~~~g~~~~A~~~~~~aL~~--~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~-----~~~~~~~   95 (366)
T d1hz4a_          23 INDGNPDEAERLAKLALEE--LPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWH-----YALWSLI   95 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHT--CCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHH-----HHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhh--CcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchH-----HHHHHHH
Confidence            3579999999999998774  332      2467778888999999999999999887642111 110     2234567


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc----CCCC--C-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcC---CCCChhHH
Q 048142           75 ALIVVLAMCGQGNKALEYFYEMQIR----GVKP--D-AITFVGVLVACSHAGLVDERISHFNLMSEKYG---IRPSIEHY  144 (352)
Q Consensus        75 ~li~~~~~~g~~~~A~~~~~~m~~~----g~~p--~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g---~~p~~~~~  144 (352)
                      .+...+...|++..|...+.+....    +..+  . ...+..+...+...|+++.+...+........   .......+
T Consensus        96 ~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  175 (366)
T d1hz4a_          96 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  175 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHH
Confidence            7778888899999999988876531    1111  1 23455666778888999999888887765422   12234455


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-------CCCCc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC----cchHH
Q 048142          145 GCLVYILGRAGRIAKAEELIKNM-------PMALD--HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDN----GGSYV  211 (352)
Q Consensus       145 ~~li~~~~~~g~~~~A~~~~~~m-------~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~----~~~~~  211 (352)
                      ..+...+...+...++...+.+.       +..+.  ...+..+...+...|+.+.|...++...+..+.+    ...+.
T Consensus       176 ~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  255 (366)
T d1hz4a_         176 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  255 (366)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            55666677777777777666543       21111  2344555566777788888888877765543322    23445


Q ss_pred             HHHHHHhhcCChHHHHHHHHHHH----hcCCCCCCceeEEEEcceeehhhhcCcccCchhhhhcCC
Q 048142          212 ILSNRYSSSRKWKKVKRIRELMA----ERNIKKPPGCILIEVDGVVHEFVKAGFVPNKSEVLFDMD  273 (352)
Q Consensus       212 ~li~~~~~~g~~~~a~~~~~~m~----~~g~~p~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~  273 (352)
                      .+...+...|++++|.+.++...    ..+..|+...   ....+-..+.+.|+.++|...+....
T Consensus       256 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~---~~~~la~~~~~~g~~~~A~~~l~~Al  318 (366)
T d1hz4a_         256 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNR---NLLLLNQLYWQAGRKSDAQRVLLDAL  318 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH---HHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHH---HHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            56777788888888888877764    2344443221   12233445667788888887776543

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.74  E-value=2.9e-08  Score=85.23  Aligned_cols=214  Identities=10%  Similarity=-0.064  Sum_probs=140.3

Q ss_pred             ChhHHHHHHHHHHHCCCCCCH-HHHHHHH---HHHhc-------cCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHH
Q 048142            6 ACEEALLLFREVQHKGLTGDK-VTMVSLL---LACTH-------LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLT   74 (352)
Q Consensus         6 ~~~~A~~~~~~m~~~g~~p~~-~t~~~li---~~~~~-------~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~   74 (352)
                      ..++|+++++.....  .|+. ..|+..-   .....       .|.+++|+.+++...+...          .+...|.
T Consensus        44 ~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~p----------k~~~~~~  111 (334)
T d1dcea1          44 LDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP----------KSYGTWH  111 (334)
T ss_dssp             CSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT----------TCHHHHH
T ss_pred             ccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCC----------CcHHHHH
Confidence            458999999999874  5754 4454322   22222       3457889999999888654          5667888


Q ss_pred             HHHHHHHhcC--ChHHHHHHHHHHHHcCCCCCHhHHH-HHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHH
Q 048142           75 ALIVVLAMCG--QGNKALEYFYEMQIRGVKPDAITFV-GVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYI  150 (352)
Q Consensus        75 ~li~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~t~~-~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~  150 (352)
                      .+..++...+  ++++|+..+++..+. -+++...+. .....+...+..++|...++...+   ..| +...|+.+...
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~-~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~---~~p~~~~a~~~l~~~  187 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEA-DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLIT---RNFSNYSSWHYRSCL  187 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTT---TTCCCHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhh-CchhhhhhhhHHHHHHHhccccHHHHHHHHHHHH---cCCCCHHHHHHHHHH
Confidence            8888877765  489999999999885 233455554 444677788999999999998875   355 67888899999


Q ss_pred             HHHcCCHHHHHHHHHhC------------------CCCCcH--------------HHHHHHHHHHHhcCCHHHHHHHHHH
Q 048142          151 LGRAGRIAKAEELIKNM------------------PMALDH--------------FVLGGLLGACRIHDNLEAAERAAQQ  198 (352)
Q Consensus       151 ~~~~g~~~~A~~~~~~m------------------~~~p~~--------------~~~~~li~~~~~~g~~~~a~~~~~~  198 (352)
                      +.+.|++++|...++..                  +.....              ..+..+...+...++.++|...+.+
T Consensus       188 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  267 (334)
T d1dcea1         188 LPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQE  267 (334)
T ss_dssp             HHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            99999887765444332                  111111              1111223334444555556665555


Q ss_pred             HHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          199 LLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       199 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      ..+..|.+..+|..+...|...|++++|.+.+++..+
T Consensus       268 ~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~  304 (334)
T d1dcea1         268 LEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA  304 (334)
T ss_dssp             HCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH
T ss_pred             HHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5555555556666666666666666666666666654

>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=98.60  E-value=1e-06  Score=73.77  Aligned_cols=201  Identities=10%  Similarity=-0.073  Sum_probs=135.7

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-CccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCC
Q 048142           28 TMVSLLLACTHLGALEVGMWLHPYIMKKNIEV-DVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR----GVK  102 (352)
Q Consensus        28 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~  102 (352)
                      .|......|...|++++|.+.|.+..+..... +..     .-..+|+.+..+|.+.|++++|++.+++..+.    |..
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~-----~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~  113 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNED-----EAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQF  113 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHH-----HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCH-----HHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccc
Confidence            46777788889999999999999887632111 000     23457899999999999999999999986542    111


Q ss_pred             -CCHhHHHHHHHHH-hccCCHHHHHHHHHHhhHhc---CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC----CC---
Q 048142          103 -PDAITFVGVLVAC-SHAGLVDERISHFNLMSEKY---GIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM----PM---  169 (352)
Q Consensus       103 -p~~~t~~~ll~~~-~~~g~~~~a~~~~~~m~~~~---g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~---  169 (352)
                       ....++..+...| ...|++++|...+.+..+-.   +..+ -..++..+...|.+.|++++|...|+++    +.   
T Consensus       114 ~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~  193 (290)
T d1qqea_         114 RRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRL  193 (290)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTT
T ss_pred             hhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchh
Confidence             1134455666666 44699999999998876421   2122 2456778899999999999999999886    11   


Q ss_pred             -CCcH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc-----chHHHHHHHHhh--cCChHHHHHHHHHH
Q 048142          170 -ALDH-FVLGGLLGACRIHDNLEAAERAAQQLLELLPDNG-----GSYVILSNRYSS--SRKWKKVKRIRELM  233 (352)
Q Consensus       170 -~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~li~~~~~--~g~~~~a~~~~~~m  233 (352)
                       .... ..+...+..+...|+++.|...+++..+..|.-.     .....++.++..  .+.+++|...|+.+
T Consensus       194 ~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         194 SQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             TGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             hhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence             1121 2344455567788999999999999877655322     234556666654  34577777777543

>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=98.56  E-value=1.5e-06  Score=67.99  Aligned_cols=117  Identities=9%  Similarity=-0.019  Sum_probs=76.9

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM   82 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~   82 (352)
                      +.|++++|++.|+++    .+|+..+|..+-.++...|++++|.+.|++.++...          .+...|+.+..+|.+
T Consensus        17 ~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp----------~~~~a~~~~g~~~~~   82 (192)
T d1hh8a_          17 DKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK----------HLAVAYFQRGMLYYQ   82 (192)
T ss_dssp             HTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh----------hhhhhHHHHHHHHHh
Confidence            467777777777653    245667777777777777888888777777777543          455677777777777


Q ss_pred             cCChHHHHHHHHHHHHcCC--------------CCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142           83 CGQGNKALEYFYEMQIRGV--------------KPD-AITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g~--------------~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      .|++++|++.|++.....-              +++ ..++..+..++.+.|++++|.+.+....+
T Consensus        83 ~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_          83 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            7888888777777654210              001 12344455566667777777776666553

>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=98.55  E-value=8.6e-07  Score=75.40  Aligned_cols=237  Identities=11%  Similarity=-0.011  Sum_probs=162.1

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-Hh
Q 048142           32 LLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIR----GVKPD-AI  106 (352)
Q Consensus        32 li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~  106 (352)
                      ....+...|++++|.+++++..+.....+..     .....++.+...|...|++++|+..|++..+.    +..+. ..
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~-----~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   92 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFY-----SRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALW   92 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHH-----HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHH
Confidence            3445678999999999999988754321110     12356788889999999999999999988653    11111 23


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhHhc---CCCCC---hhHHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCcH
Q 048142          107 TFVGVLVACSHAGLVDERISHFNLMSEKY---GIRPS---IEHYGCLVYILGRAGRIAKAEELIKNM-------PMALDH  173 (352)
Q Consensus       107 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~  173 (352)
                      ++..+...+...|++..+...+.......   +..+.   ...+..+...+...|+++.|...+...       +.....
T Consensus        93 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  172 (366)
T d1hz4a_          93 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQL  172 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHH
Confidence            45667778888999999999888765421   12221   235566778889999999999998776       222335


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhC---CC----CcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCCCceeE
Q 048142          174 FVLGGLLGACRIHDNLEAAERAAQQLLELL---PD----NGGSYVILSNRYSSSRKWKKVKRIRELMAERNIKKPPGCIL  246 (352)
Q Consensus       174 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  246 (352)
                      .++..+...+...++...+...+.+.....   ..    ....+..+...+...|++++|...++.........++. ..
T Consensus       173 ~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~  251 (366)
T d1hz4a_         173 QCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHF-LQ  251 (366)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGG-GH
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchH-HH
Confidence            666677778888999999999988865531   11    12345667778899999999999998765443322211 11


Q ss_pred             EEEcceeehhhhcCcccCchhhhhcCCH
Q 048142          247 IEVDGVVHEFVKAGFVPNKSEVLFDMDE  274 (352)
Q Consensus       247 ~~~~~~~~~~~~~G~~~~~~~~~~~~~~  274 (352)
                      .....+...+...|..+.|...+.....
T Consensus       252 ~~~~~la~~~~~~g~~~~A~~~~~~al~  279 (366)
T d1hz4a_         252 GQWRNIARAQILLGEFEPAEIVLEELNE  279 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1112234557788999999988876543

>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=98.50  E-value=4.7e-07  Score=71.15  Aligned_cols=94  Identities=9%  Similarity=-0.057  Sum_probs=41.3

Q ss_pred             cHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHH
Q 048142           69 DVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCL  147 (352)
Q Consensus        69 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~l  147 (352)
                      +..........|.+.|++++|+..|++..+.. +-+...|..+..+|.+.|++++|...|+...   .+.| +...|..+
T Consensus         3 ~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al---~l~p~~~~a~~~l   78 (201)
T d2c2la1           3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRAL---ELDGQSVKAHFFL   78 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSCTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHH---HhCCCcHHHHHHH
Confidence            33333444444445555555555554444431 1233344444444444444444444444443   2233 23344444


Q ss_pred             HHHHHHcCCHHHHHHHHHh
Q 048142          148 VYILGRAGRIAKAEELIKN  166 (352)
Q Consensus       148 i~~~~~~g~~~~A~~~~~~  166 (352)
                      ..+|.+.|++++|...|++
T Consensus        79 g~~~~~l~~~~~A~~~~~~   97 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQR   97 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHH
Confidence            4444444444444444443

>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=98.48  E-value=2.4e-06  Score=71.48  Aligned_cols=165  Identities=11%  Similarity=-0.031  Sum_probs=121.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-HhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC----ChhH
Q 048142           73 LTALIVVLAMCGQGNKALEYFYEMQIR----GVKPD-AITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP----SIEH  143 (352)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p----~~~~  143 (352)
                      |......|...+++++|.+.|.+..+.    +-.|+ ..+|..+..+|.+.|++++|...+++..+.+.-..    ...+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            455566788999999999999988652    22232 35788999999999999999999987665321111    2445


Q ss_pred             HHHHHHHHHH-cCCHHHHHHHHHhC-------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcc------
Q 048142          144 YGCLVYILGR-AGRIAKAEELIKNM-------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGG------  208 (352)
Q Consensus       144 ~~~li~~~~~-~g~~~~A~~~~~~m-------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~------  208 (352)
                      +..+...|-. .|++++|...+++.       +..+. ..+|..+...+...|++++|...|++.....+.+..      
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~  199 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHH
Confidence            6666666754 69999999999876       22222 456788889999999999999999998876554432      


Q ss_pred             -hHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          209 -SYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       209 -~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                       .+...+..+...|+++.|.+.+++..+..
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence             23455556778899999999999886543

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.47  E-value=8.5e-07  Score=75.78  Aligned_cols=201  Identities=7%  Similarity=-0.075  Sum_probs=145.2

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccC--ChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHH-HHHHH
Q 048142            5 SACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLG--ALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTAL-IVVLA   81 (352)
Q Consensus         5 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~l-i~~~~   81 (352)
                      |.+++|+.+|+...... +-+...|..+..++...+  ++++|...+..+.+...          ++...|..+ ...+.
T Consensus        87 ~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~----------~~~~~~~~~~~~~~~  155 (334)
T d1dcea1          87 ALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE----------RNFHCWDYRRFVAAQ  155 (334)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc----------hhhhhhhhHHHHHHH
Confidence            45788999999988753 336777887777777766  48899999999988654          455666544 46777


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHH------------------------------HHHHHh
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERI------------------------------SHFNLM  131 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~------------------------------~~~~~m  131 (352)
                      ..+++++|+..+++..... +-+...|..+...+.+.|++++|.                              ..+...
T Consensus       156 ~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~  234 (334)
T d1dcea1         156 AAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRW  234 (334)
T ss_dssp             TCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHH
T ss_pred             hccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            8899999999999888753 235667887777777766654331                              111111


Q ss_pred             hHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcch
Q 048142          132 SEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGS  209 (352)
Q Consensus       132 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  209 (352)
                      ..  .-.++...+..+...+...|+.++|...+.+. ...|+ ..+|..+...+...|+.++|.+.+++..+..|.+...
T Consensus       235 l~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y  312 (334)
T d1dcea1         235 LL--GRAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAY  312 (334)
T ss_dssp             HH--SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHH
T ss_pred             HH--hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHH
Confidence            11  11223334445666777788999999998876 55564 6778888889999999999999999999999988888


Q ss_pred             HHHHHHHHhh
Q 048142          210 YVILSNRYSS  219 (352)
Q Consensus       210 ~~~li~~~~~  219 (352)
                      |..|...+.-
T Consensus       313 ~~~L~~~~~~  322 (334)
T d1dcea1         313 LDDLRSKFLL  322 (334)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhH
Confidence            8877666653

>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=98.46  E-value=6.4e-07  Score=70.35  Aligned_cols=114  Identities=8%  Similarity=-0.154  Sum_probs=85.3

Q ss_pred             CCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCCc-HHHHHHH
Q 048142          102 KPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMALD-HFVLGGL  179 (352)
Q Consensus       102 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~l  179 (352)
                      .|+...+...-..+.+.|++++|+..|.+..+.  -+-+...|..+..+|.+.|++++|+..|++. ...|+ ..+|..+
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~l   78 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFL   78 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHH
Confidence            367777777888888888999998888887764  1336777888888888888888888888886 55665 7788888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHH
Q 048142          180 LGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRY  217 (352)
Q Consensus       180 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~  217 (352)
                      ..++...|++++|...|++..+..|.+...+...+..+
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  116 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSA  116 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            88888888888888888887765554433333333333

>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=98.43  E-value=1.6e-06  Score=61.85  Aligned_cols=94  Identities=14%  Similarity=0.014  Sum_probs=42.4

Q ss_pred             HhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHH
Q 048142          115 CSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAA  192 (352)
Q Consensus       115 ~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a  192 (352)
                      +.+.|++++|...|++..+.  -+-+...|..+..+|.+.|++++|+..+++. ...| ++..|..+..++...|++++|
T Consensus        13 ~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~A   90 (117)
T d1elwa_          13 ALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEA   90 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHHH
Confidence            34444444444444444432  1113444444444444555555555544443 1111 344444444455555555555


Q ss_pred             HHHHHHHHHhCCCCcchH
Q 048142          193 ERAAQQLLELLPDNGGSY  210 (352)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~  210 (352)
                      +..+++..+..|.++..+
T Consensus        91 ~~~~~~a~~~~p~~~~~~  108 (117)
T d1elwa_          91 KRTYEEGLKHEANNPQLK  108 (117)
T ss_dssp             HHHHHHHHTTCTTCHHHH
T ss_pred             HHHHHHHHHhCCCCHHHH
Confidence            555555554444444333

>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=98.38  E-value=3.2e-06  Score=60.28  Aligned_cols=91  Identities=10%  Similarity=-0.065  Sum_probs=66.8

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHH
Q 048142           32 LLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGV  111 (352)
Q Consensus        32 li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  111 (352)
                      -.+.+.+.|++++|...|.+.++...          .+...|..+..+|.+.|++++|+..+.+..+.+ +.+...|..+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p----------~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~   77 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDP----------HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRK   77 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCC----------cchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHH
Confidence            34556777888888888888777543          455677778888888888888888888877652 3356677777


Q ss_pred             HHHHhccCCHHHHHHHHHHhhH
Q 048142          112 LVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus       112 l~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      ..++...|++++|...|+...+
T Consensus        78 g~~~~~~~~~~~A~~~~~~a~~   99 (117)
T d1elwa_          78 AAALEFLNRFEEAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccCHHHHHHHHHHHHH
Confidence            7788888888888888877764

>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=98.38  E-value=4.8e-06  Score=62.83  Aligned_cols=99  Identities=12%  Similarity=0.000  Sum_probs=61.6

Q ss_pred             HHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCH
Q 048142          113 VACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNL  189 (352)
Q Consensus       113 ~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~  189 (352)
                      +.|.+.|++++|...|.+..+.   .| +...|..+..+|...|++++|...|++. ...| +...|..+..++...|++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHhhhcccc---chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            3455666666666666666543   33 4556666666666677777777666665 2233 356666666677777777


Q ss_pred             HHHHHHHHHHHHhCCCCcchHHHHH
Q 048142          190 EAAERAAQQLLELLPDNGGSYVILS  214 (352)
Q Consensus       190 ~~a~~~~~~~~~~~~~~~~~~~~li  214 (352)
                      ++|...+++.....|.+...+..+.
T Consensus        95 ~eA~~~~~~a~~~~p~~~~~~~~l~  119 (159)
T d1a17a_          95 RAALRDYETVVKVKPHDKDAKMKYQ  119 (159)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            7777777777666666655555443

>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=98.36  E-value=5e-06  Score=64.91  Aligned_cols=125  Identities=13%  Similarity=-0.024  Sum_probs=92.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHH
Q 048142           72 TLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYI  150 (352)
Q Consensus        72 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~  150 (352)
                      .|+- ...+...|++++|++.|.++    .+|+..+|..+-.++...|++++|...|++..+.   .| +...|..+..+
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l---dp~~~~a~~~~g~~   79 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR---DKHLAVAYFQRGML   79 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH---hhhhhhhHHHHHHH
Confidence            4553 56667889999999888764    4567778888888899999999999999888764   44 57788888888


Q ss_pred             HHHcCCHHHHHHHHHhC----CCC-------------Cc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 048142          151 LGRAGRIAKAEELIKNM----PMA-------------LD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLP  204 (352)
Q Consensus       151 ~~~~g~~~~A~~~~~~m----~~~-------------p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  204 (352)
                      |.+.|++++|...|++.    +..             ++ ..++..+..++...|++++|.+.++...+..|
T Consensus        80 ~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          80 YYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            88999999998888775    111             11 24455666677778888888887777666544

>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=98.33  E-value=1.3e-05  Score=60.31  Aligned_cols=89  Identities=7%  Similarity=-0.083  Sum_probs=47.7

Q ss_pred             HHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHH
Q 048142           34 LACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLV  113 (352)
Q Consensus        34 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  113 (352)
                      +.+.+.|++++|...|.+..+...          .+...|..+..+|...|++++|+..|++..+.. +-+..+|..+..
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~p----------~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~   86 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELNP----------SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAA   86 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHhhhccccch----------hhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHH
Confidence            344555555555555555555432          344455555555555555555555555555431 113345555555


Q ss_pred             HHhccCCHHHHHHHHHHhhH
Q 048142          114 ACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus       114 ~~~~~g~~~~a~~~~~~m~~  133 (352)
                      ++...|++++|...+++..+
T Consensus        87 ~~~~~g~~~eA~~~~~~a~~  106 (159)
T d1a17a_          87 SNMALGKFRAALRDYETVVK  106 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555554

>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=98.32  E-value=1.8e-06  Score=61.15  Aligned_cols=88  Identities=9%  Similarity=-0.117  Sum_probs=77.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCCh
Q 048142          146 CLVYILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKW  223 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  223 (352)
                      .+...+.+.|++++|...|++. ...| ++..|..+...+...|++++|+..+++..+..|.+...|..+...|...|++
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCH
Confidence            4566788899999999999987 3445 4888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 048142          224 KKVKRIRELM  233 (352)
Q Consensus       224 ~~a~~~~~~m  233 (352)
                      ++|.+.+++.
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998875

>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=98.12  E-value=1.6e-05  Score=56.94  Aligned_cols=99  Identities=10%  Similarity=-0.070  Sum_probs=66.1

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHcCCCCCH-
Q 048142           30 VSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQ---GNKALEYFYEMQIRGVKPDA-  105 (352)
Q Consensus        30 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~~-  105 (352)
                      ..+++.+...+++++|++.|+...+.+.          .+..++..+..++.+.++   +++|+++|++.......|+. 
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p----------~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~   72 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGS----------VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQR   72 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSC----------CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCC----------CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHH
Confidence            3566777777788888888887777654          455677777777766444   34577777777664333332 


Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCCh
Q 048142          106 ITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSI  141 (352)
Q Consensus       106 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~  141 (352)
                      .++..+..+|.+.|++++|...|++..+.   .|+-
T Consensus        73 ~~~~~Lg~~y~~~g~~~~A~~~~~~aL~~---~P~~  105 (122)
T d1nzna_          73 DYVFYLAVGNYRLKEYEKALKYVRGLLQT---EPQN  105 (122)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTC
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHh---CcCC
Confidence            35666777777788888888888777753   5643

>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=98.12  E-value=4.5e-05  Score=57.98  Aligned_cols=133  Identities=14%  Similarity=0.043  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      ...+......+.+.|++++|+..|++....  -|....            ..+.-......+        -..+|+.+..
T Consensus        13 a~~l~~~G~~~~~~~~~~~Ai~~y~~al~~--~~~~~~------------~~~~~~~~~~~~--------~~~~~~nla~   70 (170)
T d1p5qa1          13 STIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESS------------FSNEEAQKAQAL--------RLASHLNLAM   70 (170)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCC------------CCSHHHHHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhccc------------cchHHHhhhchh--------HHHHHHHHHH
Confidence            344556667888899999999999887763  111000            000000111111        1235677888


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChH
Q 048142          150 ILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWK  224 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  224 (352)
                      +|.+.|++++|+..++.. ...| ++..|..+..++...|++++|...|++..+..|.+......+-....+.+...
T Consensus        71 ~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~  147 (170)
T d1p5qa1          71 CHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQL  147 (170)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHH
Confidence            899999999999999886 4445 58888888899999999999999999999999988887777766655544443

>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=98.02  E-value=2.8e-05  Score=59.71  Aligned_cols=71  Identities=13%  Similarity=-0.016  Sum_probs=64.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHH-----hcCCCCCCc
Q 048142          173 HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMA-----ERNIKKPPG  243 (352)
Q Consensus       173 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~~  243 (352)
                      ...+..+...+...|++++|+..++.+.+..|.+...|..++.+|.+.|+.++|.+.|+++.     +.|+.|.+.
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            45678889999999999999999999999999999999999999999999999999999974     469988754

>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=98.02  E-value=3.8e-05  Score=53.94  Aligned_cols=84  Identities=10%  Similarity=0.045  Sum_probs=38.0

Q ss_pred             HhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHH
Q 048142           36 CTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVAC  115 (352)
Q Consensus        36 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~  115 (352)
                      +.+.|++++|...|++.++...          .+...|..+..++.+.|++++|+..|++..+. .+-+..++..+...|
T Consensus        26 ~~~~g~~~~A~~~~~~al~~~p----------~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~-~p~~~~a~~~la~~y   94 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQKEP----------EREEAWRSLGLTQAENEKDGLAIIALNHARML-DPKDIAVHAALAVSH   94 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST----------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHhhhccccc----------ccchhhhhhhhhhhhhhhHHHhhccccccccc-ccccccchHHHHHHH
Confidence            3444555555555555444332          23344444444455555555555555444442 111234444444444


Q ss_pred             hccCCHHHHHHHHHH
Q 048142          116 SHAGLVDERISHFNL  130 (352)
Q Consensus       116 ~~~g~~~~a~~~~~~  130 (352)
                      ...|+.++|.+.+++
T Consensus        95 ~~~g~~~~A~~~l~~  109 (112)
T d1hxia_          95 TNEHNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHH
Confidence            444455544444443

>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=98.00  E-value=7.8e-05  Score=56.47  Aligned_cols=126  Identities=8%  Similarity=-0.040  Sum_probs=88.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHH
Q 048142           73 LTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYIL  151 (352)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~  151 (352)
                      +......+.+.|++++|++.|.+..+.            ...........+.      .    .+.| ....|..+..+|
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~------~----~~~~~~~~~~~nla~~~   87 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADG------A----KLQPVALSCVLNIGACK   87 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHH------G----GGHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHH------H----HhChhhHHHHHHHHHHH
Confidence            344556677889999999888876541            0000000000000      0    1122 455677788889


Q ss_pred             HHcCCHHHHHHHHHhC-CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhc
Q 048142          152 GRAGRIAKAEELIKNM-PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSS  220 (352)
Q Consensus       152 ~~~g~~~~A~~~~~~m-~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~  220 (352)
                      .+.|++++|+..+++. ...|+ +..|..+..++...|++++|...|++..+..|.+...+..+..+..+.
T Consensus        88 ~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l  158 (169)
T d1ihga1          88 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKI  158 (169)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            9999999999999887 55554 788999999999999999999999999999999887777766655433

>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=98.00  E-value=2.4e-05  Score=55.92  Aligned_cols=99  Identities=16%  Similarity=-0.001  Sum_probs=59.5

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCH---HHHHHHHHhC-CCCCcH---HHHHHHHHH
Q 048142          110 GVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRI---AKAEELIKNM-PMALDH---FVLGGLLGA  182 (352)
Q Consensus       110 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m-~~~p~~---~~~~~li~~  182 (352)
                      .+++.+...+++++|.+.|+.....  -+.++.++..+..++.+.++.   ++|..+|+++ ...|+.   .+|..+..+
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            4556666666777777777666653  122556666666666654433   3467777665 223322   255566667


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCcchH
Q 048142          183 CRIHDNLEAAERAAQQLLELLPDNGGSY  210 (352)
Q Consensus       183 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~  210 (352)
                      |...|++++|.+.|++.++..|.+....
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P~~~~A~  109 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEPQNNQAK  109 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHhCcCCHHHH
Confidence            7777777777777777777766665433

>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=97.95  E-value=0.00014  Score=54.96  Aligned_cols=143  Identities=13%  Similarity=0.001  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      ...+.-....+.+.|++++|+..|.+....  .|.          . .....+. ......+        ....|+.+..
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~--~~~----------~-~~~~~~~-~~~~~~~--------~~~~~~Nla~   72 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSW--LEM----------E-YGLSEKE-SKASESF--------LLAAFLNLAM   72 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTT----------C-CSCCHHH-HHHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--HHH----------h-hccchhh-hhhcchh--------HHHHHHhHHH
Confidence            345566677788888888888888765431  000          0 0000000 0011111        1335667788


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChH-HH
Q 048142          150 ILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWK-KV  226 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~a  226 (352)
                      +|.+.|++++|+..++.. ...| +..+|..+..++...|++++|...|++..+..|.+......+-......+... ..
T Consensus        73 ~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~e~~  152 (168)
T d1kt1a1          73 CYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKAKEHNERD  152 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhHHHHH
Confidence            889999999999999887 3333 58888888999999999999999999999999988887777766655555443 34


Q ss_pred             HHHHHHHH
Q 048142          227 KRIRELMA  234 (352)
Q Consensus       227 ~~~~~~m~  234 (352)
                      .+++..|-
T Consensus       153 kk~~~~~f  160 (168)
T d1kt1a1         153 RRTYANMF  160 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            45555553

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.94  E-value=0.0029  Score=50.94  Aligned_cols=215  Identities=13%  Similarity=-0.002  Sum_probs=144.9

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTH----LGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIV   78 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~   78 (352)
                      +.|++++|++.|++..+.|   |...+..|-..|..    ..+...|...+....+.+..            ..+..|..
T Consensus        14 ~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~------------~a~~~l~~   78 (265)
T d1ouva_          14 KEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYS------------NGCHLLGN   78 (265)
T ss_dssp             HTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH------------HHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccccc------------chhhcccc
Confidence            5689999999999998876   55666666666654    56889999999988877642            33444544


Q ss_pred             HHHh----cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHH--hccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHH
Q 048142           79 VLAM----CGQGNKALEYFYEMQIRGVKPDAITFVGVLVAC--SHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILG  152 (352)
Q Consensus        79 ~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~--~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~  152 (352)
                      .+..    ..+.+.|...++.....|..+..... ......  ........+...+.....    ..+...+..|...|.
T Consensus        79 ~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l-~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~  153 (265)
T d1ouva_          79 LYYSGQGVSQNTNKALQYYSKACDLKYAEGCASL-GGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYD  153 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHH-HHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHHHHHhhhhhhhhhhHHHhh-cccccCCCcccchhHHHHHHhhhhhc----ccccchhhhhhhhhc
Confidence            4443    56788999999988877643222111 112221  234566777777766554    235667777888887


Q ss_pred             H----cCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh----c
Q 048142          153 R----AGRIAKAEELIKNMPMALDHFVLGGLLGACRI----HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS----S  220 (352)
Q Consensus       153 ~----~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~----~  220 (352)
                      .    ..+...+...++......+......+-..+..    ..+.+.|...|++..+..  ++..+..|..+|..    .
T Consensus       154 ~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~  231 (265)
T d1ouva_         154 AGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVT  231 (265)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSS
T ss_pred             cCCCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCc
Confidence            6    45566777777766223355555555555544    568999999999987753  44566777777765    3


Q ss_pred             CChHHHHHHHHHHHhcCCC
Q 048142          221 RKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       221 g~~~~a~~~~~~m~~~g~~  239 (352)
                      .+.++|.+.|++..+.|..
T Consensus       232 ~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         232 RNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             CCSTTHHHHHHHHHHHTCH
T ss_pred             cCHHHHHHHHHHHHHCcCH
Confidence            4889999999999888864

>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=97.94  E-value=8e-05  Score=56.52  Aligned_cols=64  Identities=11%  Similarity=-0.043  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          174 FVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       174 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      .+|+.+..+|.+.|++++|+..++..++..|.++.+|..+..+|...|++++|...|++..+..
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            4677788899999999999999999999999999999999999999999999999999987743

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.84  E-value=0.00011  Score=54.59  Aligned_cols=125  Identities=13%  Similarity=-0.092  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHH
Q 048142           70 VMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVY  149 (352)
Q Consensus        70 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  149 (352)
                      ...+......+.+.|++++|+..|.+..+.  -|...           ...-....   .....     ....+|+.+..
T Consensus        17 a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~~-----------~~~~~~~~---~~~~~-----~~~~~~~Nla~   75 (153)
T d2fbna1          17 AFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTE-----------EWDDQILL---DKKKN-----IEISCNLNLAT   75 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCT-----------TCCCHHHH---HHHHH-----HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccchh-----------hhhhHHHH---Hhhhh-----HHHHHHhhHHH
Confidence            345666777888888999998888887753  11100           00000000   00100     12346777888


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHH
Q 048142          150 ILGRAGRIAKAEELIKNM-PMAL-DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSN  215 (352)
Q Consensus       150 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~  215 (352)
                      +|.+.|++++|++.+++. ...| ++.+|..+..++...|++++|...|+...+..|.|..+...+-.
T Consensus        76 ~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~  143 (153)
T d2fbna1          76 CYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYEL  143 (153)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            888899999999888886 3344 57888888889999999999999999988888888766655433

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.81  E-value=0.0002  Score=53.19  Aligned_cols=64  Identities=14%  Similarity=-0.052  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcC
Q 048142          174 FVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERN  237 (352)
Q Consensus       174 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  237 (352)
                      .+|+.+..+|.+.|++++|++.++..++..|.+..+|..+..+|...|++++|...|++..+..
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            5778888999999999999999999999999999999999999999999999999999987654

>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=97.80  E-value=0.00044  Score=52.71  Aligned_cols=111  Identities=11%  Similarity=0.102  Sum_probs=70.1

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHc--CCC-CCccccccC---------CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048142           32 LLLACTHLGALEVGMWLHPYIMKK--NIE-VDVGLGMAL---------KDVMTLTALIVVLAMCGQGNKALEYFYEMQIR   99 (352)
Q Consensus        32 li~~~~~~g~~~~a~~~~~~m~~~--g~~-~~~~~~~~l---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~   99 (352)
                      ........|++++|.+.|.+....  |.. ++......+         .....+..+...+.+.|++++|+..++++...
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~   96 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFE   96 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHh
Confidence            334567788888888888888764  211 000000000         12245667777777778888888887777764


Q ss_pred             CCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhH----hcCCCCChhH
Q 048142          100 GVKPDAITFVGVLVACSHAGLVDERISHFNLMSE----KYGIRPSIEH  143 (352)
Q Consensus       100 g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~----~~g~~p~~~~  143 (352)
                       -+-+...|..++.++...|+.++|.+.|++..+    ..|+.|+..+
T Consensus        97 -~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          97 -HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             -STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             -CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence             233566777777888888888888777777643    2477777654

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.80  E-value=0.00023  Score=50.98  Aligned_cols=92  Identities=13%  Similarity=0.026  Sum_probs=48.3

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCCC----
Q 048142           31 SLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRG--VKPD----  104 (352)
Q Consensus        31 ~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~----  104 (352)
                      .+-+.+.+.|++++|...|.+.++.+.          .+...|..+..+|.+.|++++|+..++++.+..  ....    
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p----------~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~   78 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDP----------TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQI   78 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT----------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCc----------ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHH
Confidence            444555566666666666666665432          344556666666666666666666666654421  0000    


Q ss_pred             HhHHHHHHHHHhccCCHHHHHHHHHHhh
Q 048142          105 AITFVGVLVACSHAGLVDERISHFNLMS  132 (352)
Q Consensus       105 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~  132 (352)
                      ..+|..+-..+...+++++|...|....
T Consensus        79 a~~~~~lg~~~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          79 AKAYARIGNSYFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            1234444445555555555555555544

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.77  E-value=0.00024  Score=50.97  Aligned_cols=96  Identities=7%  Similarity=-0.090  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-----hhHHH
Q 048142           71 MTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-----IEHYG  145 (352)
Q Consensus        71 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-----~~~~~  145 (352)
                      ..+-.+...|.+.|++++|++.|.+..+.+ +.+...+..+..+|.+.|++++|...++++.+...-.+.     ..+|.
T Consensus         5 ~~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~   83 (128)
T d1elra_           5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            345667788889999999999999988852 335778888899999999999999998887753000111     23566


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC
Q 048142          146 CLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       146 ~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      .+...+...+++++|...|++.
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~ka  105 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKS  105 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHH
Confidence            6677777788888888888764

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.73  E-value=5e-06  Score=75.07  Aligned_cols=206  Identities=12%  Similarity=0.038  Sum_probs=88.5

Q ss_pred             HHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChH
Q 048142            9 EALLLFREVQHKGLTGD-KVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGN   87 (352)
Q Consensus         9 ~A~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~   87 (352)
                      +|.+.|++...  ++|| ...+..+-.++...|++++|   +++++.....          ....++.  ....-...+.
T Consensus         4 eA~q~~~qA~~--l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~----------~a~~~~~--e~~Lw~~~y~   66 (497)
T d1ya0a1           4 QSAQYLRQAEV--LKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDLE----------YALDKKV--EQDLWNHAFK   66 (497)
T ss_dssp             HHHHHHHHHHH--HHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCHH----------HHHHHTH--HHHHHHHHTH
T ss_pred             HHHHHHHHHHH--cCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcChh----------hHHHHhH--HHHHHHHHHH
Confidence            67777877765  3444 33444555555566666554   5555543211          0011111  1111111234


Q ss_pred             HHHHHHHHHHHcCCCCCHhHHHHHHHHHh--ccCCHHHHHHHHHHhhHhcCCCC-ChhHHHHHHHHHHHcCCHHHHHHHH
Q 048142           88 KALEYFYEMQIRGVKPDAITFVGVLVACS--HAGLVDERISHFNLMSEKYGIRP-SIEHYGCLVYILGRAGRIAKAEELI  164 (352)
Q Consensus        88 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~--~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~  164 (352)
                      .+++.+++..+....|+..-....+..+.  ..+.++.++..+...   +++.| +...+..+...+.+.|+.++|...+
T Consensus        67 ~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~---~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~  143 (497)
T d1ya0a1          67 NQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTV---FNVDLPCRVKSSQLGIISNKQTHTSAIVKPQ  143 (497)
T ss_dssp             HHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC----------------------------------C
T ss_pred             HHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HCCChhhHHHHHHhHHHHHhCCCHHHHHHHH
Confidence            55666666554433333332222221211  122233333222221   23443 3445556666666667776666655


Q ss_pred             HhCCCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          165 KNMPMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       165 ~~m~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                      +..- .++ ..++..+...+...|++++|...|++..+..|.+...|+.|...|...|+..+|...|.+-..
T Consensus       144 ~~al-~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         144 SSSC-SYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             CHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHh-CCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4431 112 234555566667777777777777777777777777777777777777777777766665543

>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=97.65  E-value=0.00019  Score=54.23  Aligned_cols=65  Identities=9%  Similarity=0.025  Sum_probs=60.3

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          172 DHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       172 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      ....|..+..++.+.|++++|+..+++.++..|.++..|..+..+|...|++++|.+.|++..+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            35677888889999999999999999999999999999999999999999999999999998874

>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=97.56  E-value=0.00079  Score=50.60  Aligned_cols=63  Identities=13%  Similarity=-0.047  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhc
Q 048142          174 FVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAER  236 (352)
Q Consensus       174 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  236 (352)
                      .+|+.+..+|...|++++|+..++...+..|.+..+|..+..+|...|++++|.+.|++....
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456777788999999999999999999999999999999999999999999999999998764

>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=97.52  E-value=0.00017  Score=58.80  Aligned_cols=126  Identities=14%  Similarity=-0.019  Sum_probs=77.3

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCC-hhHHHHHHHHHHHcCCHHH
Q 048142           81 AMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPS-IEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        81 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~  159 (352)
                      .+.|++++|++.+++..+. -+-|...+..+...++..|++++|...++...+.   .|+ ...+..+...+...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~-~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKA-SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccHH
Confidence            3568888888888888775 2335677888888888888888888888887753   453 4444444444444444444


Q ss_pred             HHHHHHhC--CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchH
Q 048142          160 AEELIKNM--PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSY  210 (352)
Q Consensus       160 A~~~~~~m--~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  210 (352)
                      +..-....  ...|+ ...+......+...|+.++|..+++++.+..|.....+
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccc
Confidence            33322221  11232 33333444556677888888888888777666555443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.48  E-value=0.021  Score=47.63  Aligned_cols=234  Identities=13%  Similarity=0.029  Sum_probs=136.8

Q ss_pred             ccCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHH
Q 048142            2 VEDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLA   81 (352)
Q Consensus         2 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~   81 (352)
                      .+.|.++.|..+|..+..         |..++..+.+.++++.|.++....               .+..+|..+...+.
T Consensus        25 ~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~---------------~~~~~~k~~~~~l~   80 (336)
T d1b89a_          25 YDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA---------------NSTRTWKEVCFACV   80 (336)
T ss_dssp             ----CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH---------------TCHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc---------------CCHHHHHHHHHHHH
Confidence            356777777777765432         566777778888888887766543               23357888888887


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHH
Q 048142           82 MCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAE  161 (352)
Q Consensus        82 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  161 (352)
                      +.....-|     ++...+...+......++..|-..|.+++...+++....  .-.++...++-++..|++.+ .++-+
T Consensus        81 ~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~--~~~~~~~~~~~L~~lyak~~-~~kl~  152 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALG--LERAHMGMFTELAILYSKFK-PQKMR  152 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--STTCCHHHHHHHHHHHHTTC-HHHHH
T ss_pred             hCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHc--CCccchHHHHHHHHHHHHhC-hHHHH
Confidence            77655443     222333444555667788888889999998888887652  12446777888888888875 45555


Q ss_pred             HHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---------hCCCCcchHHHHHHHHhhcCChHHHHHHHHH
Q 048142          162 ELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLE---------LLPDNGGSYVILSNRYSSSRKWKKVKRIREL  232 (352)
Q Consensus       162 ~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  232 (352)
                      +.++......|..   -++..|-..+-++++.-++..+..         ..+++..-....+..+.+..+.+...++...
T Consensus       153 e~l~~~s~~y~~~---k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~  229 (336)
T d1b89a_         153 EHLELFWSRVNIP---KVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQF  229 (336)
T ss_dssp             HHHHHHSTTSCHH---HHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHH
T ss_pred             HHHHhccccCCHH---HHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHHcchhhhhHHHHHHHHHccCChHHHHHHHHH
Confidence            5555542222222   234444555555555544444311         1455555566666667777777666666555


Q ss_pred             HHhcCCCCCCce-------eEEEEcceeehhhhcCcccCchhhhhcC
Q 048142          233 MAERNIKKPPGC-------ILIEVDGVVHEFVKAGFVPNKSEVLFDM  272 (352)
Q Consensus       233 m~~~g~~p~~~~-------~~~~~~~~~~~~~~~G~~~~~~~~~~~~  272 (352)
                      ..+.  .|+.-.       ..+....++..+.+.+..+-...++...
T Consensus       230 yL~~--~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v  274 (336)
T d1b89a_         230 YLEF--KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSV  274 (336)
T ss_dssp             HHHH--CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHH
T ss_pred             HHHc--CHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            4442  232100       0111123555566777777777776554

>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=0.00051  Score=50.99  Aligned_cols=87  Identities=13%  Similarity=-0.036  Sum_probs=61.2

Q ss_pred             HHHHHcCCHHHHHHHHHhC----CCCCc----------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC----C-----
Q 048142          149 YILGRAGRIAKAEELIKNM----PMALD----------HFVLGGLLGACRIHDNLEAAERAAQQLLELLP----D-----  205 (352)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~m----~~~p~----------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~----~-----  205 (352)
                      ..+.+.|++++|+..|++.    +..|+          ...|+.+..+|...|++++|...+++.++..+    .     
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            3445567777777776664    21121          45778888888899999999888888765311    1     


Q ss_pred             --CcchHHHHHHHHhhcCChHHHHHHHHHHHh
Q 048142          206 --NGGSYVILSNRYSSSRKWKKVKRIRELMAE  235 (352)
Q Consensus       206 --~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  235 (352)
                        ....|+.+..+|...|++++|.+.|++..+
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              123567788899999999999999998764

>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=97.39  E-value=0.00017  Score=58.86  Aligned_cols=118  Identities=14%  Similarity=0.017  Sum_probs=67.3

Q ss_pred             hccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HhHHHHHHHHH
Q 048142           37 THLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPD-AITFVGVLVAC  115 (352)
Q Consensus        37 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~  115 (352)
                      .+.|++++|...+++.++...          .|...+..+...|+..|++++|...|+...+.  .|+ ...+..+...+
T Consensus         7 L~~G~l~eAl~~l~~al~~~P----------~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll   74 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASP----------KDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLV   74 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCT----------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCC----------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHH
Confidence            356777777777777776554          45667777777777777777777777777663  444 33343444444


Q ss_pred             hccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC
Q 048142          116 SHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM  167 (352)
Q Consensus       116 ~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  167 (352)
                      ...+..+++..-...-... +-.++...+......+.+.|+.++|.+.++++
T Consensus        75 ~a~~~~~~a~~~~~~~~~~-~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a  125 (264)
T d1zbpa1          75 KAAQARKDFAQGAATAKVL-GENEELTKSLVSFNLSMVSQDYEQVSELALQI  125 (264)
T ss_dssp             HHHHHHHHHTTSCCCEECC-CSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HhccccHHHHHHhhhhhcc-cCchHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            3344444433322111110 11223333444455667778888888887765

>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=97.31  E-value=0.00047  Score=50.54  Aligned_cols=127  Identities=14%  Similarity=0.032  Sum_probs=67.5

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhcc----------CCHHHHHHHHHHhhHhcCCCC-ChhHHHHHH
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHA----------GLVDERISHFNLMSEKYGIRP-SIEHYGCLV  148 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~----------g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li  148 (352)
                      |-+.+.+++|+..|+...+.. +.+..++..+-.++...          +.+++|+..|++..+.   .| +..+|..+.
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l---~P~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI---DPKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh---cchhhHHHhhHH
Confidence            344556677777777766642 22344555555555432          2334555555555432   33 344454444


Q ss_pred             HHHHHcCCHHHHHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHH
Q 048142          149 YILGRAGRIAKAEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKR  228 (352)
Q Consensus       149 ~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  228 (352)
                      .+|...|++.            ++....         .+.+++|.+.|++..+..|.+...+..|-..       ..|.+
T Consensus        83 ~~y~~~g~~~------------~~~~~~---------~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~~  134 (145)
T d1zu2a1          83 NAYTSFAFLT------------PDETEA---------KHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQ  134 (145)
T ss_dssp             HHHHHHHHHC------------CCHHHH---------HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHH
T ss_pred             HHHHHcccch------------hhHHHH---------HHhHHHhhhhhhcccccCCCHHHHHHHHHHH-------HHHHH
Confidence            4444333211            111100         1235788889999888888776555444332       46667


Q ss_pred             HHHHHHhcCC
Q 048142          229 IRELMAERNI  238 (352)
Q Consensus       229 ~~~~m~~~g~  238 (352)
                      ++.+..+.|+
T Consensus       135 ~~~e~~k~~~  144 (145)
T d1zu2a1         135 LHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHSSS
T ss_pred             HHHHHHHHhc
Confidence            7777766654

>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=97.28  E-value=0.00049  Score=50.44  Aligned_cols=112  Identities=8%  Similarity=-0.072  Sum_probs=79.1

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc----------CChHHHHHHHHHHHHcCCCCCccccccCCcHHH
Q 048142            3 EDSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHL----------GALEVGMWLHPYIMKKNIEVDVGLGMALKDVMT   72 (352)
Q Consensus         3 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~----------g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~   72 (352)
                      +.+.+++|+..|+...... +-+..++..+-.++...          +.+++|...|++.++...          .+..+
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P----------~~~~a   77 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP----------KKDEA   77 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT----------TCHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcc----------hhhHH
Confidence            3467899999999998853 33677777777777643          455789999999988654          56678


Q ss_pred             HHHHHHHHHhcCC-----------hHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142           73 LTALIVVLAMCGQ-----------GNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus        73 ~~~li~~~~~~g~-----------~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      |+.+..+|...|+           +++|.+.|++..+  +.|+...|..-+..+      .+|.+++.+..+
T Consensus        78 ~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k  141 (145)
T d1zu2a1          78 VWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYK  141 (145)
T ss_dssp             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHH
T ss_pred             HhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHH
Confidence            9989888876543           5778888887776  567766665554443      345566665554

>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=97.12  E-value=0.0021  Score=43.07  Aligned_cols=71  Identities=21%  Similarity=0.080  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHH
Q 048142          143 HYGCLVYILGRAGRIAKAEELIKNM--------PMALD-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVIL  213 (352)
Q Consensus       143 ~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  213 (352)
                      .+-.+...+.+.|++++|...|++.        ...++ ..+++.|..++.+.|++++|...+++.++..|.++.+++.+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            3445667777788888887777765        11223 56788888888889999999999999888888887777665

>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=97.09  E-value=0.0062  Score=44.73  Aligned_cols=60  Identities=12%  Similarity=-0.068  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCc-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 048142          143 HYGCLVYILGRAGRIAKAEELIKNM--------PMALD-----HFVLGGLLGACRIHDNLEAAERAAQQLLEL  202 (352)
Q Consensus       143 ~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  202 (352)
                      .|+.+..+|.+.|++++|...+++.        ...++     ...|+.+..+|...|++++|...|++..+.
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4555555566666666655555443        11111     234666778888889999999888887664

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.94  E-value=0.048  Score=45.30  Aligned_cols=136  Identities=11%  Similarity=0.037  Sum_probs=91.8

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048142           23 TGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVK  102 (352)
Q Consensus        23 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  102 (352)
                      .||..--..+.+-|.+.|.++.|..+|..+.                  -|.-++..|.+.++++.|.+++.+..     
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~------------------d~~rl~~~~v~l~~~~~avd~~~k~~-----   67 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS------------------NFGRLASTLVHLGEYQAAVDGARKAN-----   67 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTT------------------CHHHHHHHHHTTTCHHHHHHHHHHHT-----
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCC------------------CHHHHHHHHHhhccHHHHHHHHHHcC-----
Confidence            4565555677888889999999999997652                  37788899999999999999887542     


Q ss_pred             CCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCcHHHHHHHH
Q 048142          103 PDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAKAEELIKNM-P-MALDHFVLGGLL  180 (352)
Q Consensus       103 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-~~p~~~~~~~li  180 (352)
                       +..+|..+..+|.+......+.     +... ....++.....++..|-..|.+++...+++.. + ..++...++-++
T Consensus        68 -~~~~~k~~~~~l~~~~e~~la~-----i~~~-~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~  140 (336)
T d1b89a_          68 -STRTWKEVCFACVDGKEFRLAQ-----MCGL-HIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELA  140 (336)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHH-----HTTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHH
T ss_pred             -CHHHHHHHHHHHHhCcHHHHHH-----HHHH-HhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHH
Confidence             5678888888988877665542     2221 34456666678999999999999999999964 3 345677888899


Q ss_pred             HHHHhcCC
Q 048142          181 GACRIHDN  188 (352)
Q Consensus       181 ~~~~~~g~  188 (352)
                      ..|++.+.
T Consensus       141 ~lyak~~~  148 (336)
T d1b89a_         141 ILYSKFKP  148 (336)
T ss_dssp             HHHHTTCH
T ss_pred             HHHHHhCh
Confidence            99988753

>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=96.79  E-value=0.0035  Score=55.80  Aligned_cols=110  Identities=8%  Similarity=-0.114  Sum_probs=48.8

Q ss_pred             CcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCC-ChhHHHH
Q 048142           68 KDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRP-SIEHYGC  146 (352)
Q Consensus        68 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~  146 (352)
                      ++...|..+...+.+.|+.++|...+.+....  .| ..++..+...+...|++++|...|.+..+.   .| +...|+.
T Consensus       118 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l---~P~~~~~~~~  191 (497)
T d1ya0a1         118 PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQL---VPSNGQPYNQ  191 (497)
T ss_dssp             -------------------------CCHHHHH--HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTBSHHHHH
T ss_pred             hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHH---CCCchHHHHH
Confidence            34445666666666666666666665554331  11 234555666666677777777777766643   44 4466777


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-C-CCCcHHHHHHHHHHH
Q 048142          147 LVYILGRAGRIAKAEELIKNM-P-MALDHFVLGGLLGAC  183 (352)
Q Consensus       147 li~~~~~~g~~~~A~~~~~~m-~-~~p~~~~~~~li~~~  183 (352)
                      |...|...|+..+|...|.+. . ..|-..++.+|...+
T Consensus       192 Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         192 LAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            777777777777777666654 1 123455555555444

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.32  E-value=0.021  Score=37.80  Aligned_cols=79  Identities=11%  Similarity=-0.047  Sum_probs=58.5

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC---CCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNI---EVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRGV  101 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~---~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  101 (352)
                      +...+-.+-..+.+.|+++.|...|++..+...   .+..      ....+++.|..+|.+.|++++|++.+++..+.  
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~------~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l--   75 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTI------DKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--   75 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSS------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCc------cHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh--
Confidence            344455677888999999999999999876421   1111      23567899999999999999999999999884  


Q ss_pred             CCC-HhHHHHH
Q 048142          102 KPD-AITFVGV  111 (352)
Q Consensus       102 ~p~-~~t~~~l  111 (352)
                      .|+ ..+++.+
T Consensus        76 ~P~~~~a~~Nl   86 (95)
T d1tjca_          76 DPEHQRANGNL   86 (95)
T ss_dssp             CTTCHHHHHHH
T ss_pred             CcCCHHHHHHH
Confidence            565 4444443

>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=96.25  E-value=0.19  Score=39.62  Aligned_cols=193  Identities=11%  Similarity=-0.052  Sum_probs=130.3

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcC
Q 048142           25 DKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM----CGQGNKALEYFYEMQIRG  100 (352)
Q Consensus        25 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g  100 (352)
                      |+..+..|-..+-+.+++++|.+.|++..+.|.            ...+-.|...|..    ..+...|...+......+
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~------------~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~   68 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKE------------NSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN   68 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC------------HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCC------------HHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc
Confidence            455677777777889999999999999988763            2345556666765    678999999999988775


Q ss_pred             CCCCHhHHHHHHHHH----hccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHH----cCCHHHHHHHHHhCCCCCc
Q 048142          101 VKPDAITFVGVLVAC----SHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGR----AGRIAKAEELIKNMPMALD  172 (352)
Q Consensus       101 ~~p~~~t~~~ll~~~----~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~  172 (352)
                         +......+...+    ....+.+.|...++...+. |..   .....+...+..    ......|...+.......+
T Consensus        69 ---~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~-g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  141 (265)
T d1ouva_          69 ---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDL-KYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLND  141 (265)
T ss_dssp             ---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             ---ccchhhccccccccccccchhhHHHHHHHhhhhhh-hhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcccc
Confidence               223333333333    2356888999999887764 432   222233333332    3456677777766533456


Q ss_pred             HHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhh----cCChHHHHHHHHHHHhcCC
Q 048142          173 HFVLGGLLGACRI----HDNLEAAERAAQQLLELLPDNGGSYVILSNRYSS----SRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       173 ~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~  238 (352)
                      ...+..|...+..    ..+...+...++...+.  .++.....|...|..    ..+.++|.+.|++..+.|.
T Consensus       142 ~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~--g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~  213 (265)
T d1ouva_         142 GDGCTILGSLYDAGRGTPKDLKKALASYDKACDL--KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN  213 (265)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC
T ss_pred             cchhhhhhhhhccCCCcccccccchhhhhccccc--cccccccchhhhcccCcccccchhhhhhhHhhhhcccC
Confidence            7777777777764    45667777777776553  355566666666655    5689999999999988875

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.59  E-value=0.2  Score=34.56  Aligned_cols=141  Identities=7%  Similarity=0.007  Sum_probs=98.9

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHHHHHcCCHHH
Q 048142           80 LAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYILGRAGRIAK  159 (352)
Q Consensus        80 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~  159 (352)
                      +...|..++..++..+...+.   +..-||-+|--....-+-+....+++.+-+.+.+.|              ++++..
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~--------------C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDK--------------CQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGG--------------CSCTHH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhhcCchh--------------hhcHHH
Confidence            345677888888888776642   455566666666666677777777777765433332              344444


Q ss_pred             HHHHHHhCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCCC
Q 048142          160 AEELIKNMPMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNIK  239 (352)
Q Consensus       160 A~~~~~~m~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  239 (352)
                      ....+-.++  .+..-++.-+..+...|.-|.-.++++.+.+...+++.....+.++|-+.|...++-+++.+.-++|++
T Consensus        75 vv~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          75 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            444443342  233444556777888899999999999987777888888899999999999999999999999988875

>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=95.44  E-value=0.24  Score=34.58  Aligned_cols=109  Identities=9%  Similarity=-0.102  Sum_probs=63.8

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHh---
Q 048142            6 ACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAM---   82 (352)
Q Consensus         6 ~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~---   82 (352)
                      ++++|++.|++....|.   ...+..|..  ....+.++|.+.+.+..+.|..            ..+..|-..|..   
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~~--~~~~~~~~a~~~~~~aa~~g~~------------~a~~~Lg~~y~~g~~   70 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLVS--NSQINKQKLFQYLSKACELNSG------------NGCRFLGDFYENGKY   70 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHHT--CTTSCHHHHHHHHHHHHHTTCH------------HHHHHHHHHHHHCSS
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhcc--ccccCHHHHHHHHhhhhcccch------------hhhhhHHHhhhhccc
Confidence            56788888888777662   223333322  3445677788888777776542            344445444443   


Q ss_pred             -cCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc----cCCHHHHHHHHHHhhHh
Q 048142           83 -CGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSH----AGLVDERISHFNLMSEK  134 (352)
Q Consensus        83 -~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~  134 (352)
                       ..+.++|+++|++..+.|   ++.....|-..|..    ..+.++|..+|+...+.
T Consensus        71 ~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~  124 (133)
T d1klxa_          71 VKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  124 (133)
T ss_dssp             SCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             cchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHC
Confidence             456778888888777765   23333334333332    34667777777666553

>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=92.79  E-value=0.96  Score=31.20  Aligned_cols=18  Identities=11%  Similarity=0.014  Sum_probs=10.0

Q ss_pred             cCChHHHHHHHHHHHHcC
Q 048142           83 CGQGNKALEYFYEMQIRG  100 (352)
Q Consensus        83 ~g~~~~A~~~~~~m~~~g  100 (352)
                      ..+.++|+++|++..+.|
T Consensus        36 ~~~~~~a~~~~~~aa~~g   53 (133)
T d1klxa_          36 QINKQKLFQYLSKACELN   53 (133)
T ss_dssp             TSCHHHHHHHHHHHHHTT
T ss_pred             ccCHHHHHHHHhhhhccc
Confidence            345556666666555544

>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=91.03  E-value=0.89  Score=31.13  Aligned_cols=71  Identities=11%  Similarity=0.012  Sum_probs=39.5

Q ss_pred             CCHHHHHHHHHHHhcc---CChHHHHHHHHHHHHcCCCCCccccccCCcHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048142           24 GDKVTMVSLLLACTHL---GALEVGMWLHPYIMKKNIEVDVGLGMALKDVMTLTALIVVLAMCGQGNKALEYFYEMQIRG  100 (352)
Q Consensus        24 p~~~t~~~li~~~~~~---g~~~~a~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  100 (352)
                      |...|--....++.+.   .++++|..+++++.+.+..         .....+-.|.-+|.+.|++++|.+.++.+.+  
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~---------~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--  101 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAES---------RRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--  101 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGG---------GHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCch---------hHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--
Confidence            3333433344444433   3456677777777664321         1123445566667777777777777777776  


Q ss_pred             CCCCH
Q 048142          101 VKPDA  105 (352)
Q Consensus       101 ~~p~~  105 (352)
                      +.|+.
T Consensus       102 ieP~n  106 (124)
T d2pqrb1         102 HERNN  106 (124)
T ss_dssp             HCTTC
T ss_pred             cCCCc
Confidence            45553

>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=90.61  E-value=1.4  Score=28.58  Aligned_cols=64  Identities=13%  Similarity=0.157  Sum_probs=51.0

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhHhcCCCCChhHHHHHHHH
Q 048142           85 QGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSEKYGIRPSIEHYGCLVYI  150 (352)
Q Consensus        85 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  150 (352)
                      +.-++.+-++.+....+.|++....+.+++|.+.+++..|.++|+..+.+  +.++...|..+++-
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K--~~~~k~~y~yilqe   84 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQE   84 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--hcCcHHHHHHHHHH
Confidence            45567777777777789999999999999999999999999999998865  44445567766543

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.60  E-value=1.5  Score=29.91  Aligned_cols=71  Identities=15%  Similarity=0.064  Sum_probs=43.0

Q ss_pred             CChhHHHHHHHHHHHcCC---HHHHHHHHHhC-CCCC-c-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcch
Q 048142          139 PSIEHYGCLVYILGRAGR---IAKAEELIKNM-PMAL-D-HFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGS  209 (352)
Q Consensus       139 p~~~~~~~li~~~~~~g~---~~~A~~~~~~m-~~~p-~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  209 (352)
                      |+..+--...-++.++.+   ++++..+++++ ...| + ...+-.|.-+|.+.|++++|.+.++.+++..|.+...
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            444454455555665543   45677777766 2223 2 2344455566777888888888888887777776533

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.41  E-value=2.4  Score=27.40  Aligned_cols=48  Identities=15%  Similarity=0.224  Sum_probs=37.2

Q ss_pred             CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcchHHHHHH
Q 048142          168 PMALDHFVLGGLLGACRIHDNLEAAERAAQQLLELLPDNGGSYVILSN  215 (352)
Q Consensus       168 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~li~  215 (352)
                      ...|++.+..+-+.+|.+.+++..|.++++.++....++...|..++.
T Consensus        36 DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yilq   83 (105)
T d1v54e_          36 DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   83 (105)
T ss_dssp             SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            566888888888888888888888888888887765555567765554

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=83.62  E-value=4.9  Score=27.41  Aligned_cols=123  Identities=13%  Similarity=0.030  Sum_probs=52.4

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCccccccC-----------CcHHH
Q 048142            4 DSACEEALLLFREVQHKGLTGDKVTMVSLLLACTHLGALEVGMWLHPYIMKKNIEVDVGLGMAL-----------KDVMT   72 (352)
Q Consensus         4 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l-----------~~~~~   72 (352)
                      .|..++..++..+...+.   +..-||=+|--....-+=+...++++.+-+   .-|..-+.-+           .+...
T Consensus        15 dG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~---~FDls~C~Nlk~vv~C~~~~n~~se~   88 (161)
T d1wy6a1          15 DGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDLDKCQNLKSVVECGVINNTLNEH   88 (161)
T ss_dssp             TTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCGGGCSCTHHHHHHHHHTTCCCHH
T ss_pred             hhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhh---hcCchhhhcHHHHHHHHHHhcchHHH
Confidence            466677777776666532   344444444433444444444444444322   1111111100           12222


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCCHHHHHHHHHHhhH
Q 048142           73 LTALIVVLAMCGQGNKALEYFYEMQIRGVKPDAITFVGVLVACSHAGLVDERISHFNLMSE  133 (352)
Q Consensus        73 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  133 (352)
                      .+.-++.+.++|+-++-.++++.+.+. -+|++.....+..+|.+.|...++..++.+.-+
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe  148 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACK  148 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            333344444444444444444443332 233444444444444444444444444444444

>d1khda1 a.46.2.1 (A:12-80) Anthranilate phosphoribosyltransferase (TrpD) {Pectobacterium carotovorum [TaxId: 554]}

class: All alpha proteins
fold: Methionine synthase domain-like
superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
domain: Anthranilate phosphoribosyltransferase (TrpD)
species: Pectobacterium carotovorum [TaxId: 554]

Probab=81.99  E-value=2.5  Score=25.26  Aligned_cols=63  Identities=5%  Similarity=-0.056  Sum_probs=38.3

Q ss_pred             HHHHHHHHHhcCC--HHHHHHHHHHHHHhCCCCcchHHHHHHHHhhcCChHHHHHHHHHHHhcCC
Q 048142          176 LGGLLGACRIHDN--LEAAERAAQQLLELLPDNGGSYVILSNRYSSSRKWKKVKRIRELMAERNI  238 (352)
Q Consensus       176 ~~~li~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  238 (352)
                      |+.+|......++  .+++..+++.+.++..++...-..|+....+.-..++.....+.|++.+.
T Consensus         2 ~~~il~kl~~g~~Ls~ee~~~~~~~i~~g~~~d~qiaafL~al~~kg~t~dEi~g~~~am~~~~~   66 (69)
T d1khda1           2 HQPILEKLFKSQSMTQEESHQLFAAIVRGELEDSQLAAALISMKMRGERPEEIAGAASALLADAQ   66 (69)
T ss_dssp             CHHHHHHHHTTCCCCHHHHHHHHHHHTTTCSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCC
Confidence            4555655554443  56666777776666666655555555555555566666666777766654