Citrus Sinensis ID: 038429

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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-------26
Protein Sequence
METLSTPVISIPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDLTFE
Secondary Structure (PSIPRED)
ccccccHHHHcccccccccHHHHHHHHHcccccccHHHHHHHHHHHHHHcccccccccccHHccccccccccHHHHHHHHccccccccEEHHHHHHHHHccccccHHHHHHHHHHHccccccccEEHHHHHHHHcccccHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHccccccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHccccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcHHHHHHHHHHHHHHccccccEEEc
Coil and Loop (DISEMBL)
metlstpvisiprhpnpttltvnnghqrhphfltNQKQLKRIHAQMLStdfffdpysasklftpcalstfsSLEYARKMfdqipqpnlytWNTLIRaysssdepIQSFMIFLQLvynspyfpneftlPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMevenvkpdeVTMVVVLSACAKKRDLEFGIWVSSHIekngikmdltfe
Flexible Loop (DISEMBL)
metlstpvisiprhpnpttltvnnghqRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEvenvkpdeVTMVVVLSACAKKRDLEFGIWVsshiekngikmdltfe
Low Complexity Region (SEG)
METLSTPVISIPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDLTFE
Disordered region (IsUnstruct)
******************************HFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGI*******
Disordered Region (DISOPRED)
*ETLS*********PNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDLTFE
Disordered Region (DISEMBL)
METLSTPVISIPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDLTFE
Disordered Region (DISPRO)
METLSTPVISIPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDLTFE
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
METLSTPVISIPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDLTFE
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	258	2.2.26 [Sep-21-2011]
O82380	738	Pentatricopeptide repeat-	yes	no	0.965	0.337	0.523	6e-71
Q9SJG6	559	Pentatricopeptide repeat-	no	no	0.968	0.447	0.326	2e-37
Q9SJZ3	681	Pentatricopeptide repeat-	no	no	0.837	0.317	0.367	2e-36
Q9FJY7	620	Pentatricopeptide repeat-	no	no	0.848	0.353	0.335	2e-35
A8MQA3	595	Pentatricopeptide repeat-	no	no	0.844	0.366	0.367	5e-34
Q9LUJ2	842	Pentatricopeptide repeat-	no	no	0.968	0.296	0.347	7e-34
Q9FI80	646	Pentatricopeptide repeat-	no	no	0.844	0.337	0.301	1e-33
Q9LN01	741	Pentatricopeptide repeat-	no	no	0.883	0.307	0.325	4e-33
Q9MA95	565	Putative pentatricopeptid	no	no	0.813	0.371	0.352	9e-33
Q0WQW5	638	Pentatricopeptide repeat-	no	no	0.883	0.357	0.351	1e-32

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

 Score =  267 bits (682), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 136/260 (52%), Positives = 178/260 (68%), Gaps = 11/260 (4%)

Query: 9   ISIPRHPN---PTTLTVNNGHQRHPHFL---TNQKQLKRIHAQMLSTDFFFDPYSASKLF 62
           +S+PRHPN   P   T NN   RH   +    + +QLK+ H  M+ T  F DPYSASKLF
Sbjct: 10  LSLPRHPNFSNPNQPTTNNERSRHISLIERCVSLRQLKQTHGHMIRTGTFSDPYSASKLF 69

Query: 63  TPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFP 122
              ALS+F+SLEYARK+FD+IP+PN + WNTLIRAY+S  +P+ S   FL +V  S  +P
Sbjct: 70  AMAALSSFASLEYARKVFDEIPKPNSFAWNTLIRAYASGPDPVLSIWAFLDMVSESQCYP 129

Query: 123 NEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVF 177
           N++T PF+IKAAA      +GQ++HGM        D+ ++NSLIH Y  CGDL  A  VF
Sbjct: 130 NKYTFPFLIKAAAEVSSLSLGQSLHGMAVKSAVGSDVFVANSLIHCYFSCGDLDSACKVF 189

Query: 178 VMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLE 237
             I +KDVVSWNSMI+GFV+ G  +KA+EL+++ME E+VK   VTMV VLSACAK R+LE
Sbjct: 190 TTIKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVLSACAKIRNLE 249

Query: 238 FGIWVSSHIEKNGIKMDLTF 257
           FG  V S+IE+N + ++LT 
Sbjct: 250 FGRQVCSYIEENRVNVNLTL 269

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SJG6|PP200_ARATH Pentatricopeptide repeat-containing protein At2g42920, chloroplastic OS=Arabidopsis thaliana GN=PCMP-E75 PE=2 SV=1

 Score =  155 bits (392), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 94/288 (32%), Positives = 147/288 (51%), Gaps = 38/288 (13%)

Query: 4   LSTPVISIPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFT 63
           LS   +++P  P+  +L+ N   +      +  ++LK+IHA ++ T    D  +AS++  
Sbjct: 6   LSFSGVTVPAMPSSGSLSGNTYLRLIDTQCSTMRELKQIHASLIKTGLISDTVTASRVLA 65

Query: 64  PCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYF-P 122
            C  S  S + YA  +F +I   N + WNT+IR +S S  P  +  IF+ ++ +SP   P
Sbjct: 66  FCCASP-SDMNYAYLVFTRINHKNPFVWNTIIRGFSRSSFPEMAISIFIDMLCSSPSVKP 124

Query: 123 NEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVF 177
              T P V KA  R  Q R G+ +HGM      EDD  I N+++H Y  CG L  A+ +F
Sbjct: 125 QRLTYPSVFKAYGRLGQARDGRQLHGMVIKEGLEDDSFIRNTMLHMYVTCGCLIEAWRIF 184

Query: 178 VMIGKKDVVSWN-------------------------------SMISGFVEGGFFEKAIE 206
           + +   DVV+WN                               SMISGFV  G F+ A++
Sbjct: 185 LGMIGFDVVAWNSMIMGFAKCGLIDQAQNLFDEMPQRNGVSWNSMISGFVRNGRFKDALD 244

Query: 207 LYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMD 254
           ++REM+ ++VKPD  TMV +L+ACA     E G W+  +I +N  +++
Sbjct: 245 MFREMQEKDVKPDGFTMVSLLNACAYLGASEQGRWIHEYIVRNRFELN 292

Arabidopsis thaliana (taxid: 3702)

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

 Score =  152 bits (384), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 82/223 (36%), Positives = 131/223 (58%), Gaps = 7/223 (3%)

Query: 38  QLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRA 97
            LK+I AQM+      DP+++S+L   CALS    L+Y+ K+   I  PN+++WN  IR 
Sbjct: 68  HLKQIQAQMIINGLILDPFASSRLIAFCALSESRYLDYSVKILKGIENPNIFSWNVTIRG 127

Query: 98  YSSSDEPIQSFMIFLQLVYNS--PYFPNEFTLPFVIKAAARPVQFRVGQAIHG---MFED 152
           +S S+ P +SF+++ Q++ +      P+ FT P + K  A      +G  I G       
Sbjct: 128 FSESENPKESFLLYKQMLRHGCCESRPDHFTYPVLFKVCADLRLSSLGHMILGHVLKLRL 187

Query: 153 DLV--ISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYRE 210
           +LV  + N+ IH +A CGD+  A  VF     +D+VSWN +I+G+ + G  EKAI +Y+ 
Sbjct: 188 ELVSHVHNASIHMFASCGDMENARKVFDESPVRDLVSWNCLINGYKKIGEAEKAIYVYKL 247

Query: 211 MEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKM 253
           ME E VKPD+VTM+ ++S+C+   DL  G     ++++NG++M
Sbjct: 248 MESEGVKPDDVTMIGLVSSCSMLGDLNRGKEFYEYVKENGLRM 290

Arabidopsis thaliana (taxid: 3702)

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

 Score =  149 bits (375), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 87/259 (33%), Positives = 143/259 (55%), Gaps = 40/259 (15%)

Query: 34  TNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSS-LEYARKMFDQIPQPNLYTWN 92
           + Q++LK+IHA+ML T    D Y+ +K  + C  ST S  L YA+ +FD   +P+ + WN
Sbjct: 25  SKQEELKQIHARMLKTGLMQDSYAITKFLSFCISSTSSDFLPYAQIVFDGFDRPDTFLWN 84

Query: 93  TLIRAYSSSDEPIQSFMIFLQLVYNS-PYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-- 149
            +IR +S SDEP +S +++ +++ +S P+  N +T P ++KA +    F     IH    
Sbjct: 85  LMIRGFSCSDEPERSLLLYQRMLCSSAPH--NAYTFPSLLKACSNLSAFEETTQIHAQIT 142

Query: 150 ---FEDDLVISNSLIHFYAVCGDLAMAYCVF------------------VMIGKKDV--- 185
              +E+D+   NSLI+ YAV G+  +A+ +F                  V  GK D+   
Sbjct: 143 KLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDVSWNSVIKGYVKAGKMDIALT 202

Query: 186 ----------VSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRD 235
                     +SW +MISG+V+    ++A++L+ EM+  +V+PD V++   LSACA+   
Sbjct: 203 LFRKMAEKNAISWTTMISGYVQADMNKEALQLFHEMQNSDVEPDNVSLANALSACAQLGA 262

Query: 236 LEFGIWVSSHIEKNGIKMD 254
           LE G W+ S++ K  I+MD
Sbjct: 263 LEQGKWIHSYLNKTRIRMD 281

Arabidopsis thaliana (taxid: 3702)

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

 Score =  144 bits (364), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 83/226 (36%), Positives = 128/226 (56%), Gaps = 8/226 (3%)

Query: 38  QLKRIHAQMLSTDFFFDPYSASK--LFTPCALSTFSSLEYARKMFDQIPQP-NLYTWNTL 94
           +L++IHA  +            K  +F   +L +   + YA K+F +I +P N++ WNTL
Sbjct: 32  KLRQIHAFSIRHGVSISDAELGKHLIFYLVSLPSPPPMSYAHKVFSKIEKPINVFIWNTL 91

Query: 95  IRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM----- 149
           IR Y+     I +F ++ ++  +    P+  T PF+IKA       R+G+ IH +     
Sbjct: 92  IRGYAEIGNSISAFSLYREMRVSGLVEPDTHTYPFLIKAVTTMADVRLGETIHSVVIRSG 151

Query: 150 FEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYR 209
           F   + + NSL+H YA CGD+A AY VF  + +KD+V+WNS+I+GF E G  E+A+ LY 
Sbjct: 152 FGSLIYVQNSLLHLYANCGDVASAYKVFDKMPEKDLVAWNSVINGFAENGKPEEALALYT 211

Query: 210 EMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDL 255
           EM  + +KPD  T+V +LSACAK   L  G  V  ++ K G+  +L
Sbjct: 212 EMNSKGIKPDGFTIVSLLSACAKIGALTLGKRVHVYMIKVGLTRNL 257

Arabidopsis thaliana (taxid: 3702)

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

 Score =  144 bits (363), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 91/262 (34%), Positives = 143/262 (54%), Gaps = 12/262 (4%)

Query: 4   LSTPVISIPRHPNPTTLTVNNGHQRHPHFLTNQK---QLKRIHAQMLSTDFFFDPYSASK 60
           LS  V++      P+ L  +   +  P  L N K   +LK  H  +       D  + +K
Sbjct: 10  LSPMVLATTTTTKPSLLNQSKCTKATPSSLKNCKTIDELKMFHRSLTKQGLDNDVSTITK 69

Query: 61  LFT-PCALSTFSSLEYARKMFDQIPQ-PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNS 118
           L    C L T  SL +A+++F+        + +N+LIR Y+SS    ++ ++FL+++ NS
Sbjct: 70  LVARSCELGTRESLSFAKEVFENSESYGTCFMYNSLIRGYASSGLCNEAILLFLRMM-NS 128

Query: 119 PYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMA 173
              P+++T PF + A A+      G  IHG+     +  DL + NSL+HFYA CG+L  A
Sbjct: 129 GISPDKYTFPFGLSACAKSRAKGNGIQIHGLIVKMGYAKDLFVQNSLVHFYAECGELDSA 188

Query: 174 YCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIEL-YREMEVENVKPDEVTMVVVLSACAK 232
             VF  + +++VVSW SMI G+    F + A++L +R +  E V P+ VTMV V+SACAK
Sbjct: 189 RKVFDEMSERNVVSWTSMICGYARRDFAKDAVDLFFRMVRDEEVTPNSVTMVCVISACAK 248

Query: 233 KRDLEFGIWVSSHIEKNGIKMD 254
             DLE G  V + I  +GI+++
Sbjct: 249 LEDLETGEKVYAFIRNSGIEVN 270

Arabidopsis thaliana (taxid: 3702)

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

 Score =  143 bits (360), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 82/272 (30%), Positives = 139/272 (51%), Gaps = 54/272 (19%)

Query: 37  KQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTF--SSLEYARKMFDQIPQPNLYTWNTL 94
           + L +IHA  + +    D  +A+++   CA S      L+YA K+F+Q+PQ N ++WNT+
Sbjct: 37  RDLSQIHAVFIKSGQMRDTLAAAEILRFCATSDLHHRDLDYAHKIFNQMPQRNCFSWNTI 96

Query: 95  IRAYSSSDE--PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM--- 149
           IR +S SDE   + +  +F +++ +    PN FT P V+KA A+  + + G+ IHG+   
Sbjct: 97  IRGFSESDEDKALIAITLFYEMMSDEFVEPNRFTFPSVLKACAKTGKIQEGKQIHGLALK 156

Query: 150 --FEDDLVISNSLIHFYAVC---------------------------------------- 167
             F  D  + ++L+  Y +C                                        
Sbjct: 157 YGFGGDEFVMSNLVRMYVMCGFMKDARVLFYKNIIEKDMVVMTDRRKRDGEIVLWNVMID 216

Query: 168 -----GDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVT 222
                GD   A  +F  + ++ VVSWN+MISG+   GFF+ A+E++REM+  +++P+ VT
Sbjct: 217 GYMRLGDCKAARMLFDKMRQRSVVSWNTMISGYSLNGFFKDAVEVFREMKKGDIRPNYVT 276

Query: 223 MVVVLSACAKKRDLEFGIWVSSHIEKNGIKMD 254
           +V VL A ++   LE G W+  + E +GI++D
Sbjct: 277 LVSVLPAISRLGSLELGEWLHLYAEDSGIRID 308

Arabidopsis thaliana (taxid: 3702)

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

 Score =  141 bits (356), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 91/280 (32%), Positives = 136/280 (48%), Gaps = 52/280 (18%)

Query: 7   PVISIPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCA 66
           P  SI  HP+ + L          H     + L+ IHAQM+        Y+ SKL   C 
Sbjct: 27  PYDSIRNHPSLSLL----------HNCKTLQSLRIIHAQMIKIGLHNTNYALSKLIEFCI 76

Query: 67  LS-TFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEF 125
           LS  F  L YA  +F  I +PNL  WNT+ R ++ S +P+ +  +++ ++ +    PN +
Sbjct: 77  LSPHFEGLPYAISVFKTIQEPNLLIWNTMFRGHALSSDPVSALKLYVCMI-SLGLLPNSY 135

Query: 126 TLPFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNSLIHFYAVCGDLAMAYCVFVMI 180
           T PFV+K+ A+   F+ GQ IHG       + DL +  SLI  Y   G L  A+ VF   
Sbjct: 136 TFPFVLKSCAKSKAFKEGQQIHGHVLKLGCDLDLYVHTSLISMYVQNGRLEDAHKVFDKS 195

Query: 181 GKKDVVSWN-------------------------------SMISGFVEGGFFEKAIELYR 209
             +DVVS+                                +MISG+ E G +++A+EL++
Sbjct: 196 PHRDVVSYTALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNYKEALELFK 255

Query: 210 EMEVENVKPDEVTMVVVLSACAKKRDLEFG----IWVSSH 245
           +M   NV+PDE TMV V+SACA+   +E G    +W+  H
Sbjct: 256 DMMKTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDH 295

Arabidopsis thaliana (taxid: 3702)

>sp|Q9MA95|PP214_ARATH Putative pentatricopeptide repeat-containing protein At3g05240 OS=Arabidopsis thaliana GN=PCMP-E82 PE=3 SV=2

 Score =  140 bits (353), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 78/221 (35%), Positives = 123/221 (55%), Gaps = 11/221 (4%)

Query: 38  QLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFS-SLEYARKMFDQIPQPNLYTWNTLIR 96
           +L ++H  M+ +    +    S+L   C     + +L YAR +F+ I  P++Y WN++IR
Sbjct: 21  ELNQLHGLMIKSSVIRNVIPLSRLIDFCTTCPETMNLSYARSVFESIDCPSVYIWNSMIR 80

Query: 97  AYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAA--RPVQFRVGQAIHGM----- 149
            YS+S  P ++ +IF Q +    Y P+ FT P+V+KA +  R +QF  G  +HG      
Sbjct: 81  GYSNSPNPDKA-LIFYQEMLRKGYSPDYFTFPYVLKACSGLRDIQF--GSCVHGFVVKTG 137

Query: 150 FEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYR 209
           FE ++ +S  L+H Y  CG++     VF  I + +VV+W S+ISGFV    F  AIE +R
Sbjct: 138 FEVNMYVSTCLLHMYMCCGEVNYGLRVFEDIPQWNVVAWGSLISGFVNNNRFSDAIEAFR 197

Query: 210 EMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG 250
           EM+   VK +E  MV +L AC + +D+  G W    ++  G
Sbjct: 198 EMQSNGVKANETIMVDLLVACGRCKDIVTGKWFHGFLQGLG 238

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WQW5|PPR85_ARATH Pentatricopeptide repeat-containing protein At1g59720, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H51 PE=2 SV=2

 Score =  140 bits (352), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 86/245 (35%), Positives = 130/245 (53%), Gaps = 17/245 (6%)

Query: 11  IPRHPNPTTLTVNNGHQR---HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCAL 67
           IP   +P+  T  N HQR        ++  QLK++HA  L T +   P   + LF    +
Sbjct: 33  IPPASSPSASTAGNHHQRIFSLAETCSDMSQLKQLHAFTLRTTY---PEEPATLFLYGKI 89

Query: 68  ----STFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSS-DEPIQSFMIFLQLVYNSPYFP 122
               S+FS + YA ++FD I   + + WNTLIRA +       ++FM++ +++      P
Sbjct: 90  LQLSSSFSDVNYAFRVFDSIENHSSFMWNTLIRACAHDVSRKEEAFMLYRKMLERGESSP 149

Query: 123 NEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVF 177
           ++ T PFV+KA A    F  G+ +H       F  D+ ++N LIH Y  CG L +A  VF
Sbjct: 150 DKHTFPFVLKACAYIFGFSEGKQVHCQIVKHGFGGDVYVNNGLIHLYGSCGCLDLARKVF 209

Query: 178 VMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLE 237
             + ++ +VSWNSMI   V  G ++ A++L+REM+  + +PD  TM  VLSACA    L 
Sbjct: 210 DEMPERSLVSWNSMIDALVRFGEYDSALQLFREMQ-RSFEPDGYTMQSVLSACAGLGSLS 268

Query: 238 FGIWV 242
            G W 
Sbjct: 269 LGTWA 273

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	258
224106277	738	predicted protein [Populus trichocarpa]	0.996	0.348	0.561	2e-81
255569325	765	pentatricopeptide repeat-containing prot	0.992	0.334	0.579	5e-80
449455158	733	PREDICTED: pentatricopeptide repeat-cont	0.984	0.346	0.588	8e-78
225434622	743	PREDICTED: pentatricopeptide repeat-cont	0.968	0.336	0.554	2e-77
147840590	694	hypothetical protein VITISV_032470 [Viti	0.968	0.360	0.558	4e-77
297822703	740	predicted protein [Arabidopsis lyrata su	0.965	0.336	0.538	2e-70
15227619	738	pentatricopeptide repeat-containing prot	0.965	0.337	0.523	3e-69
395146511	850	hypothetical protein [Linum usitatissimu	0.957	0.290	0.521	5e-69
356502930	780	PREDICTED: pentatricopeptide repeat-cont	0.841	0.278	0.549	3e-63
297745917	652	unnamed protein product [Vitis vinifera]	0.883	0.349	0.506	4e-62

>gi|224106277|ref|XP_002314110.1| predicted protein [Populus trichocarpa] gi|222850518|gb|EEE88065.1| predicted protein [Populus trichocarpa]

 Score =  307 bits (787), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 151/269 (56%), Positives = 192/269 (71%), Gaps = 12/269 (4%)

Query: 1   METLSTPVISIPRHPNPTTLTVNNGHQRHPHFL-------TNQKQLKRIHAQMLSTDFFF 53
           M TL  P+ S+P   NPT LT NN  + +P  +        N+K LK++HA ML T  FF
Sbjct: 1   MATLGNPLASVPISSNPTILTANNEQKSNPSTVPILIDKCANKKHLKQLHAHMLRTGLFF 60

Query: 54  DPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQ 113
           DP SA+KLFT CALS+ SSL+YA K+FDQIP+PNLYTWNTLIRA++SS +PIQ  ++F+Q
Sbjct: 61  DPPSATKLFTACALSSPSSLDYACKVFDQIPRPNLYTWNTLIRAFASSPKPIQGLLVFIQ 120

Query: 114 LVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCG 168
           +++ S  FPN +T PFVIKAA        GQAIHGM     F  DL ISNSLIHFY+  G
Sbjct: 121 MLHESQRFPNSYTFPFVIKAATEVSSLLAGQAIHGMVMKASFGSDLFISNSLIHFYSSLG 180

Query: 169 DLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLS 228
           DL  AY VF  I +KD+VSWNSMISGFV+GG  E+A++L++ M++EN +P+ VTMV VLS
Sbjct: 181 DLDSAYLVFSKIVEKDIVSWNSMISGFVQGGSPEEALQLFKRMKMENARPNRVTMVGVLS 240

Query: 229 ACAKKRDLEFGIWVSSHIEKNGIKMDLTF 257
           ACAK+ DLEFG W   +IE+NGI ++L  
Sbjct: 241 ACAKRIDLEFGRWACDYIERNGIDINLIL 269

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569325|ref|XP_002525630.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223535066|gb|EEF36748.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  303 bits (776), Expect = 5e-80,   Method: Compositional matrix adjust.
 Identities = 156/269 (57%), Positives = 194/269 (72%), Gaps = 13/269 (4%)

Query: 1   METLSTPVISIPRHPNPTTLTVNNGHQRHPHF--------LTNQKQLKRIHAQMLSTDFF 52
           M +L++P++SIP  PN + LTV NG     H          TN K LK +HA +L +  F
Sbjct: 1   MASLNSPLVSIPLRPNHSILTVPNGRPVTSHSQTLSLIDQCTNLKHLKELHATILRSGLF 60

Query: 53  FDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFL 112
           F PY+ASKLF+  ALS+FSSL+YARK+F++I QPNLYTWNTLIRA++SS EPI S +IF+
Sbjct: 61  FHPYNASKLFSVAALSSFSSLDYARKVFEEISQPNLYTWNTLIRAFASSPEPIHSLLIFI 120

Query: 113 QLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVC 167
           +++Y+SP FPN+FT PFVIKAAA        QAIHGM        DL I NSLIH YA C
Sbjct: 121 RMLYDSPDFPNKFTFPFVIKAAAGVASLPFSQAIHGMAIKASLGSDLFILNSLIHCYASC 180

Query: 168 GDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVL 227
           GDL  AY VFV I +KDVVSWNSMI GFV GG  +KA+EL++ M+ ENV+P++VTMV VL
Sbjct: 181 GDLDSAYSVFVKIEEKDVVSWNSMIKGFVLGGCPDKALELFQLMKAENVRPNDVTMVGVL 240

Query: 228 SACAKKRDLEFGIWVSSHIEKNGIKMDLT 256
           SACAKK DLEFG  V  +IE+NGI ++LT
Sbjct: 241 SACAKKMDLEFGRRVCHYIERNGINVNLT 269

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449455158|ref|XP_004145320.1| PREDICTED: pentatricopeptide repeat-containing protein At2g29760, chloroplastic-like [Cucumis sativus] gi|449470513|ref|XP_004152961.1| PREDICTED: pentatricopeptide repeat-containing protein At2g29760, chloroplastic-like [Cucumis sativus] gi|449523079|ref|XP_004168552.1| PREDICTED: pentatricopeptide repeat-containing protein At2g29760, chloroplastic-like [Cucumis sativus]

 Score =  296 bits (757), Expect = 8e-78,   Method: Compositional matrix adjust.
 Identities = 157/267 (58%), Positives = 186/267 (69%), Gaps = 13/267 (4%)

Query: 1   METLSTPVISIPRHPNPTTLTVNNGHQRHPHFLT-----NQKQLKRIHAQMLSTDFFFDP 55
           ME LS P IS+    N +TL  N   + H    T     + KQLK +HA+ML T  FFDP
Sbjct: 1   MEALSVPSISLQ---NFSTLNNNLLFRNHQILSTIDKCSSSKQLKEVHARMLRTGLFFDP 57

Query: 56  YSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLV 115
           +SASKLFT  ALS+FS+L+YAR +FDQIPQPNLYTWNTLIRAY+SS +P QSF+IFL L+
Sbjct: 58  FSASKLFTASALSSFSTLDYARNLFDQIPQPNLYTWNTLIRAYASSSDPFQSFVIFLDLL 117

Query: 116 YNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDL 170
                 PN+FT PFVIKAA+     RVG A+HGM     F  DL I NSL+ FY  CGDL
Sbjct: 118 DKCEDLPNKFTFPFVIKAASELKASRVGTAVHGMAIKLSFGMDLYILNSLVRFYGACGDL 177

Query: 171 AMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC 230
           +MA  +F  I  KDVVSWNSMIS F +G   E A+EL+ +ME ENV P+ VTMV VLSAC
Sbjct: 178 SMAERLFKGISCKDVVSWNSMISAFAQGNCPEDALELFLKMERENVMPNSVTMVGVLSAC 237

Query: 231 AKKRDLEFGIWVSSHIEKNGIKMDLTF 257
           AKK DLEFG WV S+IE+ GIK+DLT 
Sbjct: 238 AKKLDLEFGRWVCSYIERKGIKVDLTL 264

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225434622|ref|XP_002279360.1| PREDICTED: pentatricopeptide repeat-containing protein At2g29760, chloroplastic-like [Vitis vinifera]

 Score =  295 bits (754), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 148/267 (55%), Positives = 190/267 (71%), Gaps = 17/267 (6%)

Query: 8   VISIPRH-----PNPTTLTVNNGH--QRHPHF-----LTNQKQLKRIHAQMLSTDFFFDP 55
           ++S+PR      PNP ++T+NN      HP        +  KQLK+IHAQML T  FFDP
Sbjct: 8   LVSLPRSHSLPTPNPNSITLNNDRYFANHPTLSLIDQCSETKQLKQIHAQMLRTGLFFDP 67

Query: 56  YSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLV 115
           +SAS+L T  ALS F SL+YA+++FDQIP PNLYTWNTLIRAY+SS  P QS +IFL+++
Sbjct: 68  FSASRLITAAALSPFPSLDYAQQVFDQIPHPNLYTWNTLIRAYASSSNPHQSLLIFLRML 127

Query: 116 YNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDL 170
           + SP FP++FT PF+IKAA+   +   G+A HGM        D+ I NSLIHFYA CG+L
Sbjct: 128 HQSPDFPDKFTFPFLIKAASELEELFTGKAFHGMVIKVLLGSDVFILNSLIHFYAKCGEL 187

Query: 171 AMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC 230
            + Y VFV I ++DVVSWNSMI+ FV+GG  E+A+EL++EME +NVKP+ +TMV VLSAC
Sbjct: 188 GLGYRVFVNIPRRDVVSWNSMITAFVQGGCPEEALELFQEMETQNVKPNGITMVGVLSAC 247

Query: 231 AKKRDLEFGIWVSSHIEKNGIKMDLTF 257
           AKK D EFG WV S+IE+N I   LT 
Sbjct: 248 AKKSDFEFGRWVHSYIERNRIGESLTL 274

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147840590|emb|CAN72716.1| hypothetical protein VITISV_032470 [Vitis vinifera]

 Score =  293 bits (751), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 149/267 (55%), Positives = 191/267 (71%), Gaps = 17/267 (6%)

Query: 8   VISIPRH-----PNPTTLTVNNGH--QRHPHF-LTNQ----KQLKRIHAQMLSTDFFFDP 55
           ++S+PR      PNP ++T+NN      HP   L +Q    KQLK+IHAQML T  FFDP
Sbjct: 8   LVSLPRSHSLPTPNPNSITLNNDRYFANHPTLSLIDQCSETKQLKQIHAQMLRTGLFFDP 67

Query: 56  YSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLV 115
           +SAS+L T  ALS F SL+YA+++FDQIP PNLYTWNTLIRAY+SS  P QS +IFL+++
Sbjct: 68  FSASRLITAAALSPFPSLDYAQQVFDQIPHPNLYTWNTLIRAYASSSNPHQSLLIFLRML 127

Query: 116 YNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDL 170
           + SP FP++FT PF+IKAA+   +   G+A HGM        D+ I NSLIHFYA CG+L
Sbjct: 128 HQSPDFPDKFTFPFLIKAASELEELFTGKAFHGMVIKVLLGSDVFILNSLIHFYAKCGEL 187

Query: 171 AMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC 230
            + Y VFV   ++DVVSWNSMI+ FV+GG  E+A+EL++EME +NVKP+ +TMV VLSAC
Sbjct: 188 GLGYRVFVNXPRRDVVSWNSMITAFVQGGCPEEALELFQEMETQNVKPNGITMVGVLSAC 247

Query: 231 AKKRDLEFGIWVSSHIEKNGIKMDLTF 257
           AKK D EFG WV S+IE+N I   LT 
Sbjct: 248 AKKSDFEFGRWVHSYIERNRIXESLTL 274

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297822703|ref|XP_002879234.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297325073|gb|EFH55493.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  271 bits (692), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 141/262 (53%), Positives = 182/262 (69%), Gaps = 13/262 (4%)

Query: 9   ISIPRHPN---PTTLTVNNGHQRHPHFLTNQ----KQLKRIHAQMLSTDFFFDPYSASKL 61
           +S+PRHPN   P   T NN   RH   L ++    +QLK+ HA M+ T  F DPYSASKL
Sbjct: 10  LSLPRHPNFSNPNQPTTNNERSRHTISLIDRCSSLRQLKQTHAHMIRTGMFSDPYSASKL 69

Query: 62  FTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYN-SPY 120
           F   ALS+F+SLEYARK+FD+IPQPN +TWNTLIRAY+S  +P+ S   FL +V + S  
Sbjct: 70  FAIAALSSFASLEYARKVFDEIPQPNSFTWNTLIRAYASGPDPVCSIWAFLDMVSSESQC 129

Query: 121 FPNEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYC 175
           +PN++T PF+IKAAA      +GQ++HGM        D+ ++NSLIH Y  CGDL  A  
Sbjct: 130 YPNKYTFPFLIKAAAEVSSLSLGQSLHGMAIKSAVGSDVFVANSLIHCYFSCGDLDSACK 189

Query: 176 VFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRD 235
           VF  I +KDVVSWNSMI+GFV+ G  +KA+EL+++ME E+VK   VTMV VLSACAK RD
Sbjct: 190 VFTTIKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVLSACAKIRD 249

Query: 236 LEFGIWVSSHIEKNGIKMDLTF 257
           LEFG  V S+IE+N + ++LT 
Sbjct: 250 LEFGRRVCSYIEENRVNVNLTL 271

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15227619|ref|NP_180537.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75100656|sp|O82380.1|PP175_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At2g29760, chloroplastic; Flags: Precursor gi|3582328|gb|AAC35225.1| hypothetical protein [Arabidopsis thaliana] gi|330253207|gb|AEC08301.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  267 bits (682), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 136/260 (52%), Positives = 178/260 (68%), Gaps = 11/260 (4%)

Query: 9   ISIPRHPN---PTTLTVNNGHQRHPHFL---TNQKQLKRIHAQMLSTDFFFDPYSASKLF 62
           +S+PRHPN   P   T NN   RH   +    + +QLK+ H  M+ T  F DPYSASKLF
Sbjct: 10  LSLPRHPNFSNPNQPTTNNERSRHISLIERCVSLRQLKQTHGHMIRTGTFSDPYSASKLF 69

Query: 63  TPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFP 122
              ALS+F+SLEYARK+FD+IP+PN + WNTLIRAY+S  +P+ S   FL +V  S  +P
Sbjct: 70  AMAALSSFASLEYARKVFDEIPKPNSFAWNTLIRAYASGPDPVLSIWAFLDMVSESQCYP 129

Query: 123 NEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVF 177
           N++T PF+IKAAA      +GQ++HGM        D+ ++NSLIH Y  CGDL  A  VF
Sbjct: 130 NKYTFPFLIKAAAEVSSLSLGQSLHGMAVKSAVGSDVFVANSLIHCYFSCGDLDSACKVF 189

Query: 178 VMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLE 237
             I +KDVVSWNSMI+GFV+ G  +KA+EL+++ME E+VK   VTMV VLSACAK R+LE
Sbjct: 190 TTIKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVLSACAKIRNLE 249

Query: 238 FGIWVSSHIEKNGIKMDLTF 257
           FG  V S+IE+N + ++LT 
Sbjct: 250 FGRQVCSYIEENRVNVNLTL 269

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|395146511|gb|AFN53666.1| hypothetical protein [Linum usitatissimum]

 Score =  266 bits (681), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 134/257 (52%), Positives = 183/257 (71%), Gaps = 10/257 (3%)

Query: 10  SIPRH--PNPTTLTVNN-GHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCA 66
           SI +H  P P + T  N G +      T+ KQLK+IHAQML T+   DPY+AS+LFT  A
Sbjct: 123 SIVQHSSPTPASATATNVGDRALFQQCTSFKQLKQIHAQMLRTNKLHDPYAASELFTAAA 182

Query: 67  LSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFT 126
            S+FS+L+YARK+FDQIPQPNLY+WN LIRA ++S +PIQS ++F++++++SP+ PN+FT
Sbjct: 183 FSSFSALDYARKVFDQIPQPNLYSWNILIRALATSSDPIQSVLVFIRMLHDSPFGPNKFT 242

Query: 127 LPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVFVMI- 180
            P +IKA A    F VG+A+HGM     F DD+ + NSLIHFYA CG L +AY VF MI 
Sbjct: 243 FPVLIKAVAERRCFLVGKAVHGMAIKTSFGDDVFVLNSLIHFYASCGHLDLAYLVFEMIE 302

Query: 181 -GKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFG 239
              KD+VSWNSM++GFV+GG+ +KA++L+  M  E V P+ VTMV V+SACAK  +L  G
Sbjct: 303 GNNKDIVSWNSMVTGFVQGGYPDKALDLFERMRNEGVHPNAVTMVSVMSACAKTMNLTLG 362

Query: 240 IWVSSHIEKNGIKMDLT 256
             V  +I++N + M+L 
Sbjct: 363 RKVCDYIDRNEMMMNLN 379

Source: Linum usitatissimum

Species: Linum usitatissimum

Genus: Linum

Family: Linaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356502930|ref|XP_003520267.1| PREDICTED: pentatricopeptide repeat-containing protein At2g29760, chloroplastic-like [Glycine max]

 Score =  247 bits (631), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 122/222 (54%), Positives = 158/222 (71%), Gaps = 5/222 (2%)

Query: 34  TNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNT 93
           TN  QLK+IHA ML T  F DPY+ASKL T  A+S+ S L YA+ +F+QIPQPNLY WNT
Sbjct: 83  TNTMQLKQIHAHMLRTSRFCDPYTASKLLTAYAISSCSCLIYAKNVFNQIPQPNLYCWNT 142

Query: 94  LIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM---- 149
           LIR Y+SS +P QSF+IFL ++++   FPN+FT PF+ KAA+R     +G  +HGM    
Sbjct: 143 LIRGYASSSDPTQSFLIFLHMLHSCSEFPNKFTFPFLFKAASRLKVLHLGSVLHGMVIKA 202

Query: 150 -FEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELY 208
               DL I NSLI+FY   G   +A+ VF  +  KDVVSWN+MI+ F  GG  +KA+ L+
Sbjct: 203 SLSSDLFILNSLINFYGSSGAPDLAHRVFTNMPGKDVVSWNAMINAFALGGLPDKALLLF 262

Query: 209 REMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG 250
           +EME+++VKP+ +TMV VLSACAKK DLEFG W+ S+IE NG
Sbjct: 263 QEMEMKDVKPNVITMVSVLSACAKKIDLEFGRWICSYIENNG 304

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745917|emb|CBI15973.3| unnamed protein product [Vitis vinifera]

 Score =  244 bits (622), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 124/245 (50%), Positives = 165/245 (67%), Gaps = 17/245 (6%)

Query: 8   VISIPRH-----PNPTTLTVNNGH--QRHPHF-----LTNQKQLKRIHAQMLSTDFFFDP 55
           ++S+PR      PNP ++T+NN      HP        +  KQLK+IHAQML T  FFDP
Sbjct: 8   LVSLPRSHSLPTPNPNSITLNNDRYFANHPTLSLIDQCSETKQLKQIHAQMLRTGLFFDP 67

Query: 56  YSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLV 115
           +SAS+L T  ALS F SL+YA+++FDQIP PNLYTWNTLIRAY+SS  P QS +IFL+++
Sbjct: 68  FSASRLITAAALSPFPSLDYAQQVFDQIPHPNLYTWNTLIRAYASSSNPHQSLLIFLRML 127

Query: 116 YNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDL 170
           + SP FP++FT PF+IKAA+   +   G+A HGM        D+ I NSLIHFYA CG+L
Sbjct: 128 HQSPDFPDKFTFPFLIKAASELEELFTGKAFHGMVIKVLLGSDVFILNSLIHFYAKCGEL 187

Query: 171 AMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC 230
            + Y VFV I ++DVVSWNSMI+ FV+GG  E+A+EL++EME +N       M+ + + C
Sbjct: 188 GLGYRVFVNIPRRDVVSWNSMITAFVQGGCPEEALELFQEMETQNSLTLSNAMLDMYTKC 247

Query: 231 AKKRD 235
               D
Sbjct: 248 GSVED 252

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	258
TAIR|locus:2060640	738	OTP81 "ORGANELLE TRANSCRIPT PR	0.961	0.336	0.525	8.5e-65
TAIR|locus:2041198	681	SLO1 "SLOW GROWTH 1" [Arabidop	0.841	0.318	0.366	1.5e-33
TAIR|locus:4010713895	595	AT4G21065 "AT4G21065" [Arabido	0.844	0.366	0.367	6e-33
TAIR|locus:2025946	638	CRR28 "CHLORORESPIRATORY REDUC	0.910	0.368	0.345	4.9e-31
TAIR|locus:2045580	559	AT2G42920 [Arabidopsis thalian	0.813	0.375	0.360	2e-29
TAIR|locus:2144143	622	AT5G06540 [Arabidopsis thalian	0.887	0.368	0.329	1.5e-28
TAIR|locus:2154855	620	AT5G66520 "AT5G66520" [Arabido	0.841	0.35	0.340	3.1e-28
TAIR|locus:2124603	617	AT4G18520 [Arabidopsis thalian	0.825	0.345	0.336	3.6e-26
TAIR|locus:2056740	603	OTP85 "ORGANELLE TRANSCRIPT PR	0.817	0.349	0.301	4.2e-26
TAIR|locus:2040565	501	AT2G36730 [Arabidopsis thalian	0.798	0.411	0.347	9.4e-26

TAIR|locus:2060640 OTP81 "ORGANELLE TRANSCRIPT PROCESSING 81" [Arabidopsis thaliana (taxid:3702)]

 Score = 660 (237.4 bits), Expect = 8.5e-65, P = 8.5e-65
 Identities = 136/259 (52%), Positives = 178/259 (68%)

Query:     9 ISIPRHPN---PTTLTVNNGHQRHPHFL---TNQKQLKRIHAQMLSTDFFFDPYSASKLF 62
             +S+PRHPN   P   T NN   RH   +    + +QLK+ H  M+ T  F DPYSASKLF
Sbjct:    10 LSLPRHPNFSNPNQPTTNNERSRHISLIERCVSLRQLKQTHGHMIRTGTFSDPYSASKLF 69

Query:    63 TPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFP 122
                ALS+F+SLEYARK+FD+IP+PN + WNTLIRAY+S  +P+ S   FL +V  S  +P
Sbjct:    70 AMAALSSFASLEYARKVFDEIPKPNSFAWNTLIRAYASGPDPVLSIWAFLDMVSESQCYP 129

Query:   123 NEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVF 177
             N++T PF+IKAAA      +GQ++HGM        D+ ++NSLIH Y  CGDL  A  VF
Sbjct:   130 NKYTFPFLIKAAAEVSSLSLGQSLHGMAVKSAVGSDVFVANSLIHCYFSCGDLDSACKVF 189

Query:   178 VMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLE 237
               I +KDVVSWNSMI+GFV+ G  +KA+EL+++ME E+VK   VTMV VLSACAK R+LE
Sbjct:   190 TTIKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVLSACAKIRNLE 249

Query:   238 FGIWVSSHIEKNGIKMDLT 256
             FG  V S+IE+N + ++LT
Sbjct:   250 FGRQVCSYIEENRVNVNLT 268

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2041198 SLO1 "SLOW GROWTH 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 372 (136.0 bits), Expect = 1.5e-33, P = 1.5e-33
 Identities = 82/224 (36%), Positives = 132/224 (58%)

Query:    39 LKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAY 98
             LK+I AQM+      DP+++S+L   CALS    L+Y+ K+   I  PN+++WN  IR +
Sbjct:    69 LKQIQAQMIINGLILDPFASSRLIAFCALSESRYLDYSVKILKGIENPNIFSWNVTIRGF 128

Query:    99 SSSDEPIQSFMIFLQLVYNS--PYFPNEFTLPFVIKAAARPVQFRVGQAIHG---MFEDD 153
             S S+ P +SF+++ Q++ +      P+ FT P + K  A      +G  I G       +
Sbjct:   129 SESENPKESFLLYKQMLRHGCCESRPDHFTYPVLFKVCADLRLSSLGHMILGHVLKLRLE 188

Query:   154 LV--ISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREM 211
             LV  + N+ IH +A CGD+  A  VF     +D+VSWN +I+G+ + G  EKAI +Y+ M
Sbjct:   189 LVSHVHNASIHMFASCGDMENARKVFDESPVRDLVSWNCLINGYKKIGEAEKAIYVYKLM 248

Query:   212 EVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDL 255
             E E VKPD+VTM+ ++S+C+   DL  G     ++++NG++M +
Sbjct:   249 ESEGVKPDDVTMIGLVSSCSMLGDLNRGKEFYEYVKENGLRMTI 292

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 364 (133.2 bits), Expect = 6.0e-33, P = 6.0e-33
 Identities = 83/226 (36%), Positives = 128/226 (56%)

Query:    38 QLKRIHAQMLSTDFFFDPYSASK--LFTPCALSTFSSLEYARKMFDQIPQP-NLYTWNTL 94
             +L++IHA  +            K  +F   +L +   + YA K+F +I +P N++ WNTL
Sbjct:    32 KLRQIHAFSIRHGVSISDAELGKHLIFYLVSLPSPPPMSYAHKVFSKIEKPINVFIWNTL 91

Query:    95 IRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM----- 149
             IR Y+     I +F ++ ++  +    P+  T PF+IKA       R+G+ IH +     
Sbjct:    92 IRGYAEIGNSISAFSLYREMRVSGLVEPDTHTYPFLIKAVTTMADVRLGETIHSVVIRSG 151

Query:   150 FEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYR 209
             F   + + NSL+H YA CGD+A AY VF  + +KD+V+WNS+I+GF E G  E+A+ LY 
Sbjct:   152 FGSLIYVQNSLLHLYANCGDVASAYKVFDKMPEKDLVAWNSVINGFAENGKPEEALALYT 211

Query:   210 EMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDL 255
             EM  + +KPD  T+V +LSACAK   L  G  V  ++ K G+  +L
Sbjct:   212 EMNSKGIKPDGFTIVSLLSACAKIGALTLGKRVHVYMIKVGLTRNL 257

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2025946 CRR28 "CHLORORESPIRATORY REDUCTION28" [Arabidopsis thaliana (taxid:3702)]

 Score = 348 (127.6 bits), Expect = 4.9e-31, P = 4.9e-31
 Identities = 85/246 (34%), Positives = 131/246 (53%)

Query:    11 IPRHPNPTTLTVNNGHQRH---PHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCAL 67
             IP   +P+  T  N HQR        ++  QLK++HA  L T +  +P +         L
Sbjct:    33 IPPASSPSASTAGNHHQRIFSLAETCSDMSQLKQLHAFTLRTTYPEEPATLFLYGKILQL 92

Query:    68 ST-FSSLEYARKMFDQIPQPNLYTWNTLIRAYSSS-DEPIQSFMIFLQLVYNSPYFPNEF 125
             S+ FS + YA ++FD I   + + WNTLIRA +       ++FM++ +++      P++ 
Sbjct:    93 SSSFSDVNYAFRVFDSIENHSSFMWNTLIRACAHDVSRKEEAFMLYRKMLERGESSPDKH 152

Query:   126 TLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVFVMI 180
             T PFV+KA A    F  G+ +H       F  D+ ++N LIH Y  CG L +A  VF  +
Sbjct:   153 TFPFVLKACAYIFGFSEGKQVHCQIVKHGFGGDVYVNNGLIHLYGSCGCLDLARKVFDEM 212

Query:   181 GKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGI 240
              ++ +VSWNSMI   V  G ++ A++L+REM+  + +PD  TM  VLSACA    L  G 
Sbjct:   213 PERSLVSWNSMIDALVRFGEYDSALQLFREMQ-RSFEPDGYTMQSVLSACAGLGSLSLGT 271

Query:   241 WVSSHI 246
             W  + +
Sbjct:   272 WAHAFL 277

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016556 "mRNA modification" evidence=RCA;IMP

TAIR|locus:2045580 AT2G42920 [Arabidopsis thaliana (taxid:3702)]

 Score = 331 (121.6 bits), Expect = 2.0e-29, P = 2.0e-29
 Identities = 79/219 (36%), Positives = 119/219 (54%)

Query:     4 LSTPVISIPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFT 63
             LS   +++P  P+  +L+ N   +      +  ++LK+IHA ++ T    D  +AS++  
Sbjct:     6 LSFSGVTVPAMPSSGSLSGNTYLRLIDTQCSTMRELKQIHASLIKTGLISDTVTASRVLA 65

Query:    64 PCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYF-P 122
              C  S  S + YA  +F +I   N + WNT+IR +S S  P  +  IF+ ++ +SP   P
Sbjct:    66 FCCASP-SDMNYAYLVFTRINHKNPFVWNTIIRGFSRSSFPEMAISIFIDMLCSSPSVKP 124

Query:   123 NEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVF 177
                T P V KA  R  Q R G+ +HGM      EDD  I N+++H Y  CG L  A+ +F
Sbjct:   125 QRLTYPSVFKAYGRLGQARDGRQLHGMVIKEGLEDDSFIRNTMLHMYVTCGCLIEAWRIF 184

Query:   178 V-MIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVEN 215
             + MIG  DVV+WNSMI GF + G  ++A  L+ EM   N
Sbjct:   185 LGMIGF-DVVAWNSMIMGFAKCGLIDQAQNLFDEMPQRN 222

GO:0009507 "chloroplast" evidence=ISM

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

 Score = 325 (119.5 bits), Expect = 1.5e-28, P = 1.5e-28
 Identities = 82/249 (32%), Positives = 131/249 (52%)

Query:    18 TTLTVNNGHQRHPHFLTNQK-----QLKRIHAQMLSTDFFFDPYSASKLFTPCAL-STFS 71
             + + +N    +HP     Q       LK IH  +L T    D + AS+L   C   STF+
Sbjct:     2 SNIVLNTLRFKHPKLALLQSCSSFSDLKIIHGFLLRTHLISDVFVASRLLALCVDDSTFN 61

Query:    72 S----LEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTL 127
                  L YA  +F QI  PNL+ +N LIR +S+  EP ++F  + Q++  S  +P+  T 
Sbjct:    62 KPTNLLGYAYGIFSQIQNPNLFVFNLLIRCFSTGAEPSKAFGFYTQML-KSRIWPDNITF 120

Query:   128 PFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK 182
             PF+IKA++      VG+  H       F++D+ + NSL+H YA CG +A A  +F  +G 
Sbjct:   121 PFLIKASSEMECVLVGEQTHSQIVRFGFQNDVYVENSLVHMYANCGFIAAAGRIFGQMGF 180

Query:   183 KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWV 242
             +DVVSW SM++G+ + G  E A E++ EM   N+     T  ++++  AK    E  I +
Sbjct:   181 RDVVSWTSMVAGYCKCGMVENAREMFDEMPHRNL----FTWSIMINGYAKNNCFEKAIDL 236

Query:   243 SSHIEKNGI 251
                +++ G+
Sbjct:   237 FEFMKREGV 245

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 322 (118.4 bits), Expect = 3.1e-28, P = 3.1e-28
 Identities = 78/229 (34%), Positives = 131/229 (57%)

Query:    34 TNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSS-LEYARKMFDQIPQPNLYTWN 92
             + Q++LK+IHA+ML T    D Y+ +K  + C  ST S  L YA+ +FD   +P+ + WN
Sbjct:    25 SKQEELKQIHARMLKTGLMQDSYAITKFLSFCISSTSSDFLPYAQIVFDGFDRPDTFLWN 84

Query:    93 TLIRAYSSSDEPIQSFMIFLQLVYNS-PYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-- 149
              +IR +S SDEP +S +++ +++ +S P+  N +T P ++KA +    F     IH    
Sbjct:    85 LMIRGFSCSDEPERSLLLYQRMLCSSAPH--NAYTFPSLLKACSNLSAFEETTQIHAQIT 142

Query:   150 ---FEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIE 206
                +E+D+   NSLI+ YAV G+  +A+ +F  I + D VSWNS+I G+V+ G  + A+ 
Sbjct:   143 KLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDVSWNSVIKGYVKAGKMDIALT 202

Query:   207 LYREMEVENVKPDEVTMVV-VLSACAKKRDLE-FGIWVSSHIEKNGIKM 253
             L+R+M  +N      TM+   + A   K  L+ F    +S +E + + +
Sbjct:   203 LFRKMAEKNAI-SWTTMISGYVQADMNKEALQLFHEMQNSDVEPDNVSL 250

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2124603 AT4G18520 [Arabidopsis thaliana (taxid:3702)]

 Score = 303 (111.7 bits), Expect = 3.6e-26, P = 3.6e-26
 Identities = 75/223 (33%), Positives = 117/223 (52%)

Query:    39 LKRIHAQMLSTDFFFDP--YSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIR 96
             +KRIHA  L    F D   Y  + L + C       L YARK+FD +P+ N  TW  +I 
Sbjct:   101 IKRIHAMALKC--FDDQVIYFGNNLISSCV--RLGDLVYARKVFDSMPEKNTVTWTAMID 156

Query:    97 AYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHG-MFE---D 152
              Y       ++F +F   V +   F NE     ++   +R  +F +G+ +HG M +    
Sbjct:   157 GYLKYGLEDEAFALFEDYVKHGIRFTNERMFVCLLNLCSRRAEFELGRQVHGNMVKVGVG 216

Query:   153 DLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREME 212
             +L++ +SL++FYA CG+L  A   F M+ +KDV+SW ++IS     G   KAI ++  M 
Sbjct:   217 NLIVESSLVYFYAQCGELTSALRAFDMMEEKDVISWTAVISACSRKGHGIKAIGMFIGML 276

Query:   213 VENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDL 255
                  P+E T+  +L AC++++ L FG  V S + K  IK D+
Sbjct:   277 NHWFLPNEFTVCSILKACSEEKALRFGRQVHSLVVKRMIKTDV 319

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2056740 OTP85 "ORGANELLE TRANSCRIPT PROCESSING 85" [Arabidopsis thaliana (taxid:3702)]

 Score = 302 (111.4 bits), Expect = 4.2e-26, P = 4.2e-26
 Identities = 66/219 (30%), Positives = 125/219 (57%)

Query:    37 KQLKRIHAQMLSTDFFFDPYSASKLFTPCALS-TFSSLEYARKMFDQIPQPNLYTWNTLI 95
             ++L +I A  + +    D    +KL   C  S T SS+ YAR +F+ + +P++  +N++ 
Sbjct:    43 RELMQIQAYAIKSHIE-DVSFVAKLINFCTESPTESSMSYARHLFEAMSEPDIVIFNSMA 101

Query:    96 RAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-----F 150
             R YS    P++ F +F++++ +    P+ +T P ++KA A       G+ +H +      
Sbjct:   102 RGYSRFTNPLEVFSLFVEILEDG-ILPDNYTFPSLLKACAVAKALEEGRQLHCLSMKLGL 160

Query:   151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYRE 210
             +D++ +  +LI+ Y  C D+  A CVF  I +  VV +N+MI+G+       +A+ L+RE
Sbjct:   161 DDNVYVCPTLINMYTECEDVDSARCVFDRIVEPCVVCYNAMITGYARRNRPNEALSLFRE 220

Query:   211 MEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN 249
             M+ + +KP+E+T++ VLS+CA    L+ G W+  + +K+
Sbjct:   221 MQGKYLKPNEITLLSVLSSCALLGSLDLGKWIHKYAKKH 259

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2040565 AT2G36730 [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 9.4e-26, P = 9.4e-26
 Identities = 75/216 (34%), Positives = 111/216 (51%)

Query:    37 KQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIR 96
             K L +IH Q+  +    D +  S+L    +LS    L +AR +          TWN L R
Sbjct:    27 KHLLQIHGQIHLSSLQNDSFIISELVRVSSLSLAKDLAFARTLLLHSSDSTPSTWNMLSR 86

Query:    97 AYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAI------HGMF 150
              YSSSD P++S  ++ ++       PN+ T PF++KA A  +    G+ I      HG F
Sbjct:    87 GYSSSDSPVESIWVYSEMKRRG-IKPNKLTFPFLLKACASFLGLTAGRQIQVEVLKHG-F 144

Query:   151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYRE 210
             + D+ + N+LIH Y  C   + A  VF  + +++VVSWNS+++  VE G      E + E
Sbjct:   145 DFDVYVGNNLIHLYGTCKKTSDARKVFDEMTERNVVSWNSIMTALVENGKLNLVFECFCE 204

Query:   211 MEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHI 246
             M  +   PDE TMVV+LSAC    +L  G  V S +
Sbjct:   205 MIGKRFCPDETTMVVLLSACGG--NLSLGKLVHSQV 238

GO:0005739 "mitochondrion" evidence=ISM

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00091200 hypothetical protein (738 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

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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	258
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-33
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-25
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-24
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-22
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-21
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-18
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-13
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-07
pfam01535	31	pfam01535, PPR, PPR repeat	7e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-04

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

 Score =  127 bits (320), Expect = 3e-33
 Identities = 65/180 (36%), Positives = 97/180 (53%), Gaps = 6/180 (3%)

Query: 76  ARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAA 135
           AR +FD++P+ +  +WN +I  Y  + E ++   +F  +   S   P+  T+  VI A  
Sbjct: 241 ARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELS-VDPDLMTITSVISACE 299

Query: 136 RPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNS 190
                R+G+ +HG      F  D+ + NSLI  Y   G    A  VF  +  KD VSW +
Sbjct: 300 LLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTA 359

Query: 191 MISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG 250
           MISG+ + G  +KA+E Y  ME +NV PDE+T+  VLSACA   DL+ G+ +    E+ G
Sbjct: 360 MISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKG 419

Length = 857

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

 Score =  104 bits (260), Expect = 2e-25
 Identities = 61/225 (27%), Positives = 112/225 (49%), Gaps = 16/225 (7%)

Query: 40  KRIHAQMLSTDFFFDPYSASK---LFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIR 96
           K ++  + S+ F  D Y  ++   +   C +     L  AR++FD++P+ NL +W T+I 
Sbjct: 143 KAVYWHVESSGFEPDQYMMNRVLLMHVKCGM-----LIDARRLFDEMPERNLASWGTIIG 197

Query: 97  AYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIH------GMF 150
               +    ++F +F ++ +         T   +++A+A     R GQ +H      G+ 
Sbjct: 198 GLVDAGNYREAFALFREM-WEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVV 256

Query: 151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYRE 210
            D  V S +LI  Y+ CGD+  A CVF  + +K  V+WNSM++G+   G+ E+A+ LY E
Sbjct: 257 GDTFV-SCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYE 315

Query: 211 MEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDL 255
           M    V  D+ T  +++   ++   LE      + + + G  +D+
Sbjct: 316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDI 360

Length = 697

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

 Score =   99 bits (249), Expect = 8e-24
 Identities = 58/198 (29%), Positives = 103/198 (52%), Gaps = 16/198 (8%)

Query: 70  FSSLEYARKMFDQIPQPNLYTWNTLIRAYSSS---DEPIQSF--MIFLQLVYNSPYFPNE 124
           F  L +A  +F ++P+ +L++WN L+  Y+ +   DE +  +  M++  +       P+ 
Sbjct: 134 FGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR------PDV 187

Query: 125 FTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAMAYCVFVM 179
           +T P V++          G+ +H       FE D+ + N+LI  Y  CGD+  A  VF  
Sbjct: 188 YTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDR 247

Query: 180 IGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFG 239
           + ++D +SWN+MISG+ E G   + +EL+  M   +V PD +T+  V+SAC    D   G
Sbjct: 248 MPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLG 307

Query: 240 IWVSSHIEKNGIKMDLTF 257
             +  ++ K G  +D++ 
Sbjct: 308 REMHGYVVKTGFAVDVSV 325

Length = 857

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

 Score = 94.2 bits (234), Expect = 6e-22
 Identities = 52/182 (28%), Positives = 90/182 (49%), Gaps = 16/182 (8%)

Query: 62  FTPCAL----STFSSLEYARKMFDQIPQPNLYTWNTLIRAYS---SSDEPIQSFMIFLQL 114
           F  CAL    S    +E AR +FD +P+     WN+++  Y+    S+E +         
Sbjct: 260 FVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALC----LYYE 315

Query: 115 VYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGD 169
           + +S    ++FT   +I+  +R       +  H       F  D+V + +L+  Y+  G 
Sbjct: 316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGR 375

Query: 170 LAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSA 229
           +  A  VF  + +K+++SWN++I+G+   G   KA+E++  M  E V P+ VT + VLSA
Sbjct: 376 MEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA 435

Query: 230 CA 231
           C 
Sbjct: 436 CR 437

Length = 697

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

 Score = 93.4 bits (232), Expect = 1e-21
 Identities = 50/166 (30%), Positives = 86/166 (51%), Gaps = 10/166 (6%)

Query: 73  LEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIK 132
           ++ A ++F  IP+ ++ +W ++I     ++   ++ + F Q++      PN  TL   + 
Sbjct: 440 IDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLK--PNSVTLIAALS 497

Query: 133 AAARPVQFRVGQAIH------GMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVV 186
           A AR      G+ IH      G+  D  +  N+L+  Y  CG +  A+  F    +KDVV
Sbjct: 498 ACARIGALMCGKEIHAHVLRTGIGFDGFL-PNALLDLYVRCGRMNYAWNQF-NSHEKDVV 555

Query: 187 SWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK 232
           SWN +++G+V  G    A+EL+  M    V PDEVT + +L AC++
Sbjct: 556 SWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSR 601

Length = 857

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

 Score = 84.1 bits (208), Expect = 2e-18
 Identities = 61/221 (27%), Positives = 109/221 (49%), Gaps = 11/221 (4%)

Query: 40  KRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYS 99
           + +H  ++ T F  D    + L       +  S   A K+F ++   +  +W  +I  Y 
Sbjct: 308 REMHGYVVKTGFAVDVSVCNSLIQ--MYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYE 365

Query: 100 SSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDD-----L 154
            +  P ++   +  +  ++   P+E T+  V+ A A      VG  +H + E       +
Sbjct: 366 KNGLPDKALETYALMEQDN-VSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYV 424

Query: 155 VISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGF-VEGGFFEKAIELYREMEV 213
           V++N+LI  Y+ C  +  A  VF  I +KDV+SW S+I+G  +    FE A+  +R+M +
Sbjct: 425 VVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFE-ALIFFRQM-L 482

Query: 214 ENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMD 254
             +KP+ VT++  LSACA+   L  G  + +H+ + GI  D
Sbjct: 483 LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFD 523

Length = 857

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

 Score = 70.6 bits (173), Expect = 8e-14
 Identities = 31/100 (31%), Positives = 57/100 (57%)

Query: 156 ISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVEN 215
           + N+++  +   G+L  A+ VF  + ++D+ SWN ++ G+ + G+F++A+ LY  M    
Sbjct: 123 LGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAG 182

Query: 216 VKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDL 255
           V+PD  T   VL  C    DL  G  V +H+ + G ++D+
Sbjct: 183 VRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDV 222

Length = 857

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

 Score = 62.4 bits (153), Expect = 2e-13
 Identities = 16/50 (32%), Positives = 32/50 (64%)

Query: 183 KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK 232
            DVV++N++I G+ + G  E+A++L+ EM+   +KP+  T  +++    K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 46.7 bits (112), Expect = 1e-07
 Identities = 13/35 (37%), Positives = 25/35 (71%)

Query: 186 VSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE 220
           V++N++I G  + G  E+A+EL++EM+   ++PD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 50.3 bits (120), Expect = 5e-07
 Identities = 42/181 (23%), Positives = 80/181 (44%), Gaps = 14/181 (7%)

Query: 88  LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIH 147
           LYT  TLI   + S +    F +F ++V N+    N  T   +I   AR  Q       +
Sbjct: 474 LYT--TLISTCAKSGKVDAMFEVFHEMV-NAGVEANVHTFGALIDGCARAGQVAKAFGAY 530

Query: 148 GMF-----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG------KKDVVSWNSMISGFV 196
           G+      + D V+ N+LI      G +  A+ V   +         D ++  +++    
Sbjct: 531 GIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACA 590

Query: 197 EGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDLT 256
             G  ++A E+Y+ +   N+K       + +++C++K D +F + +   ++K G+K D  
Sbjct: 591 NAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV 650

Query: 257 F 257
           F
Sbjct: 651 F 651

Length = 1060

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

 Score = 44.4 bits (106), Expect = 7e-07
 Identities = 14/31 (45%), Positives = 25/31 (80%)

Query: 186 VSWNSMISGFVEGGFFEKAIELYREMEVENV 216
           V++NS+ISG+ + G  E+A+EL++EM+ + V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 46.0 bits (109), Expect = 1e-05
 Identities = 22/72 (30%), Positives = 42/72 (58%)

Query: 185 VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSS 244
           V + N++I+   EG    KA+E+  EM+   + P+ +T  ++L A  +K D + G+ + S
Sbjct: 719 VSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLS 778

Query: 245 HIEKNGIKMDLT 256
             +++GIK +L 
Sbjct: 779 QAKEDGIKPNLV 790

Length = 1060

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

 Score = 38.1 bits (90), Expect = 1e-04
 Identities = 13/29 (44%), Positives = 20/29 (68%)

Query: 184 DVVSWNSMISGFVEGGFFEKAIELYREME 212
           DVV++N++I G    G  ++A+EL  EME
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 37.5 bits (88), Expect = 2e-04
 Identities = 7/34 (20%), Positives = 19/34 (55%)

Query: 185 VVSWNSMISGFVEGGFFEKAIELYREMEVENVKP 218
           + ++N+++    + G  + A+ +  EM+   +KP
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	258
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.74
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.72
PF13041	50	PPR_2: PPR repeat family	99.62
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.59
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.57
PF13041	50	PPR_2: PPR repeat family	99.55
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.38
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.38
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.37
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.35
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.29
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.27
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.25
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.23
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.22
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.22
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.19
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.17
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.16
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.13
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.09
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.08
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.06
PF12854	34	PPR_1: PPR repeat	99.06
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.06
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.05
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.03
PRK12370	553	invasion protein regulator; Provisional	99.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.0
KOG1126	638	consensus DNA-binding cell division cycle control	99.0
KOG1126	638	consensus DNA-binding cell division cycle control	98.98
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.95
PF12854	34	PPR_1: PPR repeat	98.94
PRK12370	553	invasion protein regulator; Provisional	98.94
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.89
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.82
PRK14574	822	hmsH outer membrane protein; Provisional	98.81
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.81
KOG2003	840	consensus TPR repeat-containing protein [General f	98.79
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.74
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.73
PRK14574	822	hmsH outer membrane protein; Provisional	98.7
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.69
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.69
PRK11189	296	lipoprotein NlpI; Provisional	98.68
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.67
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.65
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.58
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.56
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.55
KOG2003	840	consensus TPR repeat-containing protein [General f	98.53
PRK11189	296	lipoprotein NlpI; Provisional	98.49
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.47
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.44
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.44
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.4
KOG1129	478	consensus TPR repeat-containing protein [General f	98.39
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.35
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.35
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.34
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.29
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.26
KOG2076	895	consensus RNA polymerase III transcription factor	98.25
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.25
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.25
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.22
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.21
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.17
KOG1129	478	consensus TPR repeat-containing protein [General f	98.15
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.14
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.13
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.12
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.11
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.07
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.06
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.01
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.99
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.96
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.95
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.93
PRK15359	144	type III secretion system chaperone protein SscB;	97.91
KOG0547	606	consensus Translocase of outer mitochondrial membr	97.9
KOG2076	895	consensus RNA polymerase III transcription factor	97.88
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.87
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.86
PRK15359	144	type III secretion system chaperone protein SscB;	97.85
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.83
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.82
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.81
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.8
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.8
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.77
KOG1125	579	consensus TPR repeat-containing protein [General f	97.76
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.76
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.73
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.7
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.7
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.7
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.7
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.69
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.68
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.64
KOG0495	913	consensus HAT repeat protein [RNA processing and m	97.63
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.63
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.62
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.6
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.59
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.59
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.59
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.55
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.53
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.51
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.46
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.45
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.45
KOG0495	913	consensus HAT repeat protein [RNA processing and m	97.42
PLN02789	320	farnesyltranstransferase	97.41
KOG4340	459	consensus Uncharacterized conserved protein [Funct	97.39
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.33
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.3
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.3
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.29
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.26
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.25
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.23
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.21
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.2
PRK04841	903	transcriptional regulator MalT; Provisional	97.16
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.15
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.1
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.07
PRK04841	903	transcriptional regulator MalT; Provisional	97.05
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.04
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.03
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.01
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.01
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.0
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.98
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.94
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.91
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.88
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	96.88
KOG3785	557	consensus Uncharacterized conserved protein [Funct	96.85
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.84
PLN02789	320	farnesyltranstransferase	96.82
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.81
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	96.78
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.77
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.77
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.74
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.72
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.68
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.66
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.63
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	96.58
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.57
KOG1125	579	consensus TPR repeat-containing protein [General f	96.54
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.52
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.52
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.51
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	96.48
PF12688	120	TPR_5: Tetratrico peptide repeat	96.47
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.41
PRK10803	263	tol-pal system protein YbgF; Provisional	96.38
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.35
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.31
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.28
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.27
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.18
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.16
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.14
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	96.12
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.1
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.09
KOG3941	406	consensus Intermediate in Toll signal transduction	96.09
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.02
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	95.95
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	95.94
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	95.92
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.9
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.88
KOG2047	835	consensus mRNA splicing factor [RNA processing and	95.88
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.83
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.81
KOG0553	304	consensus TPR repeat-containing protein [General f	95.79
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.79
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	95.77
KOG3941	406	consensus Intermediate in Toll signal transduction	95.73
PF13371	73	TPR_9: Tetratricopeptide repeat	95.61
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.49
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	95.47
PF13371	73	TPR_9: Tetratricopeptide repeat	95.36
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.31
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.25
COG4700	251	Uncharacterized protein conserved in bacteria cont	95.21
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	94.74
PRK10803	263	tol-pal system protein YbgF; Provisional	94.73
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.68
KOG0553	304	consensus TPR repeat-containing protein [General f	94.66
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	94.65
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	94.65
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	94.61
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	94.57
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.57
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.41
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.24
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.14
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	94.04
PF12688	120	TPR_5: Tetratrico peptide repeat	94.03
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.02
KOG2796	366	consensus Uncharacterized conserved protein [Funct	94.01
COG4700	251	Uncharacterized protein conserved in bacteria cont	93.73
PRK15331	165	chaperone protein SicA; Provisional	93.71
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.62
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	93.55
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.5
PF13762	145	MNE1: Mitochondrial splicing apparatus component	93.31
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.13
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	93.01
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.99
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	92.99
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	92.94
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.93
PF13929	292	mRNA_stabil: mRNA stabilisation	92.46
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.43
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.39
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	92.26
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	91.93
PRK15331	165	chaperone protein SicA; Provisional	91.69
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	91.66
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	91.66
KOG2041	1189	consensus WD40 repeat protein [General function pr	91.52
KOG1585	308	consensus Protein required for fusion of vesicles	91.51
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	91.44
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.98
smart00299	140	CLH Clathrin heavy chain repeat homology.	90.97
PF13512	142	TPR_18: Tetratricopeptide repeat	90.96
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.63
COG3118	304	Thioredoxin domain-containing protein [Posttransla	90.5
COG4105	254	ComL DNA uptake lipoprotein [General function pred	90.26
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	90.0
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	89.77
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.68
PHA02875	413	ankyrin repeat protein; Provisional	89.54
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.47
PF13762	145	MNE1: Mitochondrial splicing apparatus component	89.33
KOG2610	491	consensus Uncharacterized conserved protein [Funct	89.18
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	88.95
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	88.94
PF13428	44	TPR_14: Tetratricopeptide repeat	88.78
COG3898	531	Uncharacterized membrane-bound protein [Function u	88.7
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	88.51
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	88.44
KOG4555	175	consensus TPR repeat-containing protein [Function	88.02
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	87.91
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	87.71
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	87.62
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	87.5
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	87.23
PF13428	44	TPR_14: Tetratricopeptide repeat	87.01
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	87.01
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	86.58
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	86.42
KOG4555	175	consensus TPR repeat-containing protein [Function	86.3
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	85.48
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	85.23
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	84.95
COG3947	361	Response regulator containing CheY-like receiver a	84.67
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	84.6
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	84.06
PRK10564	303	maltose regulon periplasmic protein; Provisional	84.02
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	83.78
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	83.61
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	83.59
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	83.49
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	83.2
KOG1941	518	consensus Acetylcholine receptor-associated protei	83.13
PF13431	34	TPR_17: Tetratricopeptide repeat	83.07
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	82.85
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	82.82
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	82.28
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	82.11
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	81.27
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	80.48
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	80.45
COG4455	273	ImpE Protein of avirulence locus involved in tempe	80.42
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	80.28

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

Probab=100.00  E-value=2.2e-44  Score=321.31  Aligned_cols=239  Identities=24%  Similarity=0.393  Sum_probs=216.2

Q ss_pred             CCCCCCceeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhH
Q 038429           12 PRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTW   91 (258)
Q Consensus        12 ~~~p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~   91 (258)
                      |..|+..++..++.   .|...++.+.+.+++..+.+.|+.||..+||.||++|+++|  ++++|.++|++|.++|+.+|
T Consensus       219 g~~p~~~t~~~ll~---a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g--~~~~A~~vf~~m~~~~~vt~  293 (697)
T PLN03081        219 GSDAEPRTFVVMLR---ASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCG--DIEDARCVFDGMPEKTTVAW  293 (697)
T ss_pred             CCCCChhhHHHHHH---HHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCC--CHHHHHHHHHhCCCCChhHH
Confidence            44455555544444   44555555555555555556666777778899999999999  99999999999999999999


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHHHHHHHHh
Q 038429           92 NTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNSLIHFYAV  166 (258)
Q Consensus        92 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~li~~~~~  166 (258)
                      |+||.+|++.|++++|+++|++| .+.|+.||..||++++.+|++.|+++.|.++++.|     .||..+||+||++|++
T Consensus       294 n~li~~y~~~g~~~eA~~lf~~M-~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k  372 (697)
T PLN03081        294 NSMLAGYALHGYSEEALCLYYEM-RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSK  372 (697)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHH
Confidence            99999999999999999999999 99999999999999999999999999999999999     8999999999999999


Q ss_pred             cCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHH
Q 038429          167 CGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       167 ~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      +|++++|.++|++|.+||..+||+||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|++|
T Consensus       373 ~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m  452 (697)
T PLN03081        373 WGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSM  452 (697)
T ss_pred             CCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HH-cCCccccc
Q 038429          247 EK-NGIKMDLT  256 (258)
Q Consensus       247 ~~-~g~~p~~~  256 (258)
                      .+ .|+.||..
T Consensus       453 ~~~~g~~p~~~  463 (697)
T PLN03081        453 SENHRIKPRAM  463 (697)
T ss_pred             HHhcCCCCCcc
Confidence            75 79999864

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.4e-43  Score=321.01  Aligned_cols=240  Identities=18%  Similarity=0.216  Sum_probs=159.1

Q ss_pred             CCCCCCCceeeecCCCccCcccccchhhHHHHHHHHHh--hccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---
Q 038429           11 IPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLS--TDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---   85 (258)
Q Consensus        11 ~~~~p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---   85 (258)
                      .+..||..+|+.++.   .+++.|++++|.++|.+|..  .|+.||..+|+.+|.+|++.|  ++++|.++|++|.+   
T Consensus       536 ~Gv~PD~vTYnsLI~---a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G--~ldeA~elf~~M~e~gi  610 (1060)
T PLN03218        536 KNVKPDRVVFNALIS---ACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAG--QVDRAKEVYQMIHEYNI  610 (1060)
T ss_pred             cCCCCCHHHHHHHHH---HHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHcCC
Confidence            445555555555555   55555555555555555544  345555555555555555555  55555555555543   


Q ss_pred             -CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHH
Q 038429           86 -PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNS  159 (258)
Q Consensus        86 -~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~  159 (258)
                       |+..+||.+|.+|++.|++++|.++|++| .+.|+.||..||+.+|++|++.|++++|.++++.|     .||..+|++
T Consensus       611 ~p~~~tynsLI~ay~k~G~~deAl~lf~eM-~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tyns  689 (1060)
T PLN03218        611 KGTPEVYTIAVNSCSQKGDWDFALSIYDDM-KKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSS  689 (1060)
T ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence             45566666666666666666666666666 56666666666666666666666666666666666     567777777


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcC----CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIG----KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRD  235 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  235 (258)
                      ||.+|++.|++++|.++|++|.    .||..+||.||.+|++.|++++|.++|++|...|+.||..||+.++.+|++.|+
T Consensus       690 LI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~  769 (1060)
T PLN03218        690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDD  769 (1060)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Confidence            7777777777777777777764    467777777777777777777777777777777777777777777777777777


Q ss_pred             hhHHHHHHHHHHHcCCccccc
Q 038429          236 LEFGIWVSSHIEKNGIKMDLT  256 (258)
Q Consensus       236 ~~~a~~~~~~m~~~g~~p~~~  256 (258)
                      +++|.+++++|.+.|+.||..
T Consensus       770 le~A~~l~~~M~k~Gi~pd~~  790 (1060)
T PLN03218        770 ADVGLDLLSQAKEDGIKPNLV  790 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHH
Confidence            777777777777777777754

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.2e-43  Score=317.95  Aligned_cols=240  Identities=16%  Similarity=0.189  Sum_probs=159.2

Q ss_pred             CCCCCCCceeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCC------
Q 038429           11 IPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIP------   84 (258)
Q Consensus        11 ~~~~p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~------   84 (258)
                      .|..||..+|+.++.   .+++.|++++|.++|+.|.+.|+.||..+|+.||.+|++.|  ++++|.++|++|.      
T Consensus       501 ~Gv~PdvvTynaLI~---gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G--~~deA~~lf~eM~~~~~gi  575 (1060)
T PLN03218        501 AGVEANVHTFGALID---GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSG--AVDRAFDVLAEMKAETHPI  575 (1060)
T ss_pred             cCCCCCHHHHHHHHH---HHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHhcCCC
Confidence            445556666555555   55566666666666666666666666666666666666666  6666666666552      


Q ss_pred             CCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHH
Q 038429           85 QPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNS  159 (258)
Q Consensus        85 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~  159 (258)
                      .||..+|+++|.+|++.|++++|.++|+.| .+.|++|+..+|+.+|.+|++.|++++|..+|+.|     .||..+|++
T Consensus       576 ~PD~vTynaLI~ay~k~G~ldeA~elf~~M-~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~Tyns  654 (1060)
T PLN03218        576 DPDHITVGALMKACANAGQVDRAKEVYQMI-HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSA  654 (1060)
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHH-HHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            256666666666666666666666666666 55666666666666666666666666666666666     566666666


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC----CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIGK----KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRD  235 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  235 (258)
                      +|++|++.|++++|.++|++|.+    ||..+|++||.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|+
T Consensus       655 LI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~  734 (1060)
T PLN03218        655 LVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQ  734 (1060)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Confidence            66666666666666666666653    57777777777777777777777777777777777777777777777777777


Q ss_pred             hhHHHHHHHHHHHcCCccccc
Q 038429          236 LEFGIWVSSHIEKNGIKMDLT  256 (258)
Q Consensus       236 ~~~a~~~~~~m~~~g~~p~~~  256 (258)
                      +++|.++|++|.+.|+.||.+
T Consensus       735 ~eeAlelf~eM~~~Gi~Pd~~  755 (1060)
T PLN03218        735 LPKALEVLSEMKRLGLCPNTI  755 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHH
Confidence            777777777777777777754

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

Probab=100.00  E-value=1.5e-42  Score=309.44  Aligned_cols=240  Identities=25%  Similarity=0.399  Sum_probs=233.2

Q ss_pred             CCCCCCceeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhH
Q 038429           12 PRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTW   91 (258)
Q Consensus        12 ~~~p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~   91 (258)
                      +..|+..+|..++.   +|.+.++++.+.+++..|.+.|+.||..+||.|+.+|++.|  +++.|.++|++|.+||..+|
T Consensus       118 ~~~~~~~t~~~ll~---a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g--~~~~A~~lf~~m~~~~~~t~  192 (697)
T PLN03081        118 PFTLPASTYDALVE---ACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCG--MLIDARRLFDEMPERNLASW  192 (697)
T ss_pred             CCCCCHHHHHHHHH---HHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCC--CHHHHHHHHhcCCCCCeeeH
Confidence            45789999988888   99999999999999999999999999999999999999999  99999999999999999999


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHHHHHHHHh
Q 038429           92 NTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNSLIHFYAV  166 (258)
Q Consensus        92 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~li~~~~~  166 (258)
                      |.+|.+|++.|++++|+++|++| .+.|+.|+..||+.++.+|++.|+.+.+.+++..+     .+|..+||+||++|++
T Consensus       193 n~li~~~~~~g~~~~A~~lf~~M-~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k  271 (697)
T PLN03081        193 GTIIGGLVDAGNYREAFALFREM-WEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSK  271 (697)
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHH-HHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHH
Confidence            99999999999999999999999 89999999999999999999999999999999888     8999999999999999


Q ss_pred             cCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHH
Q 038429          167 CGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       167 ~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      .|++++|.++|+.|.++|+.+||.||.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++.+|
T Consensus       272 ~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m  351 (697)
T PLN03081        272 CGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGL  351 (697)
T ss_pred             CCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCcccccC
Q 038429          247 EKNGIKMDLTF  257 (258)
Q Consensus       247 ~~~g~~p~~~~  257 (258)
                      .+.|+.||+++
T Consensus       352 ~~~g~~~d~~~  362 (697)
T PLN03081        352 IRTGFPLDIVA  362 (697)
T ss_pred             HHhCCCCCeee
Confidence            99999999865

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.1e-42  Score=316.89  Aligned_cols=242  Identities=29%  Similarity=0.450  Sum_probs=231.1

Q ss_pred             cCCCCCCCceeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChh
Q 038429           10 SIPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLY   89 (258)
Q Consensus        10 ~~~~~p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~   89 (258)
                      ..|..||..||..++.   +|+..++++.+.+++..|.+.|+.||..++|.||.+|+++|  ++++|.++|++|.++|..
T Consensus       180 ~~g~~Pd~~t~~~ll~---~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g--~~~~A~~lf~~m~~~d~~  254 (857)
T PLN03077        180 WAGVRPDVYTFPCVLR---TCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCG--DVVSARLVFDRMPRRDCI  254 (857)
T ss_pred             HcCCCCChhHHHHHHH---HhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCC--CHHHHHHHHhcCCCCCcc
Confidence            3477888888888777   78888888888888888888888889999999999999999  999999999999999999


Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHHHHHHH
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNSLIHFY  164 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~li~~~  164 (258)
                      +||++|.+|++.|++++|+++|++| ...|+.||..||+.+|.+|++.|+++.|.+++..+     .||..+||+||.+|
T Consensus       255 s~n~li~~~~~~g~~~eAl~lf~~M-~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y  333 (857)
T PLN03077        255 SWNAMISGYFENGECLEGLELFFTM-RELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMY  333 (857)
T ss_pred             hhHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHH
Confidence            9999999999999999999999999 99999999999999999999999999999999999     89999999999999


Q ss_pred             HhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHH
Q 038429          165 AVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSS  244 (258)
Q Consensus       165 ~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~  244 (258)
                      ++.|++++|.++|++|.+||..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++
T Consensus       334 ~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~  413 (857)
T PLN03077        334 LSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHE  413 (857)
T ss_pred             HhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCcccccC
Q 038429          245 HIEKNGIKMDLTF  257 (258)
Q Consensus       245 ~m~~~g~~p~~~~  257 (258)
                      +|.+.|+.||+.+
T Consensus       414 ~~~~~g~~~~~~~  426 (857)
T PLN03077        414 LAERKGLISYVVV  426 (857)
T ss_pred             HHHHhCCCcchHH
Confidence            9999999998764

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.8e-41  Score=306.74  Aligned_cols=242  Identities=26%  Similarity=0.411  Sum_probs=234.5

Q ss_pred             ccCCCCCCCceeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCCh
Q 038429            9 ISIPRHPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNL   88 (258)
Q Consensus         9 ~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~   88 (258)
                      ...|..||..||..++.   +|.+.|+++.+.+++..|.+.|+.||..+||.||.+|+++|  ++++|.++|++|.+||.
T Consensus       280 ~~~g~~Pd~~ty~~ll~---a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g--~~~~A~~vf~~m~~~d~  354 (857)
T PLN03077        280 RELSVDPDLMTITSVIS---ACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLG--SWGEAEKVFSRMETKDA  354 (857)
T ss_pred             HHcCCCCChhHHHHHHH---HHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcC--CHHHHHHHHhhCCCCCe
Confidence            35688999999999988   99999999999999999999999999999999999999999  99999999999999999


Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHHHHHH
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNSLIHF  163 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~li~~  163 (258)
                      .+||++|.+|++.|++++|+++|++| .+.|+.||..||+.++.+|++.|+++.|.++++.+     .|+..+||+||++
T Consensus       355 ~s~n~li~~~~~~g~~~~A~~lf~~M-~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~  433 (857)
T PLN03077        355 VSWTAMISGYEKNGLPDKALETYALM-EQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEM  433 (857)
T ss_pred             eeHHHHHHHHHhCCCHHHHHHHHHHH-HHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            99999999999999999999999999 99999999999999999999999999999999999     8999999999999


Q ss_pred             HHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHH
Q 038429          164 YAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVS  243 (258)
Q Consensus       164 ~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~  243 (258)
                      |++.|++++|.++|++|.++|..+||.+|.+|++.|+.++|+.+|++|.. +++||..||+.+|.+|++.|+++.+.+++
T Consensus       434 y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~  512 (857)
T PLN03077        434 YSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIH  512 (857)
T ss_pred             HHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHH
Confidence            99999999999999999999999999999999999999999999999986 69999999999999999999999999999


Q ss_pred             HHHHHcCCcccccC
Q 038429          244 SHIEKNGIKMDLTF  257 (258)
Q Consensus       244 ~~m~~~g~~p~~~~  257 (258)
                      ..+.+.|+.+|.++
T Consensus       513 ~~~~~~g~~~~~~~  526 (857)
T PLN03077        513 AHVLRTGIGFDGFL  526 (857)
T ss_pred             HHHHHhCCCcccee
Confidence            99999999999775

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.74  E-value=1.1e-16  Score=134.26  Aligned_cols=217  Identities=9%  Similarity=-0.007  Sum_probs=105.8

Q ss_pred             ccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CC------hhhHHHHHHHHhcCC
Q 038429           31 HFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PN------LYTWNTLIRAYSSSD  102 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~------~~~~~~li~~~~~~g  102 (258)
                      ...|+++.|..+|..+.+.. +.+..+++.++..+.+.|  ++++|...++.+.+  |+      ...|..+...+.+.|
T Consensus       118 ~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~  194 (389)
T PRK11788        118 LKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEK--DWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARG  194 (389)
T ss_pred             HHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhc--hHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCC
Confidence            33444444444444444332 223344444444444444  44444444444422  10      112333444444455


Q ss_pred             ChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCc--hhHHHHHHHHHHhcCCHHHHHHHH
Q 038429          103 EPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDD--LVISNSLIHFYAVCGDLAMAYCVF  177 (258)
Q Consensus       103 ~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~--~~~~~~li~~~~~~g~~~~a~~~~  177 (258)
                      ++++|...|+++ .+.. +.+..++..+...+.+.|++++|...++.+   .|+  ..+++.+..+|.+.|++++|.+.+
T Consensus       195 ~~~~A~~~~~~a-l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l  272 (389)
T PRK11788        195 DLDAARALLKKA-LAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFL  272 (389)
T ss_pred             CHHHHHHHHHHH-HhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            555555555544 2211 112234444445555555555555555554   222  234455555555555555555555


Q ss_pred             HhcCC--CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc---cCChhHHHHHHHHHHHcCCc
Q 038429          178 VMIGK--KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK---KRDLEFGIWVSSHIEKNGIK  252 (258)
Q Consensus       178 ~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~  252 (258)
                      +.+.+  |+...+..+...+.+.|++++|..+++++.+.  .|+..+++.++..+..   .|+.+++..++++|.+.++.
T Consensus       273 ~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~  350 (389)
T PRK11788        273 RRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLK  350 (389)
T ss_pred             HHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHh
Confidence            55432  44444555556666666666666666655543  3566666655555543   34566666666666665555


Q ss_pred             cc
Q 038429          253 MD  254 (258)
Q Consensus       253 p~  254 (258)
                      ||
T Consensus       351 ~~  352 (389)
T PRK11788        351 RK  352 (389)
T ss_pred             CC
Confidence            54

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.72  E-value=4.1e-16  Score=130.87  Aligned_cols=220  Identities=12%  Similarity=0.017  Sum_probs=176.4

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcc---hhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcC
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFD---PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSS  101 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~  101 (258)
                      ..+...|++++|..+++.+...+..++   ...+..+...|.+.|  +++.|..+|+++.+   .+..+++.++..+.+.
T Consensus        77 ~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g--~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~  154 (389)
T PRK11788         77 NLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAG--LLDRAEELFLQLVDEGDFAEGALQQLLEIYQQE  154 (389)
T ss_pred             HHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHh
Confidence            366778899999999998887543222   246788888899989  99999999988865   5677899999999999


Q ss_pred             CChhhHHHHHHHhHhcCCCCCCc----chHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHH
Q 038429          102 DEPIQSFMIFLQLVYNSPYFPNE----FTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMA  173 (258)
Q Consensus       102 g~~~~a~~~~~~m~~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a  173 (258)
                      |++++|.+.++.+ .+.+..++.    ..+..+...+.+.|++++|...++.+    +.+...+..+...|.+.|++++|
T Consensus       155 g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A  233 (389)
T PRK11788        155 KDWQKAIDVAERL-EKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAA  233 (389)
T ss_pred             chHHHHHHHHHHH-HHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999998 444322221    23456777788899999999999887    44456788888999999999999


Q ss_pred             HHHHHhcCC--CC--hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          174 YCVFVMIGK--KD--VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       174 ~~~~~~m~~--~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .+.|+++.+  |+  ..+++.+..+|...|++++|...++++.+.  .|+...+..+...+.+.|++++|..+++++.+.
T Consensus       234 ~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~  311 (389)
T PRK11788        234 IEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR  311 (389)
T ss_pred             HHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            999998874  43  356788999999999999999999998875  477777888999999999999999999988765


Q ss_pred             CCccc
Q 038429          250 GIKMD  254 (258)
Q Consensus       250 g~~p~  254 (258)
                        .|+
T Consensus       312 --~P~  314 (389)
T PRK11788        312 --HPS  314 (389)
T ss_pred             --CcC
Confidence              354

>PF13041 PPR_2: PPR repeat family

Probab=99.62  E-value=1.6e-15  Score=88.47  Aligned_cols=50  Identities=38%  Similarity=0.765  Sum_probs=48.6

Q ss_pred             CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc
Q 038429          183 KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK  232 (258)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  232 (258)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.+|++|++
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            79999999999999999999999999999999999999999999999985

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

Probab=99.59  E-value=1.2e-13  Score=127.03  Aligned_cols=212  Identities=10%  Similarity=0.009  Sum_probs=118.6

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|++++|..++..+.+.. +.+...+..+...+...|  ++++|..+++.+.+   .+...+..+...+.+.|+++
T Consensus       644 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  720 (899)
T TIGR02917       644 AYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAK--RTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYP  720 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHH
Confidence            5556677777777777776654 334566677777777777  77777777766643   34455666666666677777


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +|...|+.+ ...  .|+..++..+..++.+.|++++|...++.+    +.+...++.+...|.+.|++++|.+.|+.+.
T Consensus       721 ~A~~~~~~~-~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  797 (899)
T TIGR02917       721 AAIQAYRKA-LKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVV  797 (899)
T ss_pred             HHHHHHHHH-Hhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            777776666 332  234455555666666666666666655555    4445566666666666666666666665553


Q ss_pred             C--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          182 K--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       182 ~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      +  | +...++.+...+...|+ .+|+.++++..... +-+..++..+...+.+.|++++|..+++++.+
T Consensus       798 ~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~  865 (899)
T TIGR02917       798 KKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVN  865 (899)
T ss_pred             HhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            2  2 33444444444444444 44444444443321 11222333444444444444444444444443

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

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

Probab=99.57  E-value=1.4e-13  Score=126.45  Aligned_cols=215  Identities=11%  Similarity=-0.035  Sum_probs=137.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|++++|..+++.+.+.. +.+...|..+..++.+.|  ++++|...|+.+.+   .+...+..+...+.+.|+++
T Consensus       576 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  652 (899)
T TIGR02917       576 YYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAG--DLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYA  652 (899)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHH
Confidence            4455666666666666665543 445566666777777666  77777776665532   34555666666777777777


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +|...|+++ .+. .+.+..++..+...+...|++++|..+++.+    +.+...+..+...+.+.|++++|.+.|..+.
T Consensus       653 ~A~~~~~~~-~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~  730 (899)
T TIGR02917       653 KAITSLKRA-LEL-KPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKAL  730 (899)
T ss_pred             HHHHHHHHH-Hhc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            777777666 322 1233556666666666777777776666666    4455566666667777777777777776654


Q ss_pred             C--CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          182 K--KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       182 ~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +  |+..++..+...+.+.|++++|...++++.+.. +.+...+..+...|.+.|++++|.++|+++.+.
T Consensus       731 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  799 (899)
T TIGR02917       731 KRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK  799 (899)
T ss_pred             hhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence            3  444566666677777777777777777666542 335556667777777777777777777777654

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.

>PF13041 PPR_2: PPR repeat family

Probab=99.55  E-value=8.7e-15  Score=85.33  Aligned_cols=50  Identities=22%  Similarity=0.473  Sum_probs=48.6

Q ss_pred             CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcC
Q 038429           86 PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAAR  136 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~  136 (258)
                      ||+.+||++|++|++.|++++|+++|++| ++.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M-~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEM-KKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHcC
Confidence            79999999999999999999999999999 999999999999999999985

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

Probab=99.38  E-value=9.4e-12  Score=108.19  Aligned_cols=71  Identities=11%  Similarity=0.096  Sum_probs=67.0

Q ss_pred             CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCccccc
Q 038429          183 KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDLT  256 (258)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  256 (258)
                      |+..+|.++++.-..+|+++.|..++.+|++.|++.+.+.|..|+.+   .++..-+..+++-|...|+.|+.-
T Consensus       202 ~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~se  272 (1088)
T KOG4318|consen  202 PTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSE  272 (1088)
T ss_pred             CChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcc
Confidence            79999999999999999999999999999999999999999999988   889999999999999999999863

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

Probab=99.38  E-value=1.6e-12  Score=104.42  Aligned_cols=214  Identities=13%  Similarity=0.050  Sum_probs=102.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHHHHHHHHhcCCChhh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWNTLIRAYSSSDEPIQ  106 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~  106 (258)
                      .+...++.+.|.+.++.+...+.. ++..+..++.. ...+  +.++|..+++...+  ++...+...+..+.+.+++++
T Consensus        53 La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~--~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~  128 (280)
T PF13429_consen   53 LAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDG--DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDE  128 (280)
T ss_dssp             ---------------------------------------------------------------------H-HHHTT-HHH
T ss_pred             cccccccccccccccccccccccc-ccccccccccc-cccc--cccccccccccccccccccchhhHHHHHHHHHhHHHH
Confidence            555677888999999988887644 67778888877 5777  88888888876643  566777888888999999999


Q ss_pred             HHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 038429          107 SFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       107 a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (258)
                      +..+++........+.+...|..+...+.+.|+.++|...++..    +.|....+.++..+...|+.+++.++++...+
T Consensus       129 ~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~  208 (280)
T PF13429_consen  129 AEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLK  208 (280)
T ss_dssp             HHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            99999987444445567777888888899999999999999888    44577888899999999999987777765543


Q ss_pred             ---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          183 ---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       183 ---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                         .|...+..+..+|...|+.++|..+|++..+.. +.|......+..++...|+.++|.++.++.-
T Consensus       209 ~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  209 AAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             H-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT----------------
T ss_pred             HCcCHHHHHHHHHHHhcccccccccccccccccccc-ccccccccccccccccccccccccccccccc
Confidence               466778888899999999999999999977642 2366778888899999999999998887653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.37  E-value=4.1e-11  Score=106.70  Aligned_cols=57  Identities=9%  Similarity=-0.030  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      .+..+...+.+.|++++|...+++..+  | +...+..+...+...|++++|...++++.
T Consensus       286 a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al  345 (656)
T PRK15174        286 IVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLA  345 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            333444444444444444444433321  2 22233333344444444444444444443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.35  E-value=4.1e-11  Score=96.92  Aligned_cols=227  Identities=15%  Similarity=0.142  Sum_probs=178.2

Q ss_pred             ceeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHH
Q 038429           18 TTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRA   97 (258)
Q Consensus        18 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~   97 (258)
                      .++.+.+.   .+++-...++|..++.+......+.+..+||.+|.+-+-..  +-+-..++..+-..||..|+|+++.+
T Consensus       208 et~s~mI~---Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~--~K~Lv~EMisqkm~Pnl~TfNalL~c  282 (625)
T KOG4422|consen  208 ETVSIMIA---GLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV--GKKLVAEMISQKMTPNLFTFNALLSC  282 (625)
T ss_pred             hhHHHHHH---HHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc--cHHHHHHHHHhhcCCchHhHHHHHHH
Confidence            34444444   66777888999999999888888999999999998776655  43333333333235999999999999


Q ss_pred             HhcCCChhh----HHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcch-hhhhhhcc-------------cCchhHHHH
Q 038429           98 YSSSDEPIQ----SFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRV-GQAIHGMF-------------EDDLVISNS  159 (258)
Q Consensus        98 ~~~~g~~~~----a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~-a~~~~~~~-------------~~~~~~~~~  159 (258)
                      .++.|+++.    |++++.+| ++-|+.|+..+|..+|.-+++.++..+ +..+...+             +.|..-+..
T Consensus       283 ~akfg~F~~ar~aalqil~Em-KeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~  361 (625)
T KOG4422|consen  283 AAKFGKFEDARKAALQILGEM-KEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQS  361 (625)
T ss_pred             HHHhcchHHHHHHHHHHHHHH-HHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHH
Confidence            999997764    47788999 999999999999999999999998755 33333333             445567788


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC--------CCh---hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIGK--------KDV---VSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLS  228 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~--------~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~  228 (258)
                      .|..|.+..+.+-|.++-.-...        |+.   .=|..+....|.....+.-+..|+.|.-.-+-|+..+...+++
T Consensus       362 AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lr  441 (625)
T KOG4422|consen  362 AMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLR  441 (625)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHH
Confidence            88999999999999888765542        222   2355777788888889999999999988878899999999999


Q ss_pred             HHhccCChhHHHHHHHHHHHcC
Q 038429          229 ACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       229 ~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      +..-.|.++-.-+++..++..|
T Consensus       442 A~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  442 ALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             HHhhcCcchhHHHHHHHHHHhh
Confidence            9999999999999999888777

>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=99.29  E-value=4.6e-10  Score=99.83  Aligned_cols=157  Identities=10%  Similarity=-0.054  Sum_probs=71.2

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHH
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHF  163 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~  163 (258)
                      ...|..+...+...|++++|+..|++. .+.. +.+...+..+..++.+.|++++|...++..    +.+...|+.+...
T Consensus       399 ~~~~~~lg~~~~~~g~~~~A~~~~~ka-l~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~  476 (615)
T TIGR00990       399 PDIYYHRAQLHFIKGEFAQAGKDYQKS-IDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGEL  476 (615)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH-HHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence            334444444444444444444444444 2111 112233334444444444555554444443    2333445555555


Q ss_pred             HHhcCCHHHHHHHHHhcCC--CCh-h-------hHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHhc
Q 038429          164 YAVCGDLAMAYCVFVMIGK--KDV-V-------SWNSMISGFVEGGFFEKAIELYREMEVENVKPDE-VTMVVVLSACAK  232 (258)
Q Consensus       164 ~~~~g~~~~a~~~~~~m~~--~~~-~-------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~t~~~li~~~~~  232 (258)
                      +...|++++|.+.|+...+  |+. .       .++.....+...|++++|..++++....  .|+. ..+..+...+.+
T Consensus       477 ~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l--~p~~~~a~~~la~~~~~  554 (615)
T TIGR00990       477 LLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALII--DPECDIAVATMAQLLLQ  554 (615)
T ss_pred             HHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHH
Confidence            5555555555555544322  110 0       1111111222235555555555554443  2332 345666666666


Q ss_pred             cCChhHHHHHHHHHHH
Q 038429          233 KRDLEFGIWVSSHIEK  248 (258)
Q Consensus       233 ~g~~~~a~~~~~~m~~  248 (258)
                      .|++++|...|++..+
T Consensus       555 ~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       555 QGDVDEALKLFERAAE  570 (615)
T ss_pred             ccCHHHHHHHHHHHHH
Confidence            6777777666666543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.27  E-value=4.1e-10  Score=100.42  Aligned_cols=213  Identities=11%  Similarity=0.037  Sum_probs=109.8

Q ss_pred             cccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHH
Q 038429           32 FLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSF  108 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~  108 (258)
                      ..|+++.|...++.+.... +.+...+..+...+...|  +.++|...+++..+   .+...+..+...+.+.|++++|.
T Consensus        88 ~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g--~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~  164 (656)
T PRK15174         88 ASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSK--QYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAI  164 (656)
T ss_pred             hcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHH
Confidence            3555555555555555443 223344444444555555  55555555544332   23334444444455555555554


Q ss_pred             HHHHHhH--------------------------------hcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cC
Q 038429          109 MIFLQLV--------------------------------YNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----ED  152 (258)
Q Consensus       109 ~~~~~m~--------------------------------~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~  152 (258)
                      ..++.+.                                .+....++...+..+..++.+.|++++|...++..    +.
T Consensus       165 ~~~~~~~~~~P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~  244 (656)
T PRK15174        165 SLARTQAQEVPPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD  244 (656)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            4444431                                22111122222333344445555555555555554    33


Q ss_pred             chhHHHHHHHHHHhcCCHHH----HHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-hhhHH
Q 038429          153 DLVISNSLIHFYAVCGDLAM----AYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-EVTMV  224 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~----a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~t~~  224 (258)
                      +...+..+-..|.+.|++++    |...|+...+  | +...+..+...+...|++++|...+++..+.  .|+ ...+.
T Consensus       245 ~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~  322 (656)
T PRK15174        245 GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRA  322 (656)
T ss_pred             CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            44455556666666666654    5555555433  3 4446666666666677777777776666553  343 33455


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHc
Q 038429          225 VVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .+...+.+.|++++|...++.+.+.
T Consensus       323 ~La~~l~~~G~~~eA~~~l~~al~~  347 (656)
T PRK15174        323 MYARALRQVGQYTAASDEFVQLARE  347 (656)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            5666666777777777777666543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.25  E-value=9.9e-10  Score=84.94  Aligned_cols=192  Identities=10%  Similarity=-0.028  Sum_probs=153.6

Q ss_pred             cchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHH
Q 038429           53 FDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPF  129 (258)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~  129 (258)
                      .....+..+...+...|  ++++|...+++..+   .+...+..+...+...|++++|...+++. .+.. +.+...+..
T Consensus        29 ~~~~~~~~la~~~~~~~--~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~a-l~~~-~~~~~~~~~  104 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQG--DLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRA-LTLN-PNNGDVLNN  104 (234)
T ss_pred             cHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHH-HhhC-CCCHHHHHH
Confidence            34566777888888888  99999999887643   35677888889999999999999999888 4332 334556778


Q ss_pred             HHHHhcCcCCcchhhhhhhcc------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCC
Q 038429          130 VIKAAARPVQFRVGQAIHGMF------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGF  200 (258)
Q Consensus       130 ll~~~~~~~~~~~a~~~~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~  200 (258)
                      +...+...|++++|...++..      +.....+..+...+.+.|++++|.+.|....+  | +...+..+...+...|+
T Consensus       105 ~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  184 (234)
T TIGR02521       105 YGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQ  184 (234)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCC
Confidence            888888999999999988887      12345677788899999999999999987754  3 45678888899999999


Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          201 FEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       201 ~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +++|...+++.... .+.+...+..+...+...|+.+.|..+.+.+.+.
T Consensus       185 ~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       185 YKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999998876 3445667778888888999999999998877643

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.

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

Probab=99.23  E-value=1.6e-11  Score=98.58  Aligned_cols=216  Identities=13%  Similarity=0.031  Sum_probs=97.8

Q ss_pred             ccCcccccchhhHHHHHHHHHhhc-cCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCC
Q 038429           27 QRHPHFLTNQKQLKRIHAQMLSTD-FFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSD  102 (258)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g  102 (258)
                      ...+-..|+++.|.+++....... ...++..|..+...+...+  +.+.|...++++..   .+...+..++.. ...+
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~--~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLG--DYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccc--ccccccccccccccccccccccccccccc-cccc
Confidence            346778899999999997655444 2445556666666666777  99999999998875   345567777777 7899


Q ss_pred             ChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc------cCchhHHHHHHHHHHhcCCHHHHHHH
Q 038429          103 EPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF------EDDLVISNSLIHFYAVCGDLAMAYCV  176 (258)
Q Consensus       103 ~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~  176 (258)
                      ++++|..++... -+.  .++...+..++..+.+.++++.+..+++..      +.+...|..+...+.+.|+.++|.+.
T Consensus        92 ~~~~A~~~~~~~-~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   92 DPEEALKLAEKA-YER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccc-ccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999998776 333  256677888888999999999999998886      45777888999999999999999999


Q ss_pred             HHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          177 FVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       177 ~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +++..+  | |....+.++..+...|+.+++.++++...+.. +.|...+..+..++...|+.++|...+++..+.
T Consensus       169 ~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~  243 (280)
T PF13429_consen  169 YRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL  243 (280)
T ss_dssp             HHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc
Confidence            998764  6 57788999999999999999999998887764 456677889999999999999999999998764

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.22  E-value=7.6e-10  Score=89.70  Aligned_cols=217  Identities=17%  Similarity=0.124  Sum_probs=157.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhh--ccC-----------------------CCChHHHHHHhccC
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCA--LST-----------------------FSSLEYARKMFDQI   83 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~--~~~-----------------------~~~~~~a~~~~~~m   83 (258)
                      ...+.|.++.+--+++.|.+.|...+..+--.|.+.-+  ...                       |.+-+-|. ++-+.
T Consensus       124 kmIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAd-L~~E~  202 (625)
T KOG4422|consen  124 KMISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVAD-LLFET  202 (625)
T ss_pred             HHHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHH-HHHhh
Confidence            56678899999999999999999888877555544322  222                       11111222 22222


Q ss_pred             CCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcc-hhhhhhhcccCchhHHHHHHH
Q 038429           84 PQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFR-VGQAIHGMFEDDLVISNSLIH  162 (258)
Q Consensus        84 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~-~a~~~~~~~~~~~~~~~~li~  162 (258)
                      ...+..+|..||.++|+-.+.+.|.+++++- .....+.+..+||.+|.+-....+-+ .++.+-..|.||..|+|+++.
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~-~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEH-RAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHH-HHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCchHhHHHHHH
Confidence            2356788999999999999999999999999 77778899999999998765543322 233334444999999999999


Q ss_pred             HHHhcCCHHHHHH----HHHhcC----CCChhhHHHHHHHHHcCCChHH-HHHHHHHHHH----cCCCC----ChhhHHH
Q 038429          163 FYAVCGDLAMAYC----VFVMIG----KKDVVSWNSMISGFVEGGFFEK-AIELYREMEV----ENVKP----DEVTMVV  225 (258)
Q Consensus       163 ~~~~~g~~~~a~~----~~~~m~----~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~----~~~~p----~~~t~~~  225 (258)
                      +..+.|+++.|.+    ++.+|+    +|...+|..+|..+++-++..+ |..++.+...    ..++|    |..-|..
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            9999998877654    556665    4899999999999998887644 4444444433    22333    3455788


Q ss_pred             HHHHHhccCChhHHHHHHHHHH
Q 038429          226 VLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       226 li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .+..|.+..+.+.|.++..-+.
T Consensus       362 AM~Ic~~l~d~~LA~~v~~ll~  383 (625)
T KOG4422|consen  362 AMSICSSLRDLELAYQVHGLLK  383 (625)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHH
Confidence            8889999999999999887664

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.22  E-value=2.5e-09  Score=90.00  Aligned_cols=212  Identities=9%  Similarity=-0.007  Sum_probs=140.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhh--hhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCC
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSAS--KLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDE  103 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~  103 (258)
                      ...+.|+.+.+.+.+..+.+.  .|+...+.  .....+...|  +.+.|...+++..+   .+......+...|.+.|+
T Consensus       127 aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g--~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gd  202 (398)
T PRK10747        127 AAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARN--ENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGA  202 (398)
T ss_pred             HHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCC--CHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHh
Confidence            447788999999999998764  44443332  3356777788  99999999887754   466778889999999999


Q ss_pred             hhhHHHHHHHhHhcCCCCCCc-------chHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHH
Q 038429          104 PIQSFMIFLQLVYNSPYFPNE-------FTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAM  172 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~  172 (258)
                      +++|..++..+ .+.+..++.       .+|..++.......+.+...++++.+    +.+......+...+...|+.++
T Consensus       203 w~~a~~~l~~l-~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~  281 (398)
T PRK10747        203 WSSLLDILPSM-AKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDT  281 (398)
T ss_pred             HHHHHHHHHHH-HHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHH
Confidence            99999999998 544333211       12222232222223333333333333    2244444444445555555555


Q ss_pred             HHHH-------------------------------HHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC
Q 038429          173 AYCV-------------------------------FVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP  218 (258)
Q Consensus       173 a~~~-------------------------------~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  218 (258)
                      |.++                               .+...+  | |...+-++-..+.+.+++++|.+.|+...+.  .|
T Consensus       282 A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P  359 (398)
T PRK10747        282 AQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RP  359 (398)
T ss_pred             HHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CC
Confidence            4444                               443322  3 4455667778888888899999999888764  58


Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          219 DEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       219 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      +..+|..+-..+.+.|+.++|.+++++-.
T Consensus       360 ~~~~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        360 DAYDYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88888888888889999999988888654

>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=99.19  E-value=3.1e-09  Score=94.54  Aligned_cols=213  Identities=11%  Similarity=-0.072  Sum_probs=167.5

Q ss_pred             ccchhhHHHHHHHHHhhc-cCc-chhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-ChhhHHHHHHHHhcCCChhhH
Q 038429           33 LTNQKQLKRIHAQMLSTD-FFF-DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-NLYTWNTLIRAYSSSDEPIQS  107 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~-~~~-~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a  107 (258)
                      .+.+++|...|+.....+ ..| ....++.+...+...|  ++++|...|++..+  | +..+|..+...+...|++++|
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g--~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA  384 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKG--KHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKA  384 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHH
Confidence            357889999999988765 223 3456778888888889  99999999997754  3 456888999999999999999


Q ss_pred             HHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-
Q 038429          108 FMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-  182 (258)
Q Consensus       108 ~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-  182 (258)
                      +..|+.. .+.. +.+..+|..+...+...|++++|...++..    +.+...+..+...+.+.|++++|...|+...+ 
T Consensus       385 ~~~~~~a-l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  462 (615)
T TIGR00990       385 EEDFDKA-LKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN  462 (615)
T ss_pred             HHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999988 3332 334678889999999999999999999988    55677888899999999999999999998754 


Q ss_pred             -C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChh------hHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          183 -K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEV------TMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       183 -~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~------t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                       | +...|+.+...+...|++++|+..|++.....-..+..      .++.....+...|++++|.+++++..+.
T Consensus       463 ~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l  537 (615)
T TIGR00990       463 FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALII  537 (615)
T ss_pred             CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence             4 56789999999999999999999999987642111111      1222222334469999999999987654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.17  E-value=3e-09  Score=97.90  Aligned_cols=208  Identities=7%  Similarity=-0.072  Sum_probs=163.1

Q ss_pred             cchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHHHHHHHHhcCCChhhHHHHH
Q 038429           34 TNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWNTLIRAYSSSDEPIQSFMIF  111 (258)
Q Consensus        34 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~  111 (258)
                      +...+|...+.......  |+......+...+...|  ++++|...|+++..  ++...+..+...+.+.|+.++|...|
T Consensus       490 ~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~G--r~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l  565 (987)
T PRK09782        490 TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVE--DYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWL  565 (987)
T ss_pred             CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCC--CHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHH
Confidence            67777888777776554  55443333444445788  99999999987653  45556777888899999999999999


Q ss_pred             HHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-Ch
Q 038429          112 LQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DV  185 (258)
Q Consensus       112 ~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~  185 (258)
                      +.. .+.+ +++...+..+.....+.|++++|...++..   .|+...|..+...+.+.|+.++|...|....+  | +.
T Consensus       566 ~qA-L~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~  643 (987)
T PRK09782        566 QQA-EQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNS  643 (987)
T ss_pred             HHH-HhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH
Confidence            998 4443 222333334444555669999999999988   67888999999999999999999999998765  5 56


Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          186 VSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ..++.+-..+...|+.++|+..+++..+.  .| +...+..+-.++...|++++|...+++..+.
T Consensus       644 ~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        644 NYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            67888888999999999999999998774  45 4567889999999999999999999998754

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.16  E-value=5.6e-09  Score=99.03  Aligned_cols=221  Identities=13%  Similarity=0.030  Sum_probs=152.3

Q ss_pred             cccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-ChhhHHHHHHHHhcCCChhh
Q 038429           30 PHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-NLYTWNTLIRAYSSSDEPIQ  106 (258)
Q Consensus        30 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~  106 (258)
                      +...|++++|.+.+++.++.. +-++..+..+...|.+.|  ++++|...+++..+  | +...+..+...+.+.++.++
T Consensus       471 ~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G--~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~  547 (1157)
T PRK11447        471 LENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAG--QRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRA  547 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHH
Confidence            345788999999999988776 336677788888899988  99999998887632  2 33333333334444555555


Q ss_pred             HHHHHHHhHhcC---------------------------------------CCCCCcchHHHHHHHhcCcCCcchhhhhh
Q 038429          107 SFMIFLQLVYNS---------------------------------------PYFPNEFTLPFVIKAAARPVQFRVGQAIH  147 (258)
Q Consensus       107 a~~~~~~m~~~~---------------------------------------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  147 (258)
                      |+..++.+ ...                                       ..+.+...+..+...+.+.|++++|...+
T Consensus       548 Al~~l~~l-~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y  626 (1157)
T PRK11447        548 ALAHLNTL-PRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAY  626 (1157)
T ss_pred             HHHHHHhC-CchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHH
Confidence            55554433 110                                       12344455667777778888888888888


Q ss_pred             hcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCC--CC
Q 038429          148 GMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENV--KP  218 (258)
Q Consensus       148 ~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~p  218 (258)
                      +..    +.+...+..+...|...|+.++|.+.++...+  | +...+..+...+...|++++|.++++++....-  .|
T Consensus       627 ~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~  706 (1157)
T PRK11447        627 QRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPP  706 (1157)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCc
Confidence            877    55667888888888888888888888887654  3 445566677777888888888888888776421  12


Q ss_pred             ---ChhhHHHHHHHHhccCChhHHHHHHHHHH-HcCCccc
Q 038429          219 ---DEVTMVVVLSACAKKRDLEFGIWVSSHIE-KNGIKMD  254 (258)
Q Consensus       219 ---~~~t~~~li~~~~~~g~~~~a~~~~~~m~-~~g~~p~  254 (258)
                         +...+..+...+...|+.++|...++... ..|+.|+
T Consensus       707 ~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~  746 (1157)
T PRK11447        707 SMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPT  746 (1157)
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCC
Confidence               22455666777888888888888888764 4455554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.13  E-value=3.5e-09  Score=81.86  Aligned_cols=183  Identities=14%  Similarity=-0.057  Sum_probs=149.0

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      ..+...|++++|.+.+....+.. +.+...+..+...+...|  ++++|...+++..+   .+...+..+...+...|++
T Consensus        39 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~  115 (234)
T TIGR02521        39 LGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLG--ELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKY  115 (234)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcC--CHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccH
Confidence            46667899999999999998765 445677888889999999  99999999986653   4567788899999999999


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMI  180 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (258)
                      ++|...|++.......+.....+..+..++...|++++|...+...    +.+...+..+...+...|++++|.+.+++.
T Consensus       116 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  195 (234)
T TIGR02521       116 EQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDARAYLERY  195 (234)
T ss_pred             HHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999998432222233456777888899999999999999888    445668889999999999999999999876


Q ss_pred             CC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          181 GK---KDVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       181 ~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      .+   .+...+..+...+...|+.++|..+++.+..
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       196 QQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            43   3556677788888899999999999887764

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=99.09  E-value=2.1e-09  Score=90.86  Aligned_cols=216  Identities=13%  Similarity=0.046  Sum_probs=124.1

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-ChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-NLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~  105 (258)
                      -+...+.+++|...+....... +....++..+...|...|  +++-|...+++..+  | -..+||.|..++-..|++.
T Consensus       261 V~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG--~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~  337 (966)
T KOG4626|consen  261 VYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYEQG--LLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVT  337 (966)
T ss_pred             HHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEEEeccc--cHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchH
Confidence            3334444444444444433322 222334555555555555  66666666655433  2 2356677777777777777


Q ss_pred             hHHHHHHHhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 038429          106 QSFMIFLQLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMI  180 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (258)
                      +|.+.|+....   ..|+ ..+.+.|-+.+...|.++.|.++|...    +.-...+|.|-..|...|++++|...+++.
T Consensus       338 ea~~cYnkaL~---l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykea  414 (966)
T KOG4626|consen  338 EAVDCYNKALR---LCPNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEA  414 (966)
T ss_pred             HHHHHHHHHHH---hCCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHH
Confidence            77777665522   1232 345666666677777777776666655    223345666777777777777777776665


Q ss_pred             CC--CC-hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCccc
Q 038429          181 GK--KD-VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-EVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMD  254 (258)
Q Consensus       181 ~~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  254 (258)
                      .+  |+ ...|+.+-..|-..|+.+.|..-+.+...  +.|. ...++.|-..|-..|++.+|.+-+++..+  ++||
T Consensus       415 lrI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPD  488 (966)
T KOG4626|consen  415 LRIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPD  488 (966)
T ss_pred             HhcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCC
Confidence            43  32 23566666666666666666666655544  3443 34566677777777777777777766643  3454

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

Probab=99.08  E-value=2.3e-09  Score=90.70  Aligned_cols=211  Identities=12%  Similarity=0.021  Sum_probs=138.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcc-hhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-ChhhHHHHHHHHhcCCCh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFD-PYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-NLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~  104 (258)
                      .+...|+...|.+-|.+.++..  |+ ...|-.|-..|...+  .++.|...+.+...  | ...+|..|...|-..|++
T Consensus       227 ~f~~~Gei~~aiq~y~eAvkld--P~f~dAYiNLGnV~ke~~--~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~l  302 (966)
T KOG4626|consen  227 VFNAQGEIWLAIQHYEEAVKLD--PNFLDAYINLGNVYKEAR--IFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLL  302 (966)
T ss_pred             HHhhcchHHHHHHHHHHhhcCC--CcchHHHhhHHHHHHHHh--cchHHHHHHHHHHhcCCcchhhccceEEEEeccccH
Confidence            4445566666666666665443  22 334555666666666  66666666554322  2 345566666666667777


Q ss_pred             hhHHHHHHHhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 038429          105 IQSFMIFLQLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVM  179 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~  179 (258)
                      +-|+..|++...   +.|+ ..+|+.|.+++-..|++.+|...+...    +......+.|-..|...|+++.|.++|..
T Consensus       303 dlAI~~Ykral~---~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~  379 (966)
T KOG4626|consen  303 DLAIDTYKRALE---LQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLK  379 (966)
T ss_pred             HHHHHHHHHHHh---cCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            777777766522   3344 456777777777777777777777766    44455677777777777777777777776


Q ss_pred             cCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          180 IGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE-VTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       180 m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      ...  | -...+|.|-..|-..|+.++|+.-+++...  |.|+. ..|+.+-+.|-..|+.+.|.+.+.+.+.
T Consensus       380 al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~  450 (966)
T KOG4626|consen  380 ALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQ  450 (966)
T ss_pred             HHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHh
Confidence            554  3 234677777778888888888887777654  66765 5677788888888888888777776653

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

Probab=99.06  E-value=5.2e-10  Score=97.65  Aligned_cols=87  Identities=13%  Similarity=0.092  Sum_probs=72.6

Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC----ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK----DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVV  226 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  226 (258)
                      .++..+|..+++.-.-.|+++.|..++.+|++.    +.+-|-.||-+   .+....++.+.+-|.+.|+.|+..|+.-.
T Consensus       201 ~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~ady  277 (1088)
T KOG4318|consen  201 APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADY  277 (1088)
T ss_pred             CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHH
Confidence            589999999999999999999999999999974    44444455544   88889999999999999999999999988


Q ss_pred             HHHHhccCChhHHH
Q 038429          227 LSACAKKRDLEFGI  240 (258)
Q Consensus       227 i~~~~~~g~~~~a~  240 (258)
                      +..+...|+...+.
T Consensus       278 vip~l~N~~t~~~~  291 (1088)
T KOG4318|consen  278 VIPQLSNGQTKYGE  291 (1088)
T ss_pred             HHhhhcchhhhhcc
Confidence            88888766654443

>PF12854 PPR_1: PPR repeat

Probab=99.06  E-value=1.7e-10  Score=60.82  Aligned_cols=34  Identities=15%  Similarity=0.241  Sum_probs=27.6

Q ss_pred             cCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          214 ENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       214 ~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .|+.||..||++||.+||+.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3678888888888888888888888888888773

>TIGR00540 hemY_coli hemY protein

Probab=99.06  E-value=1.9e-08  Score=85.11  Aligned_cols=216  Identities=10%  Similarity=-0.033  Sum_probs=130.8

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      ....+.|+.+.+.+.+....+..-.+.....-.....+...|  +++.|...++.+.+   .+...+..+...+.+.|++
T Consensus       126 ~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~--~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~  203 (409)
T TIGR00540       126 EAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQN--ELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAW  203 (409)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCC--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhH
Confidence            356677899999999988876542222233333466677788  99999999888764   3666788899999999999


Q ss_pred             hhHHHHHHHhHhcCCCCCCcch-------HHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHH
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFT-------LPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMA  173 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~-------~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a  173 (258)
                      ++|.+.+... .+.++.++...       +..++..-......+.....++..    +.+...+..+...+...|+.++|
T Consensus       204 ~~a~~~l~~l-~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A  282 (409)
T TIGR00540       204 QALDDIIDNM-AKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSA  282 (409)
T ss_pred             HHHHHHHHHH-HHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHH
Confidence            9999999988 66554322211       111111111111122233333333    13666777777777777777777


Q ss_pred             HHHHHhcCC--------------------------------------C-Ch--hhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          174 YCVFVMIGK--------------------------------------K-DV--VSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       174 ~~~~~~m~~--------------------------------------~-~~--~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      .+++++..+                                      | |.  ....++-..+.+.|++++|.+.|+...
T Consensus       283 ~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~  362 (409)
T TIGR00540       283 QEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVA  362 (409)
T ss_pred             HHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhH
Confidence            777665532                                      2 22  223344555556666666666666433


Q ss_pred             HcCCCCChhhHHHHHHHHhccCChhHHHHHHHHH
Q 038429          213 VENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       213 ~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      .....||...+.++...+.+.|+.++|.+++++-
T Consensus       363 a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       363 ACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3334566666666666666666666666666653

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=5.9e-08  Score=78.11  Aligned_cols=223  Identities=12%  Similarity=-0.029  Sum_probs=176.6

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccC---CCCChhhHHHHHHHHhcCCCh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQI---PQPNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m---~~~~~~~~~~li~~~~~~g~~  104 (258)
                      .+....|+.+.+-+...+..+..-.++..++-+........|  +.+.|..-+++.   ...+...-.....+|.+.|++
T Consensus       126 ~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~--d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~  203 (400)
T COG3071         126 EAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRR--DYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAW  203 (400)
T ss_pred             HHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCC--CchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccH
Confidence            356667777888877777776644666666666777777777  777776666544   346778889999999999999


Q ss_pred             hhHHHHHHHhHhcCCCCCCc-------chHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHH
Q 038429          105 IQSFMIFLQLVYNSPYFPNE-------FTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMA  173 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a  173 (258)
                      .....++..| .+.|.--++       .+|..++.-....+..+.-...|+..    ..++..-.+++.-+.++|+.++|
T Consensus       204 ~~ll~~l~~L-~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A  282 (400)
T COG3071         204 QALLAILPKL-RKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEA  282 (400)
T ss_pred             HHHHHHHHHH-HHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHH
Confidence            9999999999 777776554       36888888888888877777778777    56677788889999999999999


Q ss_pred             HHHHHhcCC---------------------------------C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC
Q 038429          174 YCVFVMIGK---------------------------------K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD  219 (258)
Q Consensus       174 ~~~~~~m~~---------------------------------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  219 (258)
                      .++..+..+                                 | +...+.+|-..|.+.+.|.+|...|+...+  .+|+
T Consensus       283 ~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s  360 (400)
T COG3071         283 QEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPS  360 (400)
T ss_pred             HHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCC
Confidence            998765431                                 2 556777888899999999999999996555  5799


Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCcccc
Q 038429          220 EVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDL  255 (258)
Q Consensus       220 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  255 (258)
                      ..+|+.+-.++.+.|+.++|.++.++....-.+|+.
T Consensus       361 ~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~~  396 (400)
T COG3071         361 ASDYAELADALDQLGEPEEAEQVRREALLLTRQPNL  396 (400)
T ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCCC
Confidence            999999999999999999999999987655555543

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.03  E-value=5.4e-09  Score=88.86  Aligned_cols=220  Identities=11%  Similarity=0.021  Sum_probs=167.4

Q ss_pred             CccCcccccchhhHHHHHHHHHhh-----cc-Ccchh-hhhhhhhhhhccCCCChHHHHHHhccCCC-----------CC
Q 038429           26 HQRHPHFLTNQKQLKRIHAQMLST-----DF-FFDPY-SASKLFTPCALSTFSSLEYARKMFDQIPQ-----------PN   87 (258)
Q Consensus        26 ~~~~~~~~~~~~~a~~~~~~m~~~-----~~-~~~~~-~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----------~~   87 (258)
                      +...|...|+++.|..++.+.++.     |. .|... ..+.+-..|...+  ++.+|..+|+++..           .-
T Consensus       205 La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~--k~~eAv~ly~~AL~i~e~~~G~~h~~v  282 (508)
T KOG1840|consen  205 LAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLG--KYDEAVNLYEEALTIREEVFGEDHPAV  282 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhc--cHHHHHHHHHHHHHHHHHhcCCCCHHH
Confidence            445888899999999999998876     31 22333 2345677788888  99999998887642           23


Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHhH----hcCCCC-CCc-chHHHHHHHhcCcCCcchhhhhhhcc-----------
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQLV----YNSPYF-PNE-FTLPFVIKAAARPVQFRVGQAIHGMF-----------  150 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m~----~~~~~~-p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~-----------  150 (258)
                      ..+++.|-..|.+.|++++|...++...    +..+.. |.+ ..++.+...++..+++++|..+++..           
T Consensus       283 a~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~  362 (508)
T KOG1840|consen  283 AATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGED  362 (508)
T ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcccc
Confidence            4568888889999999999988887642    112222 222 23677888899999999998888776           


Q ss_pred             c-CchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC-----------ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC--C
Q 038429          151 E-DDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK-----------DVVSWNSMISGFVEGGFFEKAIELYREMEVEN--V  216 (258)
Q Consensus       151 ~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~  216 (258)
                      . .-..+++.|-..|...|++++|.++|+...+.           ....++.|-..|.+.++..+|.++|.+-....  +
T Consensus       363 ~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~  442 (508)
T KOG1840|consen  363 NVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLC  442 (508)
T ss_pred             chHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHh
Confidence            2 22458999999999999999999999877531           24578889999999999999999998754321  2


Q ss_pred             CC---C-hhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          217 KP---D-EVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       217 ~p---~-~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .|   + ..+|..|...|.+.|+++.|.++.+.+.
T Consensus       443 g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  443 GPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             CCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            33   3 3579999999999999999999999775

>PRK12370 invasion protein regulator; Provisional

Probab=99.00  E-value=6.1e-08  Score=85.12  Aligned_cols=209  Identities=9%  Similarity=-0.077  Sum_probs=147.9

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhcc---C----CCChHHHHHHhccCCC---CChhhHHHHHHHHhcCC
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALS---T----FSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSD  102 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---~----~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g  102 (258)
                      .+++++|.+++++.++.. +-+...|..+..++...   |    .+++++|...+++..+   .+..+|..+...+...|
T Consensus       274 ~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        274 PYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcc
Confidence            356778888998888664 22344555554433311   1    1257889888887654   46778888888899999


Q ss_pred             ChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCc-hhHHHHHHHHHHhcCCHHHHHHHHH
Q 038429          103 EPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDD-LVISNSLIHFYAVCGDLAMAYCVFV  178 (258)
Q Consensus       103 ~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~-~~~~~~li~~~~~~g~~~~a~~~~~  178 (258)
                      ++++|...|++. .+.+ +.+...+..+..++...|++++|...++..   .|+ ...+..+...+...|++++|...++
T Consensus       353 ~~~~A~~~~~~A-l~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQA-NLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            999999999998 4432 334567888888999999999999999998   444 3344445556777899999999998


Q ss_pred             hcCC---C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhh-HHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          179 MIGK---K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVT-MVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       179 ~m~~---~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t-~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      +..+   | +...+..+-..+...|+.++|...++++...  .|+..+ .+.+...+...|  +.|...++.+.+
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            7642   4 3445677778888999999999999887554  355444 455555667777  477777776643

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.00  E-value=6.1e-08  Score=92.09  Aligned_cols=212  Identities=9%  Similarity=0.012  Sum_probs=143.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CCh---hhHHH----------
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNL---YTWNT----------   93 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~---~~~~~----------   93 (258)
                      .+...|++++|...++..++.. +.+...+..+..++.+.|  ++++|...|++..+  |+.   ..|..          
T Consensus       278 ~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g--~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        278 AAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQG--DRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            3445688899999999888765 346778888888888888  99999998887653  321   12222          


Q ss_pred             --HHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhc
Q 038429           94 --LIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVC  167 (258)
Q Consensus        94 --li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~  167 (258)
                        ....+.+.|++++|+..|++. .+.. +.+...+..+...+...|++++|+..++..    +.+...+..+...|. .
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~A-l~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~  431 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQA-RQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-Q  431 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-h
Confidence              234567888999999999888 4332 234556777888888899999999988887    344455666666553 3


Q ss_pred             CCHHHHHHHHHhcCCCC------------hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccC
Q 038429          168 GDLAMAYCVFVMIGKKD------------VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-EVTMVVVLSACAKKR  234 (258)
Q Consensus       168 g~~~~a~~~~~~m~~~~------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g  234 (258)
                      ++.++|...++.+....            ...+..+...+...|++++|++.|++..+.  .|+ ...+..+...|.+.|
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G  509 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAG  509 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            46677776666544211            122344555666777777777777776654  343 345566677777777


Q ss_pred             ChhHHHHHHHHHHH
Q 038429          235 DLEFGIWVSSHIEK  248 (258)
Q Consensus       235 ~~~~a~~~~~~m~~  248 (258)
                      ++++|...++++.+
T Consensus       510 ~~~~A~~~l~~al~  523 (1157)
T PRK11447        510 QRSQADALMRRLAQ  523 (1157)
T ss_pred             CHHHHHHHHHHHHH
Confidence            77777777777654

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

Probab=99.00  E-value=1.1e-08  Score=87.02  Aligned_cols=217  Identities=13%  Similarity=0.025  Sum_probs=130.3

Q ss_pred             cCCCccCcccccchhhHHHHHHHHHhhcc---------------------------------CcchhhhhhhhhhhhccC
Q 038429           23 NNGHQRHPHFLTNQKQLKRIHAQMLSTDF---------------------------------FFDPYSASKLFTPCALST   69 (258)
Q Consensus        23 ~~~~~~~~~~~~~~~~a~~~~~~m~~~~~---------------------------------~~~~~~~~~li~~~~~~~   69 (258)
                      +..+.+++-..++.+.++++|+.+.+...                                 +-++.+|-.+-++|+-.+
T Consensus       356 l~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSLQk  435 (638)
T KOG1126|consen  356 LSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSLQK  435 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhhhh
Confidence            33444566677888889999888876411                                 233445555555555555


Q ss_pred             CCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHH---HHHHhcCcCCcchh
Q 038429           70 FSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPF---VIKAAARPVQFRVG  143 (258)
Q Consensus        70 ~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~---ll~~~~~~~~~~~a  143 (258)
                        +.+.|.+.|++..+   ...++|+.+-.-+.....+|.|...|+..     +..|+..|++   +--.|.+.++++.|
T Consensus       436 --dh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~A-----l~~~~rhYnAwYGlG~vy~Kqek~e~A  508 (638)
T KOG1126|consen  436 --DHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKA-----LGVDPRHYNAWYGLGTVYLKQEKLEFA  508 (638)
T ss_pred             --HHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhh-----hcCCchhhHHHHhhhhheeccchhhHH
Confidence              55555555555443   23455555555555555555555555544     3344444443   33456666666666


Q ss_pred             hhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCC
Q 038429          144 QAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENV  216 (258)
Q Consensus       144 ~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  216 (258)
                      +--|+..    +.+.+.-..+...+-+.|+.|+|++++++...   .|+..--.....+...++.++|+..++++++  +
T Consensus       509 e~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~--~  586 (638)
T KOG1126|consen  509 EFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRYVEALQELEELKE--L  586 (638)
T ss_pred             HHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcchHHHHHHHHHHHH--h
Confidence            6666666    55556666666667777777777777765432   2444433344455566777777777777776  4


Q ss_pred             CCChh-hHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          217 KPDEV-TMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       217 ~p~~~-t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      .|+.. .|-.+.+.|.+.|+.+.|..-|.-+.+
T Consensus       587 vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~  619 (638)
T KOG1126|consen  587 VPQESSVFALLGKIYKRLGNTDLALLHFSWALD  619 (638)
T ss_pred             CcchHHHHHHHHHHHHHHccchHHHHhhHHHhc
Confidence            56554 466777778888888888776665543

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

Probab=98.98  E-value=1e-08  Score=87.13  Aligned_cols=208  Identities=11%  Similarity=0.035  Sum_probs=162.3

Q ss_pred             chhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-----------------------------
Q 038429           35 NQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----------------------------   85 (258)
Q Consensus        35 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----------------------------   85 (258)
                      +.++|..+|.... ..+.-+.++...+-.+|...+  ++++|+++|+...+                             
T Consensus       334 ~~~~A~~~~~klp-~h~~nt~wvl~q~GrayFEl~--~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~La  410 (638)
T KOG1126|consen  334 NCREALNLFEKLP-SHHYNTGWVLSQLGRAYFELI--EYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLA  410 (638)
T ss_pred             HHHHHHHHHHhhH-HhcCCchHHHHHHHHHHHHHH--HHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHH
Confidence            4556666676633 334556688888999999999  99999999986541                             


Q ss_pred             --------CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCC-CcchHHHHHHHhcCcCCcchhhhhhhcc-cCchh
Q 038429           86 --------PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFP-NEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLV  155 (258)
Q Consensus        86 --------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~  155 (258)
                              ..+.+|.++-++|.-.++.+.|++.|++. .+  +.| ...+|+.+-+-+.....+|.|...|+.. ..|..
T Consensus       411 q~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RA-iQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r  487 (638)
T KOG1126|consen  411 QDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRA-IQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR  487 (638)
T ss_pred             HHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHh-hc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch
Confidence                    34678999999999999999999999987 32  334 5678888888889999999999999988 55555


Q ss_pred             H---HHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 038429          156 I---SNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSA  229 (258)
Q Consensus       156 ~---~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  229 (258)
                      .   |..|-..|.|.++++.|+-.|+...+  | +.+....+...+-+.|+.++|++++++.....- -|...--.-...
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~i  566 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASI  566 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHH
Confidence            4   55667889999999999999998875  4 666777777788889999999999999876542 244444444556


Q ss_pred             HhccCChhHHHHHHHHHHHc
Q 038429          230 CAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       230 ~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +...++.++|.+.++++++.
T Consensus       567 l~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  567 LFSLGRYVEALQELEELKEL  586 (638)
T ss_pred             HHhhcchHHHHHHHHHHHHh
Confidence            66679999999999999764

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.95  E-value=5.6e-08  Score=89.67  Aligned_cols=210  Identities=7%  Similarity=-0.118  Sum_probs=162.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhh---HHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYT---WNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~li~~~~~~g~~~  105 (258)
                      .+...|++++|...+..+...  .|+...+..+..++.+.|  +.++|...+++..+.+...   +..+.....+.|+++
T Consensus       518 al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~G--d~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~  593 (987)
T PRK09782        518 QAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAG--NGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPE  593 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCC--CHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHH
Confidence            445789999999999987554  344455666777788888  9999999998776533322   333334444569999


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +|+..|++. .+.  .|+...+..+..++.+.|++++|...++..    +.+...++.+-..+...|+.++|...|+...
T Consensus       594 eAl~~~~~A-L~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL  670 (987)
T PRK09782        594 LALNDLTRS-LNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAH  670 (987)
T ss_pred             HHHHHHHHH-HHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999988 433  367788999999999999999999999988    5667788899999999999999999999775


Q ss_pred             C--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          182 K--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE-VTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       182 ~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      +  | +...+..+-.++...|++++|+..+++..+.  .|+. .+....-....+..+++.|.+-+...-
T Consensus       671 ~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l--~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~  738 (987)
T PRK09782        671 KGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDD--IDNQALITPLTPEQNQQRFNFRRLHEEVGRRW  738 (987)
T ss_pred             HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCchhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence            4  5 6678899999999999999999999998864  4654 444455555666667777776666543

>PF12854 PPR_1: PPR repeat

Probab=98.94  E-value=1.5e-09  Score=57.17  Aligned_cols=31  Identities=32%  Similarity=0.447  Sum_probs=19.2

Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      .||..|||+||++||+.|++++|.++|++|+
T Consensus         4 ~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    4 EPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4566666666666666666666666666653

>PRK12370 invasion protein regulator; Provisional

Probab=98.94  E-value=1e-07  Score=83.68  Aligned_cols=208  Identities=9%  Similarity=0.021  Sum_probs=150.5

Q ss_pred             cccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-ChhhHHHHHHHHhcCCChhhHH
Q 038429           32 FLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-NLYTWNTLIRAYSSSDEPIQSF  108 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~  108 (258)
                      ..++.++|...++..++.+ +-+...+..+-..+...|  ++++|...|++..+  | +...|..+...+...|++++|+
T Consensus       316 ~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g--~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi  392 (553)
T PRK12370        316 KQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS--EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEAL  392 (553)
T ss_pred             cchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            4456889999999998876 446778888888888889  99999999998654  3 4667888999999999999999


Q ss_pred             HHHHHhHhcCCCCCCc-chHHHHHHHhcCcCCcchhhhhhhcc----cCc-hhHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 038429          109 MIFLQLVYNSPYFPNE-FTLPFVIKAAARPVQFRVGQAIHGMF----EDD-LVISNSLIHFYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       109 ~~~~~m~~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (258)
                      ..+++. .+.+  |+. ..+..+...+...|++++|...++..    +|+ ...+..+-.+|...|+.++|...+.+...
T Consensus       393 ~~~~~A-l~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~  469 (553)
T PRK12370        393 QTINEC-LKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEIST  469 (553)
T ss_pred             HHHHHH-HhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhh
Confidence            999998 4332  332 23334444566678999999988776    343 44577788889999999999999988764


Q ss_pred             --CC-hhhHHHHHHHHHcCCChHHHHHHHHHHHHc-CCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          183 --KD-VVSWNSMISGFVEGGFFEKAIELYREMEVE-NVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       183 --~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                        |+ ....+.+-..|...|  ++|...++.+.+. ...|....+..++.++  .|+-+.+... +++.+.|
T Consensus       470 ~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~--~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        470 QEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGLLPLVLVA--HGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             ccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchHHHHHHHH--HhhhHHHHHH-HHhhccc
Confidence              33 334455555667777  5788878777654 3444444455555544  5666666555 7777655

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.89  E-value=2.3e-07  Score=84.59  Aligned_cols=145  Identities=6%  Similarity=-0.096  Sum_probs=87.4

Q ss_pred             ccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCC---CCChhhHHHHHHHHhcCCC
Q 038429           27 QRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIP---QPNLYTWNTLIRAYSSSDE  103 (258)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~g~  103 (258)
                      .......|+.++|.+++....... ..+...+..+...+.+.|  ++++|..++++..   ..+...+..+...+...|+
T Consensus        22 ~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g--~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~   98 (765)
T PRK10049         22 LQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLK--QWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQ   98 (765)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC
Confidence            335556677777777777666532 333445666777777777  7777777777632   2345556667777777777


Q ss_pred             hhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHH
Q 038429          104 PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVF  177 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~  177 (258)
                      +++|+..+++. .+. .+.+.. +..+..++...|+.++|...++..    +.+...+..+...+.+.|..++|.+.+
T Consensus        99 ~~eA~~~l~~~-l~~-~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l  173 (765)
T PRK10049         99 YDEALVKAKQL-VSG-APDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAI  173 (765)
T ss_pred             HHHHHHHHHHH-HHh-CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHH
Confidence            77777777776 322 122333 666666677777777777777666    333444455555555555544444333

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

Probab=98.82  E-value=2.9e-07  Score=75.70  Aligned_cols=159  Identities=13%  Similarity=0.021  Sum_probs=134.8

Q ss_pred             ChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHH
Q 038429           87 NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIH  162 (258)
Q Consensus        87 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~  162 (258)
                      -+.|+..+.+-|+-.++.++|...|++. .+-+ +-...+|+.+-+-|....+...|..-++..    +.|-..|-.|-.
T Consensus       329 R~ETCCiIaNYYSlr~eHEKAv~YFkRA-LkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQ  406 (559)
T KOG1155|consen  329 RPETCCIIANYYSLRSEHEKAVMYFKRA-LKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQ  406 (559)
T ss_pred             CccceeeehhHHHHHHhHHHHHHHHHHH-HhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhH
Confidence            4556677777888888999999999988 4332 223567899999999999999999998888    778889999999


Q ss_pred             HHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHH
Q 038429          163 FYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFG  239 (258)
Q Consensus       163 ~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a  239 (258)
                      +|.-.++..-|+-.|++..+  | |...|.+|-..|.+.++.++|+.-|.+....|- .+...+..|-+.+-+.++.++|
T Consensus       407 aYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~eA  485 (559)
T KOG1155|consen  407 AYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNEA  485 (559)
T ss_pred             HHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHHH
Confidence            99999999999999987654  4 889999999999999999999999999887653 2557899999999999999999


Q ss_pred             HHHHHHHHH
Q 038429          240 IWVSSHIEK  248 (258)
Q Consensus       240 ~~~~~~m~~  248 (258)
                      .+.+..-++
T Consensus       486 a~~yek~v~  494 (559)
T KOG1155|consen  486 AQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHH
Confidence            998886654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.81  E-value=1.2e-06  Score=79.48  Aligned_cols=148  Identities=7%  Similarity=-0.092  Sum_probs=95.3

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCC-hhhHHHH--HHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPN-LYTWNTL--IRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~l--i~~~~~~g~~~  105 (258)
                      ...+.|+.+.|.+.+.+..+....-.+.++ .++..+...|  +.++|...+++...|+ ...+..+  ...+...|+++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G--~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAG--RDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcC--CcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHH
Confidence            455678888888888888776533222344 7777777778  8888888888776553 3333333  45677778888


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +|+++|+++.+..  +-+...+..++..+...++.++|...++.+   .|+...+-.++..+...++..+|.+.++++.
T Consensus       120 ~Aiely~kaL~~d--P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll  196 (822)
T PRK14574        120 QALALWQSSLKKD--PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAV  196 (822)
T ss_pred             HHHHHHHHHHhhC--CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            8888888883322  223455667777778888888888887777   4554444333333333445545666666653

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.81  E-value=1.3e-06  Score=79.72  Aligned_cols=209  Identities=10%  Similarity=0.006  Sum_probs=152.9

Q ss_pred             hhHHHHHHHHHhh-ccCcchh-hhh----hhhhhhhccCCCChHHHHHHhccCCCCC---h-hhHHHHHHHHhcCCChhh
Q 038429           37 KQLKRIHAQMLST-DFFFDPY-SAS----KLFTPCALSTFSSLEYARKMFDQIPQPN---L-YTWNTLIRAYSSSDEPIQ  106 (258)
Q Consensus        37 ~~a~~~~~~m~~~-~~~~~~~-~~~----~li~~~~~~~~~~~~~a~~~~~~m~~~~---~-~~~~~li~~~~~~g~~~~  106 (258)
                      ++|...++.+.+. .-.|+.. .+.    ..+..+...+  +.++|...|+.+.+.+   + ..-..+...|...|++++
T Consensus       213 d~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g--~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~  290 (765)
T PRK10049        213 DRALAQYDALEALWHDNPDATADYQRARIDRLGALLARD--RYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEK  290 (765)
T ss_pred             HHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhh--hHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHH
Confidence            6778888888754 2233221 111    1123445667  9999999999987532   1 122235778999999999


Q ss_pred             HHHHHHHhHhcCCCCC--CcchHHHHHHHhcCcCCcchhhhhhhcc---cC-------------c---hhHHHHHHHHHH
Q 038429          107 SFMIFLQLVYNSPYFP--NEFTLPFVIKAAARPVQFRVGQAIHGMF---ED-------------D---LVISNSLIHFYA  165 (258)
Q Consensus       107 a~~~~~~m~~~~~~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~-------------~---~~~~~~li~~~~  165 (258)
                      |+..|+.........+  .......+..++...|++++|...++.+   .|             +   ...+..+...+.
T Consensus       291 A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~  370 (765)
T PRK10049        291 AQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAK  370 (765)
T ss_pred             HHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHH
Confidence            9999999833221111  1234666777889999999999998888   22             1   124456778889


Q ss_pred             hcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHhccCChhHHHH
Q 038429          166 VCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE-VTMVVVLSACAKKRDLEFGIW  241 (258)
Q Consensus       166 ~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~~~~a~~  241 (258)
                      ..|+.++|+++++++..  | +...+..+...+...|+.++|+..+++..+.  .||. ..+......+.+.|++++|..
T Consensus       371 ~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~  448 (765)
T PRK10049        371 YSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDV  448 (765)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHH
Confidence            99999999999998764  4 6678889999999999999999999988774  4764 556666778889999999999


Q ss_pred             HHHHHHHc
Q 038429          242 VSSHIEKN  249 (258)
Q Consensus       242 ~~~~m~~~  249 (258)
                      +++++.+.
T Consensus       449 ~~~~ll~~  456 (765)
T PRK10049        449 LTDDVVAR  456 (765)
T ss_pred             HHHHHHHh
Confidence            99999864

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

Probab=98.79  E-value=1.1e-06  Score=72.37  Aligned_cols=199  Identities=14%  Similarity=0.097  Sum_probs=163.2

Q ss_pred             cccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHH
Q 038429           32 FLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSF  108 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~  108 (258)
                      -.|+++.|...+.+.+...-..+...||.=+. +-+.|  ++++|+..|-.+..   .+....-.+.+.|-...++..|+
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfniglt-~e~~~--~ldeald~f~klh~il~nn~evl~qianiye~led~aqai  578 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGLT-AEALG--NLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAI  578 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhccc-HHHhc--CHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHH
Confidence            35899999999999998776666666766554 44567  99999999977643   67777788888888888999999


Q ss_pred             HHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHh--cCC
Q 038429          109 MIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVM--IGK  182 (258)
Q Consensus       109 ~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~--m~~  182 (258)
                      +++.+.  ..-++-|+...+.|...|-+.|+-..|.+.+-.-    +.+..+..-|-..|....-++++...|+.  +.+
T Consensus       579 e~~~q~--~slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliq  656 (840)
T KOG2003|consen  579 ELLMQA--NSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQ  656 (840)
T ss_pred             HHHHHh--cccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcC
Confidence            998665  2335667888999999999999999998876554    88999999999999999999999999985  468


Q ss_pred             CChhhHHHHHHHH-HcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCh
Q 038429          183 KDVVSWNSMISGF-VEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDL  236 (258)
Q Consensus       183 ~~~~~~~~li~~~-~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~  236 (258)
                      |+..-|..+|..| .+.|++.+|.++++..... ++-|......|++.|...|--
T Consensus       657 p~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  657 PNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             ccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccch
Confidence            9999999999766 6789999999999987654 777888889999998877743

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.74  E-value=2e-08  Score=53.37  Aligned_cols=33  Identities=36%  Similarity=0.788  Sum_probs=20.1

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC
Q 038429          187 SWNSMISGFVEGGFFEKAIELYREMEVENVKPD  219 (258)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  219 (258)
                      +||++|.+|++.|++++|.++|++|.+.|++||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            456666666666666666666666666666555

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.

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

Probab=98.73  E-value=9.1e-07  Score=69.72  Aligned_cols=212  Identities=13%  Similarity=0.026  Sum_probs=135.2

Q ss_pred             cchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-CChh------hHHHHHHHHhcCCChhh
Q 038429           34 TNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-PNLY------TWNTLIRAYSSSDEPIQ  106 (258)
Q Consensus        34 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-~~~~------~~~~li~~~~~~g~~~~  106 (258)
                      ++.++|.++|-+|.+.. +-+..+--+|-+.|-+.|  ..+.|.++...+.+ ||..      +--.|..-|-..|-++.
T Consensus        49 ~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRG--EvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          49 NQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRG--EVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             cCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcc--hHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            56778888888888743 223344445666677777  88888888776654 4322      23345566667778888


Q ss_pred             HHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-cCchhH--------HHHHHHHHHhcCCHHHHHHHH
Q 038429          107 SFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLVI--------SNSLIHFYAVCGDLAMAYCVF  177 (258)
Q Consensus       107 a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~--------~~~li~~~~~~g~~~~a~~~~  177 (258)
                      |..+|..+ .+.+. --..+.-.|+..|-...+|++|..+-+.+ ..+...        |+-|...+.-..+++.|..++
T Consensus       126 AE~~f~~L-~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         126 AEDIFNQL-VDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHH-hcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            88888877 43221 12335667778888888888887777766 222222        333334444456777777777


Q ss_pred             HhcCCCCh---hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          178 VMIGKKDV---VSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       178 ~~m~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      ++..+.|.   ..--.+-..+...|+++.|.+.|+...+.+...-..+...|..+|.+.|+.++....+..+.+..
T Consensus       204 ~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~  279 (389)
T COG2956         204 KKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN  279 (389)
T ss_pred             HHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            76654222   22223335567778888888888887776544445567777888888888888887777776543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.70  E-value=1.8e-06  Score=78.40  Aligned_cols=231  Identities=10%  Similarity=-0.006  Sum_probs=151.6

Q ss_pred             CCCCceeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhH
Q 038429           14 HPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTW   91 (258)
Q Consensus        14 ~p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~   91 (258)
                      .|+...+..+..+...+...|+++.|.++++.+.+.. +-++..+..++..+...+  +.++|...++...+  |+...+
T Consensus        96 ~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~--q~~eAl~~l~~l~~~dp~~~~~  172 (822)
T PRK14574         96 SSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAG--RGGVVLKQATELAERDPTVQNY  172 (822)
T ss_pred             cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcC--CHHHHHHHHHHhcccCcchHHH
Confidence            3444444444443446667788899999999988876 334667777788888888  89999998888876  454444


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhh-----------------------
Q 038429           92 NTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHG-----------------------  148 (258)
Q Consensus        92 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~-----------------------  148 (258)
                      -.++..+...++..+|+..++++ .+.. +-+...+..+..++.+.|-...|.++..                       
T Consensus       173 l~layL~~~~~~~~~AL~~~ekl-l~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~v  250 (822)
T PRK14574        173 MTLSYLNRATDRNYDALQASSEA-VRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQV  250 (822)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHH
Confidence            33333333345555688888888 3332 2234455566665555554332222211                       


Q ss_pred             ----------------------cc---------cCchh-HH----HHHHHHHHhcCCHHHHHHHHHhcCCC----ChhhH
Q 038429          149 ----------------------MF---------EDDLV-IS----NSLIHFYAVCGDLAMAYCVFVMIGKK----DVVSW  188 (258)
Q Consensus       149 ----------------------~~---------~~~~~-~~----~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~~  188 (258)
                                            .+         .|... .|    -=.+-++.+.|++.++++.|+.++.+    ...+-
T Consensus       251 r~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~  330 (822)
T PRK14574        251 RMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYAR  330 (822)
T ss_pred             hhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHH
Confidence                                  11         12111 11    12345666778899999999988854    23455


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHHHcC-----CCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          189 NSMISGFVEGGFFEKAIELYREMEVEN-----VKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       189 ~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ..+..+|...++.++|+.+++......     ..++......|.-++...+++++|..+++.+.+.
T Consensus       331 ~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~  396 (822)
T PRK14574        331 RWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQ  396 (822)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhc
Confidence            578899999999999999999986642     1223344578899999999999999999999863

>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=98.69  E-value=1.2e-06  Score=70.35  Aligned_cols=186  Identities=8%  Similarity=-0.001  Sum_probs=93.5

Q ss_pred             hhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCC-CCcchHHHHHHHhc
Q 038429           57 SASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYF-PNEFTLPFVIKAAA  135 (258)
Q Consensus        57 ~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-p~~~~~~~ll~~~~  135 (258)
                      ..-.+.+++...|  ..+.+..-...-..|.......+...+...++-+.++.-+++. ...... .+..........+.
T Consensus        37 ~~~~~~Rs~iAlg--~~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~~l~~l~~~-~~~~~~~~~~~~~~~~A~i~~  113 (290)
T PF04733_consen   37 RDFYQYRSYIALG--QYDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKESALEELKEL-LADQAGESNEIVQLLAATILF  113 (290)
T ss_dssp             HHHHHHHHHHHTT---HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHCHHHHHHHC-CCTS---CHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcC--ChhHHHHHhccCCChhHHHHHHHHHHHhCccchHHHHHHHHHH-HHhccccccHHHHHHHHHHHH
Confidence            3344555555566  6655554444444455555544444443333444444444433 222222 12222222223455


Q ss_pred             CcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC-ChhhHHHHHHHH----HcCCChHHHHHHHHH
Q 038429          136 RPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK-DVVSWNSMISGF----VEGGFFEKAIELYRE  210 (258)
Q Consensus       136 ~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~li~~~----~~~g~~~~a~~~~~~  210 (258)
                      ..|++++|.+++... .+.......+..|.+.++++.|.+.++.|++- +-.+...+..++    ...+.+.+|..+|++
T Consensus       114 ~~~~~~~AL~~l~~~-~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~E  192 (290)
T PF04733_consen  114 HEGDYEEALKLLHKG-GSLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEE  192 (290)
T ss_dssp             CCCHHHHHHCCCTTT-TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHcc-CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            666677666666655 33444455666677777777777777766652 222333333332    223356677777777


Q ss_pred             HHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          211 MEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       211 m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      +.+. +.++..+.+.+..+....|++++|.+++.+..
T Consensus       193 l~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al  228 (290)
T PF04733_consen  193 LSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEAL  228 (290)
T ss_dssp             HHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHC
T ss_pred             HHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            5443 45566666666666667777777776666643

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=98.69  E-value=3.2e-08  Score=52.55  Aligned_cols=35  Identities=20%  Similarity=0.256  Sum_probs=33.3

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHHcCCcccc
Q 038429          221 VTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDL  255 (258)
Q Consensus       221 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  255 (258)
                      .+|+++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999985

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.68  E-value=3.7e-06  Score=68.05  Aligned_cols=213  Identities=12%  Similarity=-0.047  Sum_probs=147.7

Q ss_pred             ccccchhhHHHHHHHHHhhc-cCcc--hhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           31 HFLTNQKQLKRIHAQMLSTD-FFFD--PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~~~~-~~~~--~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      ...+..+.+..-+.+++... ..|+  ...|..+-..+...|  +.+.|...|++..+   .+...|+.+...+...|++
T Consensus        37 ~~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g--~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~  114 (296)
T PRK11189         37 QPTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLG--LRALARNDFSQALALRPDMADAYNYLGIYLTQAGNF  114 (296)
T ss_pred             CCchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCH
Confidence            33456777778888887543 2222  345777777888889  99999999987653   4678899999999999999


Q ss_pred             hhHHHHHHHhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 038429          105 IQSFMIFLQLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMI  180 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (258)
                      ++|...|+.. .+  +.|+ ..+|..+..++...|++++|...++..   .|+..........+...++.++|.+.|...
T Consensus       115 ~~A~~~~~~A-l~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~  191 (296)
T PRK11189        115 DAAYEAFDSV-LE--LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPYRALWLYLAESKLDPKQAKENLKQR  191 (296)
T ss_pred             HHHHHHHHHH-HH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            9999999988 33  2344 567788888889999999999999888   444332222233345678899999999654


Q ss_pred             CCC-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc-C----CCC-ChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          181 GKK-DVVSWNSMISGFVEGGFFEKAIELYREMEVE-N----VKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       181 ~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~----~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      ... +...|..-+ .....|+..++ ..+..+.+. .    +.| ....|..+...+.+.|++++|...|++..+.+
T Consensus       192 ~~~~~~~~~~~~~-~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        192 YEKLDKEQWGWNI-VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             HhhCCccccHHHH-HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            332 222333222 22334555544 355555432 1    112 23578899999999999999999999988655

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

Probab=98.67  E-value=1.3e-06  Score=68.90  Aligned_cols=197  Identities=12%  Similarity=0.056  Sum_probs=144.4

Q ss_pred             CCCceeeecCCCccCcccccchhhHHHHHHHHHhhc-cCcc--hhhhhhhhhhhhccCCCChHHHHHHhccCCC---CCh
Q 038429           15 PNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTD-FFFD--PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNL   88 (258)
Q Consensus        15 p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~-~~~~--~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~   88 (258)
                      -|+.|+..-+.+...+.+.|..++|.++|..+..+. ..-+  ....-.|-.=|..+|  -++.|+.+|..+..   .-.
T Consensus        64 ~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aG--l~DRAE~~f~~L~de~efa~  141 (389)
T COG2956          64 EDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAG--LLDRAEDIFNQLVDEGEFAE  141 (389)
T ss_pred             cCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhh--hhhHHHHHHHHHhcchhhhH
Confidence            455566665555668889999999999999888652 2111  123445667788889  99999999998865   234


Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcc----hHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHH
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEF----TLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSL  160 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~l  160 (258)
                      .+...|+..|-+..+|++|+++-++. .+.+-.+...    -|--+...+....+++.|...+...    +..+..--.+
T Consensus       142 ~AlqqLl~IYQ~treW~KAId~A~~L-~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~l  220 (389)
T COG2956         142 GALQQLLNIYQATREWEKAIDVAERL-VKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIIL  220 (389)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH-HHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhh
Confidence            56788999999999999999999988 4443333221    2334444555567788888888877    3344455556


Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCCCh----hhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          161 IHFYAVCGDLAMAYCVFVMIGKKDV----VSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      -+.+...|++++|.+.++...+.|.    .+...|..+|...|+.++....+.++.+.
T Consensus       221 G~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~  278 (389)
T COG2956         221 GRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET  278 (389)
T ss_pred             hHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            6788899999999999998877544    46778889999999999998888877554

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.65  E-value=5.3e-08  Score=51.38  Aligned_cols=33  Identities=27%  Similarity=0.558  Sum_probs=17.8

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC
Q 038429          186 VSWNSMISGFVEGGFFEKAIELYREMEVENVKP  218 (258)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  218 (258)
                      .+||.+|.+|++.|+++.|.++|++|++.|++|
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            345555555555555555555555555555544

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.58  E-value=9.8e-08  Score=50.34  Aligned_cols=33  Identities=27%  Similarity=0.418  Sum_probs=32.0

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHHcCCcc
Q 038429          221 VTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKM  253 (258)
Q Consensus       221 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  253 (258)
                      .||+.++++|++.|+++.|.++|++|++.|++|
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            689999999999999999999999999999988

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

Probab=98.56  E-value=2.3e-06  Score=70.53  Aligned_cols=207  Identities=12%  Similarity=0.068  Sum_probs=155.7

Q ss_pred             cchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC------CChhhHHHHHHHHhcCCCh-hh
Q 038429           34 TNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ------PNLYTWNTLIRAYSSSDEP-IQ  106 (258)
Q Consensus        34 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~------~~~~~~~~li~~~~~~g~~-~~  106 (258)
                      ...+++.+=.......|+..+...-+....+.....  |++.|+.+|++..+      .|..+|+.++-.-.....+ --
T Consensus       241 ~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~r--DfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~L  318 (559)
T KOG1155|consen  241 HQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQR--DFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYL  318 (559)
T ss_pred             HHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhh--hHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHH
Confidence            344555555556666676666665555555556666  99999999998865      4667788776544332211 11


Q ss_pred             HHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 038429          107 SFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       107 a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (258)
                      |..+++    -....  +.|.-++.+.|.-.++.++|...|+..    +.....|+.+-+-|....+...|.+-++...+
T Consensus       319 A~~v~~----idKyR--~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd  392 (559)
T KOG1155|consen  319 AQNVSN----IDKYR--PETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD  392 (559)
T ss_pred             HHHHHH----hccCC--ccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHh
Confidence            222221    11222  356777788888888999999999988    56667999999999999999999999998765


Q ss_pred             ---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          183 ---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       183 ---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                         .|-..|-.|-.+|.-.+...-|+-+|++..+  ++| |...|.+|.++|.+.++.++|...|......|
T Consensus       393 i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~  462 (559)
T KOG1155|consen  393 INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG  462 (559)
T ss_pred             cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc
Confidence               3777899999999999999999999998776  566 66899999999999999999999999887655

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.55  E-value=6e-06  Score=69.72  Aligned_cols=179  Identities=11%  Similarity=-0.012  Sum_probs=138.7

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchh-------hhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHH
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPY-------SASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRA   97 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-------~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~   97 (258)
                      ..+.+.|+++.+..++..+.+.+..++..       .|..++.......  +.+...++++..++   .+......+...
T Consensus       195 ~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~--~~~~l~~~w~~lp~~~~~~~~~~~~~A~~  272 (398)
T PRK10747        195 QAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQ--GSEGLKRWWKNQSRKTRHQVALQVAMAEH  272 (398)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhc--CHHHHHHHHHhCCHHHhCCHHHHHHHHHH
Confidence            36677799999999999999887653331       2333444444445  67777888887764   577888999999


Q ss_pred             HhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHH
Q 038429           98 YSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMA  173 (258)
Q Consensus        98 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a  173 (258)
                      +...|+.++|..++++. .+.  +|+..  -.++.+....++.+.+....+..    +.|.....++-..+.+.|++++|
T Consensus       273 l~~~g~~~~A~~~L~~~-l~~--~~~~~--l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A  347 (398)
T PRK10747        273 LIECDDHDTAQQIILDG-LKR--QYDER--LVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEA  347 (398)
T ss_pred             HHHCCCHHHHHHHHHHH-Hhc--CCCHH--HHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999888 442  44442  22345555668888888887777    55666788999999999999999


Q ss_pred             HHHHHhcCC--CChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          174 YCVFVMIGK--KDVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       174 ~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      .+.|+...+  |+..+|..+-..+.+.|+.++|..++++-..
T Consensus       348 ~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        348 SLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999998754  8888999999999999999999999987643

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

Probab=98.53  E-value=6.6e-06  Score=67.88  Aligned_cols=172  Identities=13%  Similarity=0.187  Sum_probs=115.9

Q ss_pred             ChHHHHHHhccCCCCChhhHHHHH---HHHhcCCChhhHHHHHHHhHhcCCC-CCCcchHHHHHHHhcCcCCcchhhhhh
Q 038429           72 SLEYARKMFDQIPQPNLYTWNTLI---RAYSSSDEPIQSFMIFLQLVYNSPY-FPNEFTLPFVIKAAARPVQFRVGQAIH  147 (258)
Q Consensus        72 ~~~~a~~~~~~m~~~~~~~~~~li---~~~~~~g~~~~a~~~~~~m~~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~  147 (258)
                      ++++|.+.+++....|...-.+|.   -.+-..|++++|++.|-.+ .  ++ .-+..+...+.+.|-...+...|.+++
T Consensus       505 d~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~kl-h--~il~nn~evl~qianiye~led~aqaie~~  581 (840)
T KOG2003|consen  505 DLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKL-H--AILLNNAEVLVQIANIYELLEDPAQAIELL  581 (840)
T ss_pred             cHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHH-H--HHHHhhHHHHHHHHHHHHHhhCHHHHHHHH
Confidence            455555555544433332222222   2234456666666666443 1  11 223445555556666666666666665


Q ss_pred             hcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh
Q 038429          148 GMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE  220 (258)
Q Consensus       148 ~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  220 (258)
                      ...    +.|..+..-|-..|-+.|+-..|.+..-.--+  | |+.|..-|-.-|....-+++++.+|++..-  +.|+.
T Consensus       582 ~q~~slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~  659 (840)
T KOG2003|consen  582 MQANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQ  659 (840)
T ss_pred             HHhcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccH
Confidence            555    66777888888888888888888776654433  3 788888888888999999999999988543  78999


Q ss_pred             hhHHHHHHHHh-ccCChhHHHHHHHHHHH
Q 038429          221 VTMVVVLSACA-KKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       221 ~t~~~li~~~~-~~g~~~~a~~~~~~m~~  248 (258)
                      .-|..+|..|. +.|++++|.++++...+
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            99999998875 57999999999998754

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.49  E-value=1.5e-05  Score=64.57  Aligned_cols=190  Identities=12%  Similarity=-0.018  Sum_probs=132.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+.+.|+.+.|...|....+.. +.++..|+.+-..+...|  ++++|...|++..+   .+..+|..+...+...|+++
T Consensus        73 ~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g--~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~  149 (296)
T PRK11189         73 LYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAG--NFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYE  149 (296)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHH
Confidence            4456788899999999988876 446789999999999999  99999999997754   35678899999999999999


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc--cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC--
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF--EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG--  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~--  181 (258)
                      +|++.|+.. .+.  .|+..........+...+++++|...+...  ..+...|. ........|+.+.+ +.+..+.  
T Consensus       150 eA~~~~~~a-l~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~~~~-~~~~~~~lg~~~~~-~~~~~~~~~  224 (296)
T PRK11189        150 LAQDDLLAF-YQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKEQWG-WNIVEFYLGKISEE-TLMERLKAG  224 (296)
T ss_pred             HHHHHHHHH-HHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCccccH-HHHHHHHccCCCHH-HHHHHHHhc
Confidence            999999988 332  344322222233344567899999888655  21222222 12223335555443 2333322  


Q ss_pred             -C-------CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 038429          182 -K-------KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVL  227 (258)
Q Consensus       182 -~-------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li  227 (258)
                       +       .....|..+-..+...|+.++|...|++..+.+ .||..-+...+
T Consensus       225 ~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e~~~~~  277 (296)
T PRK11189        225 ATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVEHRYAL  277 (296)
T ss_pred             CCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHHHHHHH
Confidence             1       134578899999999999999999999988764 34655554433

>TIGR00540 hemY_coli hemY protein

Probab=98.47  E-value=1.7e-05  Score=67.27  Aligned_cols=180  Identities=12%  Similarity=0.059  Sum_probs=128.2

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhh-------hhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHH
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYS-------ASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRA   97 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-------~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~   97 (258)
                      ..+...|+++.+.+++..+.+.+..+....       +..++..-....  ..+.....++..+.   .+...+..+...
T Consensus       195 ~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~--~~~~L~~~~~~~p~~~~~~~~l~~~~a~~  272 (409)
T TIGR00540       195 EAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADE--GIDGLLNWWKNQPRHRRHNIALKIALAEH  272 (409)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhc--CHHHHHHHHHHCCHHHhCCHHHHHHHHHH
Confidence            367788999999999999998875433322       111121112222  44566666666653   488889999999


Q ss_pred             HhcCCChhhHHHHHHHhHhcCCCCCCcch---HHHHHHHhcCcCCcchhhhhhhcc----cCch--hHHHHHHHHHHhcC
Q 038429           98 YSSSDEPIQSFMIFLQLVYNSPYFPNEFT---LPFVIKAAARPVQFRVGQAIHGMF----EDDL--VISNSLIHFYAVCG  168 (258)
Q Consensus        98 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~---~~~ll~~~~~~~~~~~a~~~~~~~----~~~~--~~~~~li~~~~~~g  168 (258)
                      +...|+.++|..++++..+ .  .||...   .....-.....++.+.+...++..    +.|.  ....++-..+.+.|
T Consensus       273 l~~~g~~~~A~~~l~~~l~-~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~  349 (409)
T TIGR00540       273 LIDCDDHDSAQEIIFDGLK-K--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHG  349 (409)
T ss_pred             HHHCCChHHHHHHHHHHHh-h--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcc
Confidence            9999999999999999833 2  244332   122222233456667777776665    3444  56668889999999


Q ss_pred             CHHHHHHHHH--hc--CCCChhhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          169 DLAMAYCVFV--MI--GKKDVVSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       169 ~~~~a~~~~~--~m--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      ++++|.+.|+  ..  ..|+...+..+...+.+.|+.++|.++|++-.
T Consensus       350 ~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       350 EFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             cHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999999  45  35888889999999999999999999998753

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.44  E-value=4.7e-06  Score=71.24  Aligned_cols=191  Identities=12%  Similarity=0.056  Sum_probs=143.5

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC----------CChhh-HHHHHHHHhcCCChhhHHHHHHHhHh--cCCCC
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ----------PNLYT-WNTLIRAYSSSDEPIQSFMIFLQLVY--NSPYF  121 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~----------~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~--~~~~~  121 (258)
                      ..+...|...|...|  +++.|..++++..+          +.+.+ .+.+...|...+++++|..+|+++..  +...-
T Consensus       199 ~~~~~~La~~y~~~g--~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G  276 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQG--RLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFG  276 (508)
T ss_pred             HHHHHHHHHHHHHhc--cHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcC
Confidence            346677999999999  99999999876532          34433 33477788899999999999998842  11112


Q ss_pred             CC----cchHHHHHHHhcCcCCcchhhhhhhcc-----------cCchh-HHHHHHHHHHhcCCHHHHHHHHHhcCC---
Q 038429          122 PN----EFTLPFVIKAAARPVQFRVGQAIHGMF-----------EDDLV-ISNSLIHFYAVCGDLAMAYCVFVMIGK---  182 (258)
Q Consensus       122 p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~-----------~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~---  182 (258)
                      ++    ..+++.|-.+|.+.|++++|+..++..           .|.+. -.+.+...|+..+++++|..+++...+   
T Consensus       277 ~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~  356 (508)
T KOG1840|consen  277 EDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYL  356 (508)
T ss_pred             CCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHH
Confidence            22    345777777899999999988777666           34443 466777888899999999998875432   


Q ss_pred             ----C-C---hhhHHHHHHHHHcCCChHHHHHHHHHHHHc----CC--CCC-hhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          183 ----K-D---VVSWNSMISGFVEGGFFEKAIELYREMEVE----NV--KPD-EVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       183 ----~-~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~--~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                          + +   ..+++.|-..|-..|++++|++++++....    +-  .+. ...++.|-..|.+.++.++|.++|.+-.
T Consensus       357 ~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~  436 (508)
T KOG1840|consen  357 DAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAK  436 (508)
T ss_pred             hhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHH
Confidence                2 2   358999999999999999999999987543    12  222 4568899999999999999999998753

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

Probab=98.44  E-value=3.2e-07  Score=47.15  Aligned_cols=29  Identities=41%  Similarity=0.786  Sum_probs=15.8

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHcC
Q 038429          187 SWNSMISGFVEGGFFEKAIELYREMEVEN  215 (258)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~  215 (258)
                      |||.+|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555544

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

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

Probab=98.40  E-value=4.9e-05  Score=57.44  Aligned_cols=185  Identities=8%  Similarity=-0.071  Sum_probs=147.7

Q ss_pred             hhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCC-CcchHHHHHHH
Q 038429           58 ASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFP-NEFTLPFVIKA  133 (258)
Q Consensus        58 ~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~ll~~  133 (258)
                      .-.|--.|...|  +...|..-+++..+   .+..+|..+...|-+.|+.+.|.+.|+...+   +.| +..+.|..---
T Consensus        38 rlqLal~YL~~g--d~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls---l~p~~GdVLNNYG~F  112 (250)
T COG3063          38 RLQLALGYLQQG--DYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALS---LAPNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHCC--CHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh---cCCCccchhhhhhHH
Confidence            445666778888  99999888887765   3456788899999999999999999987632   233 34566777777


Q ss_pred             hcCcCCcchhhhhhhcc------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHH
Q 038429          134 AARPVQFRVGQAIHGMF------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKA  204 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a  204 (258)
                      +|..|++++|...|+..      ..-..+|..+.-+..+.|+++.|.+.|++-.+  | ...+.-.+.....+.|+.-.|
T Consensus       113 LC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHH
Confidence            78888999999888888      22345788888888899999999999988765  3 445777888888999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          205 IELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       205 ~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      ..+++.....+. ++..+....|+.-.+.|+.+.+.+.=..+.+
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            999999888765 8999999999999999999988887666654

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

Probab=98.39  E-value=7.1e-06  Score=65.03  Aligned_cols=214  Identities=9%  Similarity=-0.044  Sum_probs=168.1

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhh-HHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYT-WNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~-~~~li~~~~~~g~~~  105 (258)
                      .+-+.|.+++|...+..-...  .|.+.||-.|-.+|.+..  +...|+.+|.+...  |..+| ...+.+.+-..++.+
T Consensus       232 CylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~rid--QP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~  307 (478)
T KOG1129|consen  232 CYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRID--QPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQE  307 (478)
T ss_pred             HHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhc--cHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHH
Confidence            344567778887777766554  567788889999999999  99999999988764  54444 455777778889999


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhc-
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMI-  180 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m-  180 (258)
                      +|.++|+...+..  +.++.+..++...|-..++++.|.+.+..+    .-+...|+.+--+|.-.+.+|-++.-|.+. 
T Consensus       308 ~a~~lYk~vlk~~--~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf~RAl  385 (478)
T KOG1129|consen  308 DALQLYKLVLKLH--PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSFQRAL  385 (478)
T ss_pred             HHHHHHHHHHhcC--CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHHHHHH
Confidence            9999999984433  346677778888888899999999999988    667788999998999999999988877654 


Q ss_pred             ---CCCCh--hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          181 ---GKKDV--VSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       181 ---~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                         .+|+.  ..|-.+-...+..|++.-|.+-|+-..... .-+...++.|--.-.+.|+++.|..+++.....
T Consensus       386 stat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  386 STATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             hhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence               44543  467777777788999999999998776653 234567888888889999999999999987643

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.35  E-value=3.3e-05  Score=60.31  Aligned_cols=59  Identities=12%  Similarity=0.130  Sum_probs=47.4

Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHcC--CCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          191 MISGFVEGGFFEKAIELYREMEVEN--VKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       191 li~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +-..+.+.|++.+|...+++.....  -+.....+..+..++.+.|++++|..+++.+...
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4456788899999999999987752  1123467889999999999999999999988754

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).

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

Probab=98.35  E-value=6.5e-07  Score=45.98  Aligned_cols=31  Identities=26%  Similarity=0.310  Sum_probs=29.4

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHHcCC
Q 038429          221 VTMVVVLSACAKKRDLEFGIWVSSHIEKNGI  251 (258)
Q Consensus       221 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~  251 (258)
                      .||+.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4899999999999999999999999999885

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.

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

Probab=98.34  E-value=5.8e-05  Score=61.29  Aligned_cols=195  Identities=7%  Similarity=-0.006  Sum_probs=149.8

Q ss_pred             hhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhc
Q 038429           59 SKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAA  135 (258)
Q Consensus        59 ~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~  135 (258)
                      ..+..+.-+..+|++..|+++..+-.+   .....|-.-..+-.+.|+.+.+-..+.+. .+..-.++...+-+......
T Consensus        86 ~~~~egl~~l~eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~ea-ae~~~~~~l~v~ltrarlll  164 (400)
T COG3071          86 KALNEGLLKLFEGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEA-AELAGDDTLAVELTRARLLL  164 (400)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHH-hccCCCchHHHHHHHHHHHH
Confidence            346666666666799999999876543   45666777788888999999999999988 54433455666777778888


Q ss_pred             CcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC-----------ChhhHHHHHHHHHcCCC
Q 038429          136 RPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK-----------DVVSWNSMISGFVEGGF  200 (258)
Q Consensus       136 ~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----------~~~~~~~li~~~~~~g~  200 (258)
                      ..|+.+.|..-...+    +...........+|.+.|++.....++..+.+.           -..+|+.++.-....+.
T Consensus       165 ~~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~  244 (400)
T COG3071         165 NRRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNG  244 (400)
T ss_pred             hCCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhcccc
Confidence            899988887666555    667788899999999999999999999998763           23578888887777777


Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCcccc
Q 038429          201 FEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDL  255 (258)
Q Consensus       201 ~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  255 (258)
                      .+.-...|+..-.. .+-+...-.+++.-+.++|+.++|.++..+..++++.|..
T Consensus       245 ~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L  298 (400)
T COG3071         245 SEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL  298 (400)
T ss_pred             chHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH
Confidence            77766677665443 4556666777788888999999999999998888887763

>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=98.29  E-value=5.2e-06  Score=66.67  Aligned_cols=144  Identities=13%  Similarity=0.002  Sum_probs=85.1

Q ss_pred             hhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHh----cCcC
Q 038429           63 TPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAA----ARPV  138 (258)
Q Consensus        63 ~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~----~~~~  138 (258)
                      ..+...|  ++++|.+++...  .+.......+..|.+.++++.|.+.++.| ++.+   +..+...+..++    .-.+
T Consensus       110 ~i~~~~~--~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~-~~~~---eD~~l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  110 TILFHEG--DYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNM-QQID---EDSILTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHHCCCC--HHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHH-HCCS---CCHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHcC--CHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHH-HhcC---CcHHHHHHHHHHHHHHhCch
Confidence            3444555  777777777655  45566666777777777777777777777 5442   223343343333    2234


Q ss_pred             Ccchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhhHHHHHHHHHcCCCh-HHHHHHHHH
Q 038429          139 QFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK---DVVSWNSMISGFVEGGFF-EKAIELYRE  210 (258)
Q Consensus       139 ~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~g~~-~~a~~~~~~  210 (258)
                      .+..|.-+|+++    .+++.+.|.+..+....|++++|.+++.+..+.   +..+.-.+|......|+. +.+.+++..
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            567777777777    456666677777777777777777777665432   444555556555555655 556666666


Q ss_pred             HHHc
Q 038429          211 MEVE  214 (258)
Q Consensus       211 m~~~  214 (258)
                      ++..
T Consensus       262 L~~~  265 (290)
T PF04733_consen  262 LKQS  265 (290)
T ss_dssp             CHHH
T ss_pred             HHHh
Confidence            6553

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.

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

Probab=98.26  E-value=0.00052  Score=56.97  Aligned_cols=214  Identities=11%  Similarity=0.020  Sum_probs=135.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhh---hhhhhhccCCCChHHHHHHhccCCC--C-ChhhHHHHHHHHhcCC
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASK---LFTPCALSTFSSLEYARKMFDQIPQ--P-NLYTWNTLIRAYSSSD  102 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~---li~~~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g  102 (258)
                      .+...|+++++.+++....... +.+...+..   ........+  ....+.+.++....  | .......+...+...|
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSG--MRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhccccc--CchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcC
Confidence            4556789999999999988764 334444432   111122234  66666666654322  2 2334455667888999


Q ss_pred             ChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----c--Cch--hHHHHHHHHHHhcCCHHHHH
Q 038429          103 EPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----E--DDL--VISNSLIHFYAVCGDLAMAY  174 (258)
Q Consensus       103 ~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~--~~~--~~~~~li~~~~~~g~~~~a~  174 (258)
                      ++++|...+++. .+.. +.+...+..+-..+...|++++|...++..    +  ++.  ..|..+...+...|++++|.
T Consensus       129 ~~~~A~~~~~~a-l~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~  206 (355)
T cd05804         129 QYDRAEEAARRA-LELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAAL  206 (355)
T ss_pred             CHHHHHHHHHHH-HhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999998 4432 344567788888999999999999998887    2  222  24557888899999999999


Q ss_pred             HHHHhcCCCCh--hhH----H--HHHHHHHcCCChHHHHHHHHHHHH---cCC--CCChhhHHHHHHHHhccCChhHHHH
Q 038429          175 CVFVMIGKKDV--VSW----N--SMISGFVEGGFFEKAIELYREMEV---ENV--KPDEVTMVVVLSACAKKRDLEFGIW  241 (258)
Q Consensus       175 ~~~~~m~~~~~--~~~----~--~li~~~~~~g~~~~a~~~~~~m~~---~~~--~p~~~t~~~li~~~~~~g~~~~a~~  241 (258)
                      ++++....+..  ...    +  .++.-+...|....+.+. +.+..   ...  ......-.+...++...|+.+.|..
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~  285 (355)
T cd05804         207 AIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRW-EDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDK  285 (355)
T ss_pred             HHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHH-HHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHH
Confidence            99998753221  222    1  222333334433322222 22211   111  1111222367778889999999999


Q ss_pred             HHHHHHH
Q 038429          242 VSSHIEK  248 (258)
Q Consensus       242 ~~~~m~~  248 (258)
                      +++.+..
T Consensus       286 ~L~~l~~  292 (355)
T cd05804         286 LLAALKG  292 (355)
T ss_pred             HHHHHHH
Confidence            9998865

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.

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

Probab=98.25  E-value=0.00024  Score=63.31  Aligned_cols=211  Identities=11%  Similarity=0.036  Sum_probs=131.9

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhc---cCCCCChhhHHHHHHHHhcCCChhhHHH
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFD---QIPQPNLYTWNTLIRAYSSSDEPIQSFM  109 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~---~m~~~~~~~~~~li~~~~~~g~~~~a~~  109 (258)
                      .|+.++|..++.++++.. +.....|-.|-..|-..|  +.+++...+-   ++.+.|..-|-.+-....+.|+++.|.-
T Consensus       152 rg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrG--d~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRG--DIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             hCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcc--cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHH
Confidence            499999999999999887 557888999999999999  9988876653   4445566777777777777787887777


Q ss_pred             HHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---------------------------------------
Q 038429          110 IFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---------------------------------------  150 (258)
Q Consensus       110 ~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---------------------------------------  150 (258)
                      .|.+. .+.+ +++...+---...|-+.|+...|...|..+                                       
T Consensus       229 cy~rA-I~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~  306 (895)
T KOG2076|consen  229 CYSRA-IQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGA  306 (895)
T ss_pred             HHHHH-HhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            77776 3322 233333333344455555555544444444                                       


Q ss_pred             ------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC------------------------------------------
Q 038429          151 ------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK------------------------------------------  182 (258)
Q Consensus       151 ------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~------------------------------------------  182 (258)
                            ..+...+|.+...|.+...++.|......+..                                          
T Consensus       307 ~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~ic  386 (895)
T KOG2076|consen  307 LSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMIC  386 (895)
T ss_pred             HhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhh
Confidence                  12233344444444444444444433322210                                          


Q ss_pred             -------------------------CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChh
Q 038429          183 -------------------------KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLE  237 (258)
Q Consensus       183 -------------------------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~  237 (258)
                                               -+...|.-+..+|...|++.+|+.+|..+......-+...|--+-++|...|..+
T Consensus       387 L~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e  466 (895)
T KOG2076|consen  387 LVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYE  466 (895)
T ss_pred             hhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHH
Confidence                                     0233455566677777777777777777665533334556777777777777777


Q ss_pred             HHHHHHHHHHH
Q 038429          238 FGIWVSSHIEK  248 (258)
Q Consensus       238 ~a~~~~~~m~~  248 (258)
                      .|.+.+.....
T Consensus       467 ~A~e~y~kvl~  477 (895)
T KOG2076|consen  467 EAIEFYEKVLI  477 (895)
T ss_pred             HHHHHHHHHHh
Confidence            77777776654

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

Probab=98.25  E-value=0.00017  Score=55.69  Aligned_cols=160  Identities=9%  Similarity=0.014  Sum_probs=95.6

Q ss_pred             CChhhHHHHHHHHhcCCChhhHHHH-HHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHH
Q 038429           86 PNLYTWNTLIRAYSSSDEPIQSFMI-FLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFY  164 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~g~~~~a~~~-~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~  164 (258)
                      +.......+-..+...++.++-+.- .+.+ ......-+......-...|++.+++++|....+.. .+....-.=...+
T Consensus        70 ~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~-a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~-~~lE~~Al~VqI~  147 (299)
T KOG3081|consen   70 TPLQAVRLLAEYLELESNKKSILASLYELV-ADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG-ENLEAAALNVQIL  147 (299)
T ss_pred             ChHHHHHHHHHHhhCcchhHHHHHHHHHHH-HhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc-chHHHHHHHHHHH
Confidence            3444444444444444444444333 3333 44444444333344445577788888887777663 2222222234445


Q ss_pred             HhcCCHHHHHHHHHhcCCC-ChhhHHHHHHHHH----cCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHH
Q 038429          165 AVCGDLAMAYCVFVMIGKK-DVVSWNSMISGFV----EGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFG  239 (258)
Q Consensus       165 ~~~g~~~~a~~~~~~m~~~-~~~~~~~li~~~~----~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a  239 (258)
                      .|..+++-|.+.++.|.+- +-.|.+.|-.++.    ..+.+.+|..+|++|-+. ..|+..+.+....++...|++++|
T Consensus       148 lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeA  226 (299)
T KOG3081|consen  148 LKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEA  226 (299)
T ss_pred             HHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHH
Confidence            5667778888888888774 4456665555443    345677888888887653 567777788888888888888888


Q ss_pred             HHHHHHHHH
Q 038429          240 IWVSSHIEK  248 (258)
Q Consensus       240 ~~~~~~m~~  248 (258)
                      ..++++...
T Consensus       227 e~lL~eaL~  235 (299)
T KOG3081|consen  227 ESLLEEALD  235 (299)
T ss_pred             HHHHHHHHh
Confidence            888877654

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

Probab=98.25  E-value=7.7e-05  Score=69.23  Aligned_cols=194  Identities=9%  Similarity=-0.011  Sum_probs=97.4

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCCC--------CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcc
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--------PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEF  125 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~  125 (258)
                      +...|-.-|......+  +++.|++++++...        .-...|-++++.-...|.-+...++|++. .+..  -.-.
T Consensus      1457 SSi~WI~YMaf~Lels--EiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRA-cqyc--d~~~ 1531 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELS--EIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERA-CQYC--DAYT 1531 (1710)
T ss_pred             cchHHHHHHHHHhhhh--hhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHH-HHhc--chHH
Confidence            3444555555555555  66666666555432        12234555555555555445555555555 3221  1122


Q ss_pred             hHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C---ChhhHHHHHHHHH
Q 038429          126 TLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K---DVVSWNSMISGFV  196 (258)
Q Consensus       126 ~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~---~~~~~~~li~~~~  196 (258)
                      .|..|...|.+.+..++|-++++.|    .-....|...+..+.+..+-+.|.+++.+..+  |   .+......+..-.
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHh
Confidence            3555555566666666666666665    33444555566666666655555555554332  1   2222222333334


Q ss_pred             cCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCcc
Q 038429          197 EGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKM  253 (258)
Q Consensus       197 ~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  253 (258)
                      +.|+.+.+..+|+..... .+--...|+..|+.-.+.|+.+.+..+|++....++.|
T Consensus      1612 k~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             hcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            455555555555555443 11123445555555555566665666666555555544

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

Probab=98.22  E-value=5.3e-05  Score=70.23  Aligned_cols=218  Identities=11%  Similarity=0.024  Sum_probs=169.4

Q ss_pred             eecCCCccCcccccchhhHHHHHHHHHhh-ccCcc---hhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHHHH
Q 038429           21 TVNNGHQRHPHFLTNQKQLKRIHAQMLST-DFFFD---PYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWNTL   94 (258)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~a~~~~~~m~~~-~~~~~---~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~l   94 (258)
                      ...+.-++.--+.++++.|.++.++.++. ++.-.   ...|-++++.-...|  .-+...++|++..+  .....|..|
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG--~eesl~kVFeRAcqycd~~~V~~~L 1536 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYG--TEESLKKVFERACQYCDAYTVHLKL 1536 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhC--cHHHHHHHHHHHHHhcchHHHHHHH
Confidence            33333334666678999999999988764 33222   335777777777777  88899999999877  335679999


Q ss_pred             HHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCc---hhHHHHHHHHHHhcC
Q 038429           95 IRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDD---LVISNSLIHFYAVCG  168 (258)
Q Consensus        95 i~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~---~~~~~~li~~~~~~g  168 (258)
                      ...|.+....++|.++|+.|.++-+  -....|...+..+.+..+-+.|..++...   -|.   .....-.+..=.+.|
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~G 1614 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYG 1614 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcC
Confidence            9999999999999999999977776  45678999999999999999999998887   332   333344445556889


Q ss_pred             CHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh--hhHHHHHHHHhccCChhHHHHH
Q 038429          169 DLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE--VTMVVVLSACAKKRDLEFGIWV  242 (258)
Q Consensus       169 ~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~t~~~li~~~~~~g~~~~a~~~  242 (258)
                      +.+.+..+|+....  | -...|+..|..-.++|+.+.+..+|++....++.|-.  ..|.-.+..--..|+-+.+..+
T Consensus      1615 DaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1615 DAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             CchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHH
Confidence            99999999998765  3 5568999999999999999999999999999988754  4577777777777776655444

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

Probab=98.21  E-value=0.00025  Score=53.68  Aligned_cols=193  Identities=13%  Similarity=-0.073  Sum_probs=153.8

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      ..+-+.|+...|+.-++..++.. +.+..++..+...|.+.|  ..+.|.+.|++..+   .+..+.|+--..+|..|++
T Consensus        43 l~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~G--e~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~  119 (250)
T COG3063          43 LGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLG--ENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRP  119 (250)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcC--ChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCCh
Confidence            35667899999999999999887 556778999999999999  99999999986543   5677889999999999999


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMI  180 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (258)
                      ++|...|++....-...--..||..+.-+..+.|+++.|+..++.-    +-...+.-.+.....+.|++..|...++..
T Consensus       120 ~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~  199 (250)
T COG3063         120 EEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLERY  199 (250)
T ss_pred             HHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHHHHH
Confidence            9999999998455445445678999999999999999999999988    445567778888889999999999999887


Q ss_pred             CCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHH
Q 038429          181 GKK---DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVV  225 (258)
Q Consensus       181 ~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~  225 (258)
                      ...   +..+.-..|..--+.|+.+.+-++=..+...  -|...-|.+
T Consensus       200 ~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q~  245 (250)
T COG3063         200 QQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQT  245 (250)
T ss_pred             HhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHh
Confidence            653   5555556667777788887777765555543  355544443

>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=98.17  E-value=0.0004  Score=60.19  Aligned_cols=215  Identities=11%  Similarity=0.026  Sum_probs=132.6

Q ss_pred             cccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhh-HHHHHHHHhcC-----
Q 038429           30 PHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYT-WNTLIRAYSSS-----  101 (258)
Q Consensus        30 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~-~~~li~~~~~~-----  101 (258)
                      +...|+.++|++.+..-.+. +.............+.+.|  +.++|..++..+..  |+-.. |..+..+.+..     
T Consensus        14 l~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg--~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~   90 (517)
T PF12569_consen   14 LEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLG--RKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLSD   90 (517)
T ss_pred             HHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhccccc
Confidence            34556777777776553332 2223445566666777777  77777777776654  33333 33344443211     


Q ss_pred             CChhhHHHHHHHhH---------------------------------hcCCCCCCcchHHHHHHHhcCcCCcchhhhhhh
Q 038429          102 DEPIQSFMIFLQLV---------------------------------YNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHG  148 (258)
Q Consensus       102 g~~~~a~~~~~~m~---------------------------------~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  148 (258)
                      .+.+....+|+++.                                 -..|+|   .+|+.|-..|...........++.
T Consensus        91 ~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~  167 (517)
T PF12569_consen   91 EDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVE  167 (517)
T ss_pred             ccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHH
Confidence            13444455555551                                 222322   244444444444444333344433


Q ss_pred             cc-------------------cCchh--HHHHHHHHHHhcCCHHHHHHHHHhcCC--CC-hhhHHHHHHHHHcCCChHHH
Q 038429          149 MF-------------------EDDLV--ISNSLIHFYAVCGDLAMAYCVFVMIGK--KD-VVSWNSMISGFVEGGFFEKA  204 (258)
Q Consensus       149 ~~-------------------~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~--~~-~~~~~~li~~~~~~g~~~~a  204 (258)
                      ..                   +|+..  ++.-+-..|-..|++++|.+..+...+  |+ +..|..-...+-+.|++.+|
T Consensus       168 ~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~A  247 (517)
T PF12569_consen  168 EYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEA  247 (517)
T ss_pred             HHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHH
Confidence            33                   23343  345557778889999999999987765  43 44677777888899999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCC
Q 038429          205 IELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGI  251 (258)
Q Consensus       205 ~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~  251 (258)
                      .+.++....... -|...=+-....+.+.|++++|.+++....+.+.
T Consensus       248 a~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~  293 (517)
T PF12569_consen  248 AEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDV  293 (517)
T ss_pred             HHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCC
Confidence            999988877543 3566667778888899999999999888776654

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 [], [].

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

Probab=98.15  E-value=3.5e-05  Score=61.23  Aligned_cols=153  Identities=12%  Similarity=0.075  Sum_probs=119.0

Q ss_pred             HHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhc
Q 038429           92 NTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVC  167 (258)
Q Consensus        92 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~  167 (258)
                      +.+-++|.+.|.+.+|...|+.-.++   .|-+.||-.|-++|.+..++..|..++..-    +-|+.....+.+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q---~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ---FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc---CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHH
Confidence            56788888999999998888776332   356678888889999988888888888777    44555556667778888


Q ss_pred             CCHHHHHHHHHhcCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHH
Q 038429          168 GDLAMAYCVFVMIGKK---DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSS  244 (258)
Q Consensus       168 g~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~  244 (258)
                      +..++|.++++...+.   ++....++-.+|.-.++.+-|+++++++.+-|+. +...|+.+--+|.-.+++|.+.--|.
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            8899999999877652   6666667777788888899999999999888874 67778777778888888888887777


Q ss_pred             HHHH
Q 038429          245 HIEK  248 (258)
Q Consensus       245 ~m~~  248 (258)
                      ....
T Consensus       383 RAls  386 (478)
T KOG1129|consen  383 RALS  386 (478)
T ss_pred             HHHh
Confidence            6653

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

Probab=98.14  E-value=2.6e-05  Score=69.74  Aligned_cols=216  Identities=12%  Similarity=0.045  Sum_probs=159.6

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcch-hhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDP-YSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      ..-..++.+.|.+.|..+.+..  |+- ..|-.+....-..+  +..+|...+....+   .|+..+.-+-..+.+...+
T Consensus       505 l~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k~--~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~  580 (1018)
T KOG2002|consen  505 LLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARDKN--NLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEW  580 (1018)
T ss_pred             HHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHhcc--CcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhh
Confidence            4445568888899999988764  333 23444442222345  78888888876653   5666777777788888888


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcC------------cCCcchhhhhhhcc----cCchhHHHHHHHHHHhcC
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAAR------------PVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCG  168 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~------------~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g  168 (258)
                      ..|..-|....++....+|..+.-.|-+.|..            .+..+.|.++|...    +.+.+.-|.+--.++..|
T Consensus       581 ~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg  660 (1018)
T KOG2002|consen  581 KPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKG  660 (1018)
T ss_pred             cccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhcc
Confidence            88888777664444444666666566665432            22345688887766    778889999999999999


Q ss_pred             CHHHHHHHHHhcCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc-CCCCChhhHHHHHHHHhccCChhHHHHHHH
Q 038429          169 DLAMAYCVFVMIGKK---DVVSWNSMISGFVEGGFFEKAIELYREMEVE-NVKPDEVTMVVVLSACAKKRDLEFGIWVSS  244 (258)
Q Consensus       169 ~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~t~~~li~~~~~~g~~~~a~~~~~  244 (258)
                      ++.+|.+||...++.   +..+|-.+-+.|...|++..|+++|+...+. .-.-+......|-+++.+.|.+.+|.+..-
T Consensus       661 ~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll  740 (1018)
T KOG2002|consen  661 RFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALL  740 (1018)
T ss_pred             CchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            999999999988763   5578999999999999999999999887655 333456678899999999999999998877


Q ss_pred             HHHH
Q 038429          245 HIEK  248 (258)
Q Consensus       245 ~m~~  248 (258)
                      ....
T Consensus       741 ~a~~  744 (1018)
T KOG2002|consen  741 KARH  744 (1018)
T ss_pred             HHHH
Confidence            6654

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

Probab=98.13  E-value=8.4e-05  Score=62.95  Aligned_cols=190  Identities=12%  Similarity=0.037  Sum_probs=121.0

Q ss_pred             CcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcch-H
Q 038429           52 FFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFT-L  127 (258)
Q Consensus        52 ~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~-~  127 (258)
                      +..+.+|=++-..|.-.|  ..++|++.|.+...   .=...|-..-..|+-.|..+.|+..+... .+  ..|...- +
T Consensus       309 P~~a~sW~aVg~YYl~i~--k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tA-ar--l~~G~hlP~  383 (611)
T KOG1173|consen  309 PSKALSWFAVGCYYLMIG--KYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTA-AR--LMPGCHLPS  383 (611)
T ss_pred             CCCCcchhhHHHHHHHhc--CcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHH-HH--hccCCcchH
Confidence            334556666666666666  78888888875543   23456777888888888888887777655 21  1111111 1


Q ss_pred             HHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC----------ChhhHHHHHH
Q 038429          128 PFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK----------DVVSWNSMIS  193 (258)
Q Consensus       128 ~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----------~~~~~~~li~  193 (258)
                      --+---|.+.+++..|+..|...    +.|+...+-+--.....+.+.+|...|+....+          -..+++.|-+
T Consensus       384 LYlgmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH  463 (611)
T KOG1173|consen  384 LYLGMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGH  463 (611)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHH
Confidence            11222355666777777776666    666666666666666667777777777655421          2235677777


Q ss_pred             HHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          194 GFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       194 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      +|.+.+..++|+..+++.... .+-|..|+.++.-.|...|+++.|.+.|.+..
T Consensus       464 ~~Rkl~~~~eAI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL  516 (611)
T KOG1173|consen  464 AYRKLNKYEEAIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKAL  516 (611)
T ss_pred             HHHHHhhHHHHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            777777788887777776654 23466777777777777788888777777653

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

Probab=98.12  E-value=6.6e-05  Score=62.65  Aligned_cols=206  Identities=10%  Similarity=-0.051  Sum_probs=149.8

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHH
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFM  109 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~  109 (258)
                      .|+.-.+..-|+..++....++. .|-.+...|....  +-++....|+....   .|+.+|..--..+.-.+++++|..
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~--~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADEN--QSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhh--ccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHH
Confidence            46777888888888876544322 2777777788888  88888888876543   566777777777777888999999


Q ss_pred             HHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C
Q 038429          110 IFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K  183 (258)
Q Consensus       110 ~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~  183 (258)
                      =|+.. ..-. +-+...|-.+--+.-+.+.+++++..|+..    +.-+..||..-..+...+++++|.+-|+....  |
T Consensus       416 DF~Ka-i~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~  493 (606)
T KOG0547|consen  416 DFQKA-ISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEP  493 (606)
T ss_pred             HHHHH-hhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcc
Confidence            88877 3321 223456666767777888899999999888    55667889899999999999999999986643  3


Q ss_pred             C-------h--hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHHHHHHHH
Q 038429          184 D-------V--VSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       184 ~-------~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      +       .  .....++-.=. .+++..|..++++..+.  .| ....|..|-..-.+.|++++|.++|++-
T Consensus       494 ~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~--Dpkce~A~~tlaq~~lQ~~~i~eAielFEks  563 (606)
T KOG0547|consen  494 REHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIEL--DPKCEQAYETLAQFELQRGKIDEAIELFEKS  563 (606)
T ss_pred             ccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHcc--CchHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            2       1  11112222112 27788899998887664  33 3457888999999999999999999864

>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=98.11  E-value=0.00032  Score=60.75  Aligned_cols=219  Identities=12%  Similarity=0.054  Sum_probs=150.3

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccC---CCChHHHHHHhccCCC--------------------
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALST---FSSLEYARKMFDQIPQ--------------------   85 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~---~~~~~~a~~~~~~m~~--------------------   85 (258)
                      .+.+.|+.++|..++..+++.+ +.+..-|..+..+.+-..   ..+.+....+++++..                    
T Consensus        47 ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~  125 (517)
T PF12569_consen   47 LLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDE  125 (517)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHH
Confidence            5667789999999999999998 335555566666652221   1145555666655421                    


Q ss_pred             ---------------CChhhHHHHHHHHhcCCChhhHHHHHHHhHhc---CC----------CCCCc--chHHHHHHHhc
Q 038429           86 ---------------PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYN---SP----------YFPNE--FTLPFVIKAAA  135 (258)
Q Consensus        86 ---------------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~----------~~p~~--~~~~~ll~~~~  135 (258)
                                     .-+.+|+.|-..|......+-..+++......   .+          -+|+.  .++.-+...|-
T Consensus       126 F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd  205 (517)
T PF12569_consen  126 FKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYD  205 (517)
T ss_pred             HHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHH
Confidence                           11234555555555444444445555554211   11          12333  24456667788


Q ss_pred             CcCCcchhhhhhhcc---cCc-hhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHH
Q 038429          136 RPVQFRVGQAIHGMF---EDD-LVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELY  208 (258)
Q Consensus       136 ~~~~~~~a~~~~~~~---~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~  208 (258)
                      +.|++++|....+..   .|+ +..|..-.+.|-+.|++++|.+.++..++   .|...=+.....+.++|++++|..++
T Consensus       206 ~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~  285 (517)
T PF12569_consen  206 YLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTA  285 (517)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999977   454 56888889999999999999999988776   36677778888899999999999999


Q ss_pred             HHHHHcCCCCChhhH--------HHHHHHHhccCChhHHHHHHHHHHH
Q 038429          209 REMEVENVKPDEVTM--------VVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       209 ~~m~~~~~~p~~~t~--------~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      ......+..|-...+        .-...+|.+.|++..|..-|..+.+
T Consensus       286 ~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  286 SLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            888777654432221        3445678899999999988877654

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=98.07  E-value=0.00023  Score=54.86  Aligned_cols=150  Identities=13%  Similarity=-0.006  Sum_probs=99.4

Q ss_pred             HHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhc
Q 038429           92 NTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVC  167 (258)
Q Consensus        92 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~  167 (258)
                      ..+-..+...|+-+....+.... .. ..+-|............+.|++..|...+.+.    ++|...|+.+--+|-+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~-~~-~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKS-AI-AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhh-hc-cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHc
Confidence            55556666666666666555443 11 11223334455777777777777777777777    67777888888888888


Q ss_pred             CCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHH
Q 038429          168 GDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSS  244 (258)
Q Consensus       168 g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~  244 (258)
                      |++++|..-|.+..+   .+...+|.|.-.+.-.|+.++|..++......+- -|...-..+.......|++++|..+..
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 GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            888888877766543   3666777777777777888888888777665532 255556666666677788877776654

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.06  E-value=0.0002  Score=55.92  Aligned_cols=158  Identities=12%  Similarity=0.072  Sum_probs=108.3

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC--CC-h---hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCc-chH
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PN-L---YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNE-FTL  127 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~-~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~  127 (258)
                      ...+-.+...+...|  +++.|...|++..+  |+ .   .++..+..++.+.|++++|+..++++.+...-.|.. .++
T Consensus        33 ~~~~~~~g~~~~~~~--~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        33 AEELYEEAKEALDSG--DYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             HHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            445566666777778  88888888886643  32 1   356777888888888889988888884333212221 133


Q ss_pred             HHHHHHhcCc--------CCcchhhhhhhcc---cCch-hHH-----------------HHHHHHHHhcCCHHHHHHHHH
Q 038429          128 PFVIKAAARP--------VQFRVGQAIHGMF---EDDL-VIS-----------------NSLIHFYAVCGDLAMAYCVFV  178 (258)
Q Consensus       128 ~~ll~~~~~~--------~~~~~a~~~~~~~---~~~~-~~~-----------------~~li~~~~~~g~~~~a~~~~~  178 (258)
                      ..+-.++...        |+.+.|...++.+   .|+. ..+                 ..+...|.+.|++++|...|.
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~  190 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFE  190 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            3333334332        6677788877777   3332 222                 134566788999999999998


Q ss_pred             hcCC--C----ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          179 MIGK--K----DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       179 ~m~~--~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ...+  |    ....+..+..++...|+.++|..+++.+...
T Consensus       191 ~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       191 TVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            8754  3    2457889999999999999999999888764

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=98.01  E-value=0.00059  Score=56.62  Aligned_cols=84  Identities=13%  Similarity=0.183  Sum_probs=46.9

Q ss_pred             HHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----CCh--hhHHHHHHHHHc
Q 038429          129 FVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-----KDV--VSWNSMISGFVE  197 (258)
Q Consensus       129 ~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~--~~~~~li~~~~~  197 (258)
                      .+...+...|++++|...++..    +.+...+..+-..|...|++++|...++...+     ++.  ..|-.+...+..
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~  198 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLE  198 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHH
Confidence            3344555666666666666655    34445555666666666666666666655433     111  123345555666


Q ss_pred             CCChHHHHHHHHHHH
Q 038429          198 GGFFEKAIELYREME  212 (258)
Q Consensus       198 ~g~~~~a~~~~~~m~  212 (258)
                      .|++++|..++++..
T Consensus       199 ~G~~~~A~~~~~~~~  213 (355)
T cd05804         199 RGDYEAALAIYDTHI  213 (355)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            666666666666653

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.

>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=97.99  E-value=9.2e-05  Score=61.74  Aligned_cols=119  Identities=12%  Similarity=0.126  Sum_probs=96.8

Q ss_pred             hhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcC
Q 038429           59 SKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPV  138 (258)
Q Consensus        59 ~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~  138 (258)
                      ..|+..+...+  +++.|..+|+++.+.++.....+++.+...++..+|++++++..++.  +-+...+..-...|.+.+
T Consensus       173 ~~Ll~~l~~t~--~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~--p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  173 DTLLKYLSLTQ--RYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN--PQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHhhcc--cHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcC
Confidence            34556666667  99999999999988777777789999999999999999999884322  234555566667788999


Q ss_pred             Ccchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          139 QFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       139 ~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +.+.|..+.+..    +.+-.+|..|..+|.+.|+++.|+-.++.+.
T Consensus       249 ~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            999999999988    4455599999999999999999999998876

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

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

Probab=97.96  E-value=0.00099  Score=60.09  Aligned_cols=207  Identities=11%  Similarity=0.070  Sum_probs=146.2

Q ss_pred             hhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCC------ChhhHHHHHHHHhcCCChhhHHH
Q 038429           36 QKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQP------NLYTWNTLIRAYSSSDEPIQSFM  109 (258)
Q Consensus        36 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~li~~~~~~g~~~~a~~  109 (258)
                      .+.+.+++...-..+ .-++.+.+.|.+.|...|  +++.+..+...+..-      -..+|-.+.++|-..|++++|..
T Consensus       252 ~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~--dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~  328 (1018)
T KOG2002|consen  252 YKKGVQLLQRAYKEN-NENPVALNHLANHFYFKK--DYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFK  328 (1018)
T ss_pred             HHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcc--cHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHH
Confidence            444444444444444 457788888999999988  999998888777542      24568889999999999999999


Q ss_pred             HHHHhHhcCCCCCCcch--HHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcC----CHHHHHHHHHh
Q 038429          110 IFLQLVYNSPYFPNEFT--LPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCG----DLAMAYCVFVM  179 (258)
Q Consensus       110 ~~~~m~~~~~~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g----~~~~a~~~~~~  179 (258)
                      .|.+. .+.  -|+..+  +--+...+.+.|+++.+...|+.+    +.+..+-..|-..|...+    ..++|..++..
T Consensus       329 yY~~s-~k~--~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K  405 (1018)
T KOG2002|consen  329 YYMES-LKA--DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGK  405 (1018)
T ss_pred             HHHHH-Hcc--CCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHH
Confidence            99776 333  344433  446777889999999999999988    444456666666666664    56778888877


Q ss_pred             cCCC---ChhhHHHHHHHHHcCCChHHHHHHHHH----HHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          180 IGKK---DVVSWNSMISGFVEGGFFEKAIELYRE----MEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       180 m~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~----m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ..++   |...|-.+-..+-. ++...++.+|..    |...+-.+.....|.+-......|++++|...|......
T Consensus       406 ~~~~~~~d~~a~l~laql~e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~  481 (1018)
T KOG2002|consen  406 VLEQTPVDSEAWLELAQLLEQ-TDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGK  481 (1018)
T ss_pred             HHhcccccHHHHHHHHHHHHh-cChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhh
Confidence            7665   44455555454444 444444665544    344454567788899999999999999999999987644

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.95  E-value=0.0004  Score=62.34  Aligned_cols=138  Identities=9%  Similarity=0.094  Sum_probs=89.7

Q ss_pred             CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHH
Q 038429           86 PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSL  160 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~l  160 (258)
                      .++..+-.|.....+.|..++|+.+++.. .+  ..|+ ......+...+.+.+++++|....+..    +.+....+.+
T Consensus        84 ~~~~~~~~La~i~~~~g~~~ea~~~l~~~-~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~  160 (694)
T PRK15179         84 HTELFQVLVARALEAAHRSDEGLAVWRGI-HQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLE  160 (694)
T ss_pred             ccHHHHHHHHHHHHHcCCcHHHHHHHHHH-Hh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHH
Confidence            34666777777777777777777777766 22  2344 345566677777777777777766666    4444566666


Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 038429          161 IHFYAVCGDLAMAYCVFVMIGKK---DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVL  227 (258)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li  227 (258)
                      -.++.+.|++++|..+|++...+   +..++..+-.++-..|+.++|...|++..+. ..|....|+..+
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~  229 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHH
Confidence            67777777777777777766543   2456666667777777777777777776554 234445554443

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.93  E-value=6.5e-05  Score=63.00  Aligned_cols=115  Identities=7%  Similarity=0.062  Sum_probs=94.0

Q ss_pred             ccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC------CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC
Q 038429           50 DFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ------PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN  123 (258)
Q Consensus        50 ~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~  123 (258)
                      +...+......+++.+....  +++.+..++-....      .-..|..++|+.|.+.|..++++.+++.= ...|+-||
T Consensus        61 ~~~vS~~dld~fvn~~~~~~--~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~-~~yGiF~D  137 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKD--DLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNR-LQYGIFPD  137 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHh--HHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhCh-hhcccCCC
Confidence            55667778888888888888  88888888766543      22345679999999999999999999998 89999999


Q ss_pred             cchHHHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHHHHHHHHhc
Q 038429          124 EFTLPFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNSLIHFYAVC  167 (258)
Q Consensus       124 ~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~li~~~~~~  167 (258)
                      ..+++.|++.+.+.|++..|.++...|     ..+..|+..-+.+|.+.
T Consensus       138 ~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  138 NFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999999999998888     44445666556666655

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 [].

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.91  E-value=8.1e-05  Score=53.48  Aligned_cols=61  Identities=8%  Similarity=-0.144  Sum_probs=31.4

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      +...|..+-.++.+.|++++|...|+....  | +...+..+-.++...|+.++|...|++..+
T Consensus        57 ~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~  120 (144)
T PRK15359         57 SWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIK  120 (144)
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444555555555555555555554433  2 444555555555555555555555555444

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

Probab=97.90  E-value=6.2e-05  Score=62.79  Aligned_cols=185  Identities=12%  Similarity=0.018  Sum_probs=140.8

Q ss_pred             cCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHh
Q 038429           23 NNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYS   99 (258)
Q Consensus        23 ~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~   99 (258)
                      ++.....+....+.+..+..|+...+.+ +-++.+|..--....-.+  ++++|..=|++...   .+...|-.+-.+.-
T Consensus       363 yI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~--q~e~A~aDF~Kai~L~pe~~~~~iQl~~a~Y  439 (606)
T KOG0547|consen  363 YIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQ--QYEEAIADFQKAISLDPENAYAYIQLCCALY  439 (606)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHH--HHHHHHHHHHHHhhcChhhhHHHHHHHHHHH
Confidence            4444457777888999999999999887 446667765555555556  88999988887765   35566777777777


Q ss_pred             cCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCc---------hhHHHHHHHHHHhc
Q 038429          100 SSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDD---------LVISNSLIHFYAVC  167 (258)
Q Consensus       100 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~---------~~~~~~li~~~~~~  167 (258)
                      +.++++++...|++. +++ ++-.+..|+.....+...++++.|...|+..   +|+         ..+.-.++-.- -.
T Consensus       440 r~~k~~~~m~~Fee~-kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk  516 (606)
T KOG0547|consen  440 RQHKIAESMKTFEEA-KKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WK  516 (606)
T ss_pred             HHHHHHHHHHHHHHH-HHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hh
Confidence            889999999999998 443 5556788999999999999999999998887   333         11222222222 34


Q ss_pred             CCHHHHHHHHHhcCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          168 GDLAMAYCVFVMIGKK---DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       168 g~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      +++..|.+++....+-   ....|-.|-..-...|++++|+++|++-..
T Consensus       517 ~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  517 EDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            8999999999987764   556889999999999999999999998654

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

Probab=97.88  E-value=0.00069  Score=60.51  Aligned_cols=183  Identities=11%  Similarity=0.057  Sum_probs=142.5

Q ss_pred             cCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhh
Q 038429           68 STFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQ  144 (258)
Q Consensus        68 ~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  144 (258)
                      .|  ++++|.+++.+..+   .+...|.+|-..|-+.|+.++++..+-..  ..-.+-|..-|..+-....+.|+++.|.
T Consensus       152 rg--~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llA--AHL~p~d~e~W~~ladls~~~~~i~qA~  227 (895)
T KOG2076|consen  152 RG--DLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLA--AHLNPKDYELWKRLADLSEQLGNINQAR  227 (895)
T ss_pred             hC--CHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHH--HhcCCCChHHHHHHHHHHHhcccHHHHH
Confidence            38  99999999998865   57788999999999999999998877444  2223445677888888899999999999


Q ss_pred             hhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C--Chh----hHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          145 AIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K--DVV----SWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       145 ~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~--~~~----~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      -+|...    +++...+---+..|-+.|+...|.+-|.++-+  |  |..    +--.+++.+...++-+.|.+.++.-.
T Consensus       228 ~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~  307 (895)
T KOG2076|consen  228 YCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGAL  307 (895)
T ss_pred             HHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999888    66766777788999999999999999988765  3  222    23344566677777788888887766


Q ss_pred             Hc-CCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCccc
Q 038429          213 VE-NVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMD  254 (258)
Q Consensus       213 ~~-~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  254 (258)
                      .. +-..+...++.+...+.+...++.|......+.....++|
T Consensus       308 s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d  350 (895)
T KOG2076|consen  308 SKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKD  350 (895)
T ss_pred             hhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCC
Confidence            53 3345667888999999999999999998888876433333

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

Probab=97.87  E-value=0.00013  Score=63.55  Aligned_cols=180  Identities=9%  Similarity=-0.066  Sum_probs=105.7

Q ss_pred             hhhhhhhhhhccCCCChHHHHHHhccCC--CCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHh
Q 038429           57 SASKLFTPCALSTFSSLEYARKMFDQIP--QPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAA  134 (258)
Q Consensus        57 ~~~~li~~~~~~~~~~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~  134 (258)
                      .|.-+|.+|...|  +..+|..+..+-.  .|+...|..+.+......-+++|.++.+.. ..+       +-..+-...
T Consensus       426 mw~~vi~CY~~lg--~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEkawElsn~~-sar-------A~r~~~~~~  495 (777)
T KOG1128|consen  426 MWDPVILCYLLLG--QHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKAWELSNYI-SAR-------AQRSLALLI  495 (777)
T ss_pred             HHHHHHHHHHHhc--ccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHHHHHhhhh-hHH-------HHHhhcccc
Confidence            3455566666666  6666655554332  255566666666655555566666666544 111       000111111


Q ss_pred             cCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHH
Q 038429          135 ARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIEL  207 (258)
Q Consensus       135 ~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~  207 (258)
                      .+.++++++.+.++.-    +.-..+|-.+-.+..+.++++.|.+.|.....  | +...||.+-.+|.+.|+-.+|...
T Consensus       496 ~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~  575 (777)
T KOG1128|consen  496 LSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRK  575 (777)
T ss_pred             ccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHH
Confidence            2245555555555544    44555666666666777777777777766543  5 445788888888888888888877


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          208 YREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       208 ~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      +.+..+-+.. +...|...+-...+.|.++.|.+.+.++.
T Consensus       576 l~EAlKcn~~-~w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  576 LKEALKCNYQ-HWQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             HHHHhhcCCC-CCeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            7777665532 33444444555567777887777777664

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

Probab=97.86  E-value=0.00033  Score=53.14  Aligned_cols=120  Identities=9%  Similarity=0.006  Sum_probs=75.9

Q ss_pred             CCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHH-HhcCC--HHHH
Q 038429          101 SDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFY-AVCGD--LAMA  173 (258)
Q Consensus       101 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~-~~~g~--~~~a  173 (258)
                      .++.++++..++...+..  +.|...|..+-..|...|+++.|...++..    +.+...+..+-.++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~--P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            444555555555542221  345556666667777777777777776666    44556666666653 55566  4778


Q ss_pred             HHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhH
Q 038429          174 YCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTM  223 (258)
Q Consensus       174 ~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~  223 (258)
                      .+++++..+  | +...+..+-..+...|++++|...|+++.+. .+|+..-+
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l-~~~~~~r~  181 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDL-NSPRVNRT  181 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCccHH
Confidence            888877654  3 5567777777777888888888888887665 23444333

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.85  E-value=0.00038  Score=49.97  Aligned_cols=93  Identities=9%  Similarity=-0.095  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK  232 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  232 (258)
                      .+..+-..+...|++++|...|.....  | +...|..+-..+...|++++|...|++..... +.+...+..+..++.+
T Consensus        26 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         26 TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            355677888899999999999997754  3 77788899999999999999999999998753 2366788999999999


Q ss_pred             cCChhHHHHHHHHHHHc
Q 038429          233 KRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       233 ~g~~~~a~~~~~~m~~~  249 (258)
                      .|++++|...++...+.
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            99999999999998765

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

Probab=97.83  E-value=0.00081  Score=57.23  Aligned_cols=195  Identities=14%  Similarity=0.016  Sum_probs=144.0

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcc-hhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFD-PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      .+-..+..++|.+.|.......  |+ ...|-..-+.|+-.+  ..+.|...+....+   ...-.+--+---|.+.++.
T Consensus       321 YYl~i~k~seARry~SKat~lD--~~fgpaWl~fghsfa~e~--EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~  396 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLD--PTFGPAWLAFGHSFAGEG--EHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNL  396 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcC--ccccHHHHHHhHHhhhcc--hHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccH
Confidence            4555688999999999776543  32 235777777888777  87777766643322   1111112244457778899


Q ss_pred             hhHHHHHHHhHhcCCCCC-CcchHHHHHHHhcCcCCcchhhhhhhcc----------c-CchhHHHHHHHHHHhcCCHHH
Q 038429          105 IQSFMIFLQLVYNSPYFP-NEFTLPFVIKAAARPVQFRVGQAIHGMF----------E-DDLVISNSLIHFYAVCGDLAM  172 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~----------~-~~~~~~~~li~~~~~~g~~~~  172 (258)
                      +-|.+.|.+. .  ++-| |+..++-+--..-..+.+.+|...|+..          . .-..+++.|-++|.+.+++++
T Consensus       397 kLAe~Ff~~A-~--ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~e  473 (611)
T KOG1173|consen  397 KLAEKFFKQA-L--AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEE  473 (611)
T ss_pred             HHHHHHHHHH-H--hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHH
Confidence            9999999776 2  3444 5667777766667788899998888877          1 144579999999999999999


Q ss_pred             HHHHHHhcC---CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc
Q 038429          173 AYCVFVMIG---KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK  232 (258)
Q Consensus       173 a~~~~~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  232 (258)
                      |+..|+...   ..|..+|.++--.|...|+++.|.+.|++-..  +.||..+...++..+..
T Consensus       474 AI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  474 AIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHH
Confidence            999998653   35889999999999999999999999998654  78999888888776543

>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=97.82  E-value=0.00026  Score=59.10  Aligned_cols=116  Identities=12%  Similarity=0.110  Sum_probs=88.7

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHh
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAV  166 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~  166 (258)
                      -..|++.+...++++.|+.+|+++ .+..  |+  ....+...+...++..+|.++.+..    +.|....+.-...+.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L-~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKL-RERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHH-HhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            445666777788899999999998 5443  43  4556777777777777777776666    4466666667777888


Q ss_pred             cCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHH
Q 038429          167 CGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREM  211 (258)
Q Consensus       167 ~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m  211 (258)
                      .++.+.|.++.+++.+  | +..+|..|..+|...|+++.|+..++.+
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            9999999999988875  5 5568999999999999999998887765

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

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.81  E-value=0.00021  Score=59.99  Aligned_cols=114  Identities=14%  Similarity=0.112  Sum_probs=74.8

Q ss_pred             CCCCcchHHHHHHHhcCcCCcchhhhhhhcc-------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC----CChhhH
Q 038429          120 YFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK----KDVVSW  188 (258)
Q Consensus       120 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~~~~~  188 (258)
                      .+.+...+..+++.+....+++.++.++...       ..-..|..++|+.|.+.|..+++..+++.=.+    ||..||
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            3445556666666666666666666665555       11223445777777777777777777765444    677777


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhcc
Q 038429          189 NSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKK  233 (258)
Q Consensus       189 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~  233 (258)
                      |.|+..+.+.|++..|.++...|...+.-.+..|+...+.+|.+.
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            777777777777777777777776666556666666666666554

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 [].

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.80  E-value=0.00089  Score=60.21  Aligned_cols=133  Identities=8%  Similarity=-0.108  Sum_probs=72.0

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC-cchHHHH
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN-EFTLPFV  130 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~l  130 (258)
                      +..+-.|.......|  ..++|..+++...+   .+......+...+.+.+++++|+..+++. ...  .|+ ......+
T Consensus        86 ~~~~~~La~i~~~~g--~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~-l~~--~p~~~~~~~~~  160 (694)
T PRK15179         86 ELFQVLVARALEAAH--RSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELY-FSG--GSSSAREILLE  160 (694)
T ss_pred             HHHHHHHHHHHHHcC--CcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHH-hhc--CCCCHHHHHHH
Confidence            444555555555555  66666666655543   23445555666666666666666666555 222  233 3334455


Q ss_pred             HHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHH
Q 038429          131 IKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMI  192 (258)
Q Consensus       131 l~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li  192 (258)
                      -.++.+.|++++|..+|+..    +.+...+..+-+.+.+.|+.++|...|+...+   +....||.++
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            55566666666666666666    22345566666666666666666666655432   3444444443

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

Probab=97.80  E-value=0.0008  Score=51.91  Aligned_cols=148  Identities=11%  Similarity=-0.021  Sum_probs=117.0

Q ss_pred             hhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhc
Q 038429           59 SKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAA  135 (258)
Q Consensus        59 ~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~  135 (258)
                      ..+-..+...|  +-+....+......   .+...-+..+....+.|++.+|+..|.+. .. .-++|..+|+.+--+|-
T Consensus        70 ~~~a~a~~~~G--~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA-~~-l~p~d~~~~~~lgaald  145 (257)
T COG5010          70 AKLATALYLRG--DADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKA-AR-LAPTDWEAWNLLGAALD  145 (257)
T ss_pred             HHHHHHHHhcc--cccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHH-hc-cCCCChhhhhHHHHHHH
Confidence            44555555556  66666555554322   34445666899999999999999999988 33 34788999999999999


Q ss_pred             CcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHH
Q 038429          136 RPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELY  208 (258)
Q Consensus       136 ~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~  208 (258)
                      +.|+++.|..-|...    +-+....|.|.-.|.-.|+.+.|..++.....  + |...-..|.-.....|++++|..+.
T Consensus       146 q~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         146 QLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             HccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            999999999888777    66778899999999999999999999976643  2 7778888888899999999998876


Q ss_pred             HH
Q 038429          209 RE  210 (258)
Q Consensus       209 ~~  210 (258)
                      ..
T Consensus       226 ~~  227 (257)
T COG5010         226 VQ  227 (257)
T ss_pred             cc
Confidence            44

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

Probab=97.77  E-value=0.00067  Score=56.74  Aligned_cols=110  Identities=10%  Similarity=0.027  Sum_probs=48.3

Q ss_pred             HhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCc-hhHHHHHHHHHHhcCCHHHH
Q 038429           98 YSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDD-LVISNSLIHFYAVCGDLAMA  173 (258)
Q Consensus        98 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~-~~~~~~li~~~~~~g~~~~a  173 (258)
                      +-+.|+.++|+..++.+.+ . .+-|+.-+......+.+.++..+|.+.++.+   .|+ ...+-.+-.+|.+.|++.+|
T Consensus       316 ~~~~~~~d~A~~~l~~L~~-~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIA-A-QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHHhcccchHHHHHHHHHH-h-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHH
Confidence            3344445555555554421 1 1112222233334444555555555544444   222 33444444555555555555


Q ss_pred             HHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHH
Q 038429          174 YCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYR  209 (258)
Q Consensus       174 ~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~  209 (258)
                      .++++....  | |...|..|-.+|...|+..++..-..
T Consensus       394 i~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~A  432 (484)
T COG4783         394 IRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARA  432 (484)
T ss_pred             HHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHH
Confidence            555544332  1 44455555555555444444444333

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

Probab=97.76  E-value=0.0013  Score=56.12  Aligned_cols=212  Identities=15%  Similarity=0.063  Sum_probs=154.4

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+-+.|++..|.-.|+..++.. +-+...|..|-..-....  +-..|+..+.+..+   .|..+.-+|...|...|.-.
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE--~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENE--NEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhcc--chHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHH
Confidence            3445677899988999888887 446778888877777776  76777777766544   57788888999999999999


Q ss_pred             hHHHHHHHhHhcC---C-CCC---CcchHHHHHHHhcCcCCcchhhhhhhcc------cCchhHHHHHHHHHHhcCCHHH
Q 038429          106 QSFMIFLQLVYNS---P-YFP---NEFTLPFVIKAAARPVQFRVGQAIHGMF------EDDLVISNSLIHFYAVCGDLAM  172 (258)
Q Consensus       106 ~a~~~~~~m~~~~---~-~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~------~~~~~~~~~li~~~~~~g~~~~  172 (258)
                      +|+..++.=.+..   . ..+   +...-..  ..+.....+.+..++|-.+      .+|..+++.|--.|--.|++++
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdr  448 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDR  448 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHH
Confidence            9999887752221   0 000   1100000  2222233334445555444      3788888999888999999999


Q ss_pred             HHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          173 AYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE-VTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       173 a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      |.+.|+...+  | |-..||-|-..++...+-++|+..|++..+  ++|+. +..--|--+|...|.+++|...|-...
T Consensus       449 aiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  449 AVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            9999997754  5 778999999999999999999999999877  56764 455566667899999999998887543

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

Probab=97.76  E-value=0.00087  Score=50.87  Aligned_cols=142  Identities=10%  Similarity=0.016  Sum_probs=102.1

Q ss_pred             HHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCH
Q 038429           95 IRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDL  170 (258)
Q Consensus        95 i~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~  170 (258)
                      +-.|...|+++.+..-.+.+ ..    |. .       .+...++.+++...++..    +.+...|..+-..|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~-~~----~~-~-------~~~~~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRL-AD----PL-H-------QFASQQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHH-hC----cc-c-------cccCchhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCH
Confidence            44677788877764443332 11    11 0       111234444444444444    77888999999999999999


Q ss_pred             HHHHHHHHhcCC--C-ChhhHHHHHHHH-HcCCC--hHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHH
Q 038429          171 AMAYCVFVMIGK--K-DVVSWNSMISGF-VEGGF--FEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSS  244 (258)
Q Consensus       171 ~~a~~~~~~m~~--~-~~~~~~~li~~~-~~~g~--~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~  244 (258)
                      ++|...|+...+  | +...+..+-.++ ...|+  .++|..++++..+..- -+...+..+-..+.+.|++++|...|+
T Consensus        90 ~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP-~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         90 DNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDA-NEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC-CChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999997765  4 667777777764 67677  5999999999988642 255778888889999999999999999


Q ss_pred             HHHHcC
Q 038429          245 HIEKNG  250 (258)
Q Consensus       245 ~m~~~g  250 (258)
                      .+.+..
T Consensus       169 ~aL~l~  174 (198)
T PRK10370        169 KVLDLN  174 (198)
T ss_pred             HHHhhC
Confidence            997654

>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=97.73  E-value=0.00076  Score=50.88  Aligned_cols=114  Identities=13%  Similarity=0.143  Sum_probs=75.2

Q ss_pred             HHHHhccC--CCCChhhHHHHHHHHhcC-----CChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhh
Q 038429           76 ARKMFDQI--PQPNLYTWNTLIRAYSSS-----DEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHG  148 (258)
Q Consensus        76 a~~~~~~m--~~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  148 (258)
                      ....|++.  ...+-.+|..+|..|.+.     |.++-....++.| .+.|+.-|..+|+.||+.+=+ |.+- -..+|+
T Consensus        33 ~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M-~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ  109 (228)
T PF06239_consen   33 HEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKM-DEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQ  109 (228)
T ss_pred             hHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHH-HHcCCcccHHHHHHHHHhCCC-CCcc-cccHHH
Confidence            34455554  457888888888888754     6788888888999 999999999999999988876 3331 111111


Q ss_pred             cccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 038429          149 MFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLS  228 (258)
Q Consensus       149 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~  228 (258)
                      .+                                         .--|-  .+.+-|++++++|...|+-||..|+..+++
T Consensus       110 ~~-----------------------------------------F~hyp--~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~  146 (228)
T PF06239_consen  110 AE-----------------------------------------FMHYP--RQQECAIDLLEQMENNGVMPDKETEQMLLN  146 (228)
T ss_pred             HH-----------------------------------------hccCc--HHHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            11                                         10111  234556777777777777777777777777


Q ss_pred             HHhccCC
Q 038429          229 ACAKKRD  235 (258)
Q Consensus       229 ~~~~~g~  235 (258)
                      .+.+.+.
T Consensus       147 iFG~~s~  153 (228)
T PF06239_consen  147 IFGRKSH  153 (228)
T ss_pred             HhccccH
Confidence            7755443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.70  E-value=0.0025  Score=51.58  Aligned_cols=188  Identities=11%  Similarity=0.089  Sum_probs=119.4

Q ss_pred             hhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCC-------hhhHHHHHHHhHhcCCCCCCcc-hH
Q 038429           56 YSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDE-------PIQSFMIFLQLVYNSPYFPNEF-TL  127 (258)
Q Consensus        56 ~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~-------~~~a~~~~~~m~~~~~~~p~~~-~~  127 (258)
                      +.--.|+-.|.+.+  ++.+|..+.+++...++.-|-.---.++..|+       ..-|.+.|+-. -..+..-|+. --
T Consensus       286 EARlNL~iYyL~q~--dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlV-G~Sa~ecDTIpGR  362 (557)
T KOG3785|consen  286 EARLNLIIYYLNQN--DVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLV-GESALECDTIPGR  362 (557)
T ss_pred             Hhhhhheeeecccc--cHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHh-cccccccccccch
Confidence            33445666777888  99999999888876555544433334444444       33444444433 4444433322 23


Q ss_pred             HHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhhHHHHH-HHHHcC
Q 038429          128 PFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK---DVVSWNSMI-SGFVEG  198 (258)
Q Consensus       128 ~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~li-~~~~~~  198 (258)
                      -++.+++--..+++++...+..+     ..|...+| +..+++..|.+.+|+++|-.+..|   |..+|.+++ .+|.++
T Consensus       363 QsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~n  441 (557)
T KOG3785|consen  363 QSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRN  441 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhc
Confidence            34445555555666666555555     44444444 678888899999999999888775   667887665 677888


Q ss_pred             CChHHHHHHHHHHHHcCCCCChhh-HHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          199 GFFEKAIELYREMEVENVKPDEVT-MVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       199 g~~~~a~~~~~~m~~~~~~p~~~t-~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      ++.+-|+.++-++.   -..+..+ ...+.+-|-+.+++--|-+.|+++....
T Consensus       442 kkP~lAW~~~lk~~---t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  442 KKPQLAWDMMLKTN---TPSERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             CCchHHHHHHHhcC---CchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence            88888877664443   2233444 3444566888899988888888887654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.70  E-value=0.0013  Score=57.94  Aligned_cols=133  Identities=11%  Similarity=-0.007  Sum_probs=86.3

Q ss_pred             ccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHH
Q 038429           31 HFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMI  110 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~  110 (258)
                      ..++.+..|..+.+.+......  ..-|..+...|+..|  +++.|+++|.+..     .++.-|..|.+.|+|++|.++
T Consensus       743 i~akew~kai~ildniqdqk~~--s~yy~~iadhyan~~--dfe~ae~lf~e~~-----~~~dai~my~k~~kw~da~kl  813 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQKTA--SGYYGEIADHYANKG--DFEIAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKL  813 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhccc--cccchHHHHHhccch--hHHHHHHHHHhcc-----hhHHHHHHHhccccHHHHHHH
Confidence            3455666677776666544322  233667777788888  8888888876543     356677788888888888777


Q ss_pred             HHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 038429          111 FLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAVCGDLAMAYCVFVMI  180 (258)
Q Consensus       111 ~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (258)
                      -++.   .|.......|-.-..-+-+.|++.+|++++-.+ .|+.     .|.+|-+.|..++..++.++-
T Consensus       814 a~e~---~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  814 AEEC---HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHh---cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHh
Confidence            6544   232333444555555566777788888877777 6654     356777777777777766543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.70  E-value=0.00047  Score=60.62  Aligned_cols=156  Identities=13%  Similarity=0.084  Sum_probs=103.6

Q ss_pred             ChHHHHHHhccCCCCChh--hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhc
Q 038429           72 SLEYARKMFDQIPQPNLY--TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM  149 (258)
Q Consensus        72 ~~~~a~~~~~~m~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  149 (258)
                      .+.+|..+++.+...++.  -|-.+...|+..|+++.|.++|-+-          ..++-.|..|.+.|+|..|.++-..
T Consensus       747 ew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~----------~~~~dai~my~k~~kw~da~kla~e  816 (1636)
T KOG3616|consen  747 EWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEA----------DLFKDAIDMYGKAGKWEDAFKLAEE  816 (1636)
T ss_pred             hhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhc----------chhHHHHHHHhccccHHHHHHHHHH
Confidence            666667777666544333  3667777788888888888877544          1355667788888888888877766


Q ss_pred             c---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 038429          150 F---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVV  226 (258)
Q Consensus       150 ~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  226 (258)
                      .   +..+..|-+-..-+-+.|++.+|++++-....|+.     .|..|-+.|..++.+++.++-.-..   -..|..++
T Consensus       817 ~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~h~d~---l~dt~~~f  888 (1636)
T KOG3616|consen  817 CHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKHHGDH---LHDTHKHF  888 (1636)
T ss_pred             hcCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHhChhh---hhHHHHHH
Confidence            6   34445566666666778888888888887777764     4667777787777777765532111   12455566


Q ss_pred             HHHHhccCChhHHHHHHHH
Q 038429          227 LSACAKKRDLEFGIWVSSH  245 (258)
Q Consensus       227 i~~~~~~g~~~~a~~~~~~  245 (258)
                      -.-+-..|++..|.+-|-+
T Consensus       889 ~~e~e~~g~lkaae~~fle  907 (1636)
T KOG3616|consen  889 AKELEAEGDLKAAEEHFLE  907 (1636)
T ss_pred             HHHHHhccChhHHHHHHHh
Confidence            6666666777766665544

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

Probab=97.70  E-value=0.0019  Score=53.22  Aligned_cols=195  Identities=10%  Similarity=-0.049  Sum_probs=126.7

Q ss_pred             hhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhh---HHHHHHHHhcCCCh--------------------
Q 038429           48 STDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYT---WNTLIRAYSSSDEP--------------------  104 (258)
Q Consensus        48 ~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~---~~~li~~~~~~g~~--------------------  104 (258)
                      ..-++.+......+..++...|  +.+.|...|++....|+.+   ...-.-.+.+.|+.                    
T Consensus       225 ~~~lr~NvhLl~~lak~~~~~G--dn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~  302 (564)
T KOG1174|consen  225 NTTLRCNEHLMMALGKCLYYNG--DYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASH  302 (564)
T ss_pred             hccCCccHHHHHHHhhhhhhhc--CchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhh
Confidence            3445667777888999999999  9999999998765422221   11111122333333                    


Q ss_pred             --------------hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHh
Q 038429          105 --------------IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAV  166 (258)
Q Consensus       105 --------------~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~  166 (258)
                                    +.|+.+-+.- .+.+ +-+...|-.--+.+...+++++|.--|...    +.+..+|..|+++|..
T Consensus       303 wfV~~~~l~~~K~~~rAL~~~eK~-I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA  380 (564)
T KOG1174|consen  303 WFVHAQLLYDEKKFERALNFVEKC-IDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLA  380 (564)
T ss_pred             hhhhhhhhhhhhhHHHHHHHHHHH-hccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHh
Confidence                          3333333332 1100 112223333334566677788877777766    6788899999999999


Q ss_pred             cCCHHHHHHHHH----hcC----------------------------------CC-ChhhHHHHHHHHHcCCChHHHHHH
Q 038429          167 CGDLAMAYCVFV----MIG----------------------------------KK-DVVSWNSMISGFVEGGFFEKAIEL  207 (258)
Q Consensus       167 ~g~~~~a~~~~~----~m~----------------------------------~~-~~~~~~~li~~~~~~g~~~~a~~~  207 (258)
                      .|++.+|.-.-+    .|.                                  +| -....+.+.+.+..-|..++++.+
T Consensus       381 ~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~L  460 (564)
T KOG1174|consen  381 QKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKL  460 (564)
T ss_pred             hchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHH
Confidence            999888765432    232                                  12 123455666778888899999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          208 YREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       208 ~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      +++-..  ..||....+.|-+.+...+.+++|.+.|....+
T Consensus       461 Le~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  461 LEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             HHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            988665  468999999999999999999999888876543

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

Probab=97.69  E-value=0.00063  Score=48.03  Aligned_cols=85  Identities=7%  Similarity=-0.029  Sum_probs=37.3

Q ss_pred             HHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCCh
Q 038429          129 FVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFF  201 (258)
Q Consensus       129 ~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~  201 (258)
                      .+...+...|++++|...++..    +.+...|..+...|.+.|++++|...|+...+  | +..++..+-..+...|++
T Consensus        22 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~  101 (135)
T TIGR02552        22 ALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEP  101 (135)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCH
Confidence            3334444444444444444444    22334444444444444444444444443322  1 233333344444444444


Q ss_pred             HHHHHHHHHHHH
Q 038429          202 EKAIELYREMEV  213 (258)
Q Consensus       202 ~~a~~~~~~m~~  213 (258)
                      ++|...|++..+
T Consensus       102 ~~A~~~~~~al~  113 (135)
T TIGR02552       102 ESALKALDLAIE  113 (135)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444433

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

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.68  E-value=0.0006  Score=45.79  Aligned_cols=77  Identities=14%  Similarity=0.242  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC-----CChhhHHHHHHHHHcCC--------ChHHHHHHHHHHHHcCCCCChhh
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK-----KDVVSWNSMISGFVEGG--------FFEKAIELYREMEVENVKPDEVT  222 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~~~~p~~~t  222 (258)
                      |-...|..+...+++...-.+|+..++     |++.+||.++.+.++..        ++-..+.++..|...+++|+..|
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            344556667777899998888887764     78889999998887754        24466789999999999999999


Q ss_pred             HHHHHHHHhc
Q 038429          223 MVVVLSACAK  232 (258)
Q Consensus       223 ~~~li~~~~~  232 (258)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999998865

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 [, , ].

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

Probab=97.64  E-value=0.00051  Score=48.49  Aligned_cols=95  Identities=13%  Similarity=0.031  Sum_probs=62.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      ......+...+...|++++|.+.|+...+  | +...|..+-..+...|++++|..+++.....+ +.+...+..+-..+
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            34455566667777777777777766533  3 55566666677777777777777777665543 23445566666677


Q ss_pred             hccCChhHHHHHHHHHHHc
Q 038429          231 AKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       231 ~~~g~~~~a~~~~~~m~~~  249 (258)
                      ...|++++|...++...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            7777777777777766654

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

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

Probab=97.63  E-value=0.011  Score=51.78  Aligned_cols=211  Identities=11%  Similarity=0.021  Sum_probs=127.4

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCC--CCChhhHHHHHHHHhcCCChhhHHHH
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIP--QPNLYTWNTLIRAYSSSDEPIQSFMI  110 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~g~~~~a~~~  110 (258)
                      .|+...|..++.+..+.+ +.+...|-.-+..-....  .++.|..+|.+..  .++...|..=++.-.-.+..++|+++
T Consensus       597 agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~--e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rl  673 (913)
T KOG0495|consen  597 AGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFEND--ELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRL  673 (913)
T ss_pred             cCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccc--cHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHH
Confidence            466677777777666665 335666666666666666  7777777776553  26666666666666666667777777


Q ss_pred             HHHhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC--CC
Q 038429          111 FLQLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG--KK  183 (258)
Q Consensus       111 ~~~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~--~~  183 (258)
                      +++-.+..   |+ ...|-.+-..+-+.++++.|...|..-    +-.+..|-.|.+.=-+.|.+-+|..+|+.-+  .|
T Consensus       674 lEe~lk~f---p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNP  750 (913)
T KOG0495|consen  674 LEEALKSF---PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNP  750 (913)
T ss_pred             HHHHHHhC---CchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCC
Confidence            76653322   33 223444444444555555555444433    4455566666666667777777777776543  44


Q ss_pred             -ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc-----------------------------CCCCChhhHHHHHHHHhcc
Q 038429          184 -DVVSWNSMISGFVEGGFFEKAIELYREMEVE-----------------------------NVKPDEVTMVVVLSACAKK  233 (258)
Q Consensus       184 -~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----------------------------~~~p~~~t~~~li~~~~~~  233 (258)
                       |...|-..|..=.+.|+.+.|..+..+..+.                             .+.-|.+....+-..+-..
T Consensus       751 k~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e  830 (913)
T KOG0495|consen  751 KNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSE  830 (913)
T ss_pred             CcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHH
Confidence             5667777777777777777777666554331                             1223445555555555566


Q ss_pred             CChhHHHHHHHHHHHc
Q 038429          234 RDLEFGIWVSSHIEKN  249 (258)
Q Consensus       234 g~~~~a~~~~~~m~~~  249 (258)
                      .++++|.+-|...++.
T Consensus       831 ~k~~kar~Wf~Ravk~  846 (913)
T KOG0495|consen  831 KKIEKAREWFERAVKK  846 (913)
T ss_pred             HHHHHHHHHHHHHHcc
Confidence            6677777777666544

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.63  E-value=0.0081  Score=49.02  Aligned_cols=108  Identities=13%  Similarity=-0.009  Sum_probs=86.3

Q ss_pred             CcchHHHHHHHhcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCCh
Q 038429          123 NEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFF  201 (258)
Q Consensus       123 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~  201 (258)
                      ...+.+..|.-+...|+...|..+.... -||..-|-..+.+|+..++|++-.++...  +..+..|..++..|.+.|+.
T Consensus       176 ~~~Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s--kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  176 VGLSLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS--KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             hcCCHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC--CCCCCChHHHHHHHHHCCCH
Confidence            3456677778888888999999998888 78888999999999999999998887665  44668999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHH
Q 038429          202 EKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWV  242 (258)
Q Consensus       202 ~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~  242 (258)
                      .+|..+..++          ++..-+..|.+.|++.+|.+.
T Consensus       254 ~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  254 KEASKYIPKI----------PDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHH
Confidence            9999888762          224446667777777777654

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.62  E-value=0.00074  Score=43.45  Aligned_cols=93  Identities=14%  Similarity=0.069  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK  232 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  232 (258)
                      .+..+...+...|++++|.+.|....+  | +...+..+...+...|++++|...++...... +.+..++..+...+..
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            355677788889999999999987654  3 44667778888888899999999999887753 2344678888888999


Q ss_pred             cCChhHHHHHHHHHHHc
Q 038429          233 KRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       233 ~g~~~~a~~~~~~m~~~  249 (258)
                      .|+.+.|...+....+.
T Consensus        81 ~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          81 LGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHhHHHHHHHHHHHHcc
Confidence            99999999999887653

>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=97.60  E-value=0.00033  Score=52.74  Aligned_cols=101  Identities=9%  Similarity=0.112  Sum_probs=69.0

Q ss_pred             hhHHHHHHHHHhhccCcchhhhhhhhhhhhccC---CCChHHHHHHhccCCC----CChhhHHHHHHHHhcC--------
Q 038429           37 KQLKRIHAQMLSTDFFFDPYSASKLFTPCALST---FSSLEYARKMFDQIPQ----PNLYTWNTLIRAYSSS--------  101 (258)
Q Consensus        37 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~---~~~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~--------  101 (258)
                      ......|+....  -..+..+|..+|..|.+..   .|.++-....+..|.+    .|..+|+.|++.+-+.        
T Consensus        31 ~~~~~~f~~~~~--~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~f  108 (228)
T PF06239_consen   31 APHEELFERAPG--QAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFF  108 (228)
T ss_pred             cchHHHHHHHhh--ccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHH
Confidence            333444544432  2446667777777766441   2355555555555543    6777777777776653        


Q ss_pred             --------CChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCc
Q 038429          102 --------DEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQF  140 (258)
Q Consensus       102 --------g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~  140 (258)
                              .+.+-|++++++| ...|+.||..|+..+++.+++.+..
T Consensus       109 Q~~F~hyp~Qq~c~i~lL~qM-E~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  109 QAEFMHYPRQQECAIDLLEQM-ENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHhccCcHHHHHHHHHHHHH-HHcCCCCcHHHHHHHHHHhccccHH
Confidence                    2457889999999 9999999999999999999987753

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=97.59  E-value=0.0044  Score=52.06  Aligned_cols=144  Identities=16%  Similarity=0.124  Sum_probs=109.1

Q ss_pred             cccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CC-hhhHHHHHHHHhcCCChhhHH
Q 038429           32 FLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PN-LYTWNTLIRAYSSSDEPIQSF  108 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~-~~~~~~li~~~~~~g~~~~a~  108 (258)
                      +.++..+|.++|+..+... ..+...|-.-+.+=.+..  .+.+|..+|++...  |- -..|-.-+..=-..|++..|-
T Consensus        85 sq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk--~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaR  161 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNK--QVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGAR  161 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhh--hHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHH
Confidence            3567788899999888776 446667777788778888  88899988886643  22 234555555555668888888


Q ss_pred             HHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          109 MIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       109 ~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      ++|++=   ....|+..+|.+.|+-=.+-..++.|..+++..   .|++..|--....=.++|.+..|..+|....
T Consensus       162 qiferW---~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAi  234 (677)
T KOG1915|consen  162 QIFERW---MEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAI  234 (677)
T ss_pred             HHHHHH---HcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            888764   236788888988888888888888888888888   8888888887777778888888888776554

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.59  E-value=0.0024  Score=45.89  Aligned_cols=82  Identities=10%  Similarity=0.035  Sum_probs=39.5

Q ss_pred             HHHHhcCCHHHHHHHHHhcCC--CCh----hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 038429          162 HFYAVCGDLAMAYCVFVMIGK--KDV----VSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRD  235 (258)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  235 (258)
                      ..+...|++++|...|+....  ||.    ...-.|...+...|++++|+..++......  .....+...-+.+.+.|+
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~  133 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGD  133 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCC
Confidence            444555555555555554432  221    122233445555566666666554422211  122344455555666666


Q ss_pred             hhHHHHHHHH
Q 038429          236 LEFGIWVSSH  245 (258)
Q Consensus       236 ~~~a~~~~~~  245 (258)
                      .++|...|+.
T Consensus       134 ~~~A~~~y~~  143 (145)
T PF09976_consen  134 YDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHH
Confidence            6666665553

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

Probab=97.59  E-value=0.0091  Score=50.21  Aligned_cols=171  Identities=11%  Similarity=-0.019  Sum_probs=121.7

Q ss_pred             ChHHHHHHhccCCC------CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhh
Q 038429           72 SLEYARKMFDQIPQ------PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQA  145 (258)
Q Consensus        72 ~~~~a~~~~~~m~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  145 (258)
                      ++.++...-++++.      ++...+...+.+......-..+...+-.- .+.  .-...-|..-+ .+-..|.++.|+.
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~-~~~--~~~aa~YG~A~-~~~~~~~~d~A~~  327 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKR-SKR--GGLAAQYGRAL-QTYLAGQYDEALK  327 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHH-hCc--cchHHHHHHHH-HHHHhcccchHHH
Confidence            56677767777764      56666777777666554433333333322 331  11122243333 3446788999999


Q ss_pred             hhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CC-hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC
Q 038429          146 IHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KD-VVSWNSMISGFVEGGFFEKAIELYREMEVENVKP  218 (258)
Q Consensus       146 ~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  218 (258)
                      .+..+    +.|.+.+......+.+.++.++|.+.++.+..  |+ ....-.+-.+|.+.|+..+|+.++++-... .+-
T Consensus       328 ~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~-~p~  406 (484)
T COG4783         328 LLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN-DPE  406 (484)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc-CCC
Confidence            98888    55666777778999999999999999998865  55 345556778899999999999999987765 455


Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          219 DEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       219 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      |...|..|-.+|...|+..++..-..+..
T Consensus       407 dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         407 DPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             CchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            77899999999999999888877766654

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

Probab=97.55  E-value=0.00028  Score=61.64  Aligned_cols=189  Identities=16%  Similarity=0.024  Sum_probs=133.1

Q ss_pred             cchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHH
Q 038429           34 TNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQ  113 (258)
Q Consensus        34 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  113 (258)
                      |+-..|..+..+..+  -+||+..|..+.+....-.  -+++|.++++....+--.+   +-......++++++.+.|+.
T Consensus       438 g~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s--~yEkawElsn~~sarA~r~---~~~~~~~~~~fs~~~~hle~  510 (777)
T KOG1128|consen  438 GQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPS--LYEKAWELSNYISARAQRS---LALLILSNKDFSEADKHLER  510 (777)
T ss_pred             cccchHHHHHHHHhc--CCCcchhHHHhhhhccChH--HHHHHHHHhhhhhHHHHHh---hccccccchhHHHHHHHHHH
Confidence            344444444444443  3688888888888887777  7888988887654332222   22223347899999999987


Q ss_pred             hHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC---Chh
Q 038429          114 LVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK---DVV  186 (258)
Q Consensus       114 m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~  186 (258)
                      -.+-...  -..+|-.+-.+..+.++++.+...|...    +.+...||++-.+|.+.|+-.+|.+.+.+..+-   +..
T Consensus       511 sl~~npl--q~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~  588 (777)
T KOG1128|consen  511 SLEINPL--QLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQ  588 (777)
T ss_pred             HhhcCcc--chhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCe
Confidence            6343333  3457777777788889999988888777    455569999999999999999999999987763   556


Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHcC-CCCChhhHHHHHHHHh
Q 038429          187 SWNSMISGFVEGGFFEKAIELYREMEVEN-VKPDEVTMVVVLSACA  231 (258)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~t~~~li~~~~  231 (258)
                      .|...+....+.|.+++|++.+.++.... -.-|......++....
T Consensus       589 iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~~  634 (777)
T KOG1128|consen  589 IWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTVL  634 (777)
T ss_pred             eeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHHH
Confidence            77788888899999999999999886532 1124444444444443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.53  E-value=0.0024  Score=43.64  Aligned_cols=96  Identities=11%  Similarity=-0.010  Sum_probs=73.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC--CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHcC--CCCChhhHHHH
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK--KD----VVSWNSMISGFVEGGFFEKAIELYREMEVEN--VKPDEVTMVVV  226 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~t~~~l  226 (258)
                      .++..+...+.+.|++++|.+.|..+.+  |+    ...+..+...+.+.|++++|...|+......  -......+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            3566777888889999999999988754  33    2356668888899999999999999887642  11124457777


Q ss_pred             HHHHhccCChhHHHHHHHHHHHcC
Q 038429          227 LSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       227 i~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      ...+.+.|+.++|...++++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            788888999999999999888763

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.51  E-value=0.0012  Score=52.96  Aligned_cols=138  Identities=11%  Similarity=0.067  Sum_probs=94.5

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcC-CCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHH
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNS-PYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHF  163 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~  163 (258)
                      .+|-.+|+..-+.+..+.|-.+|.+. ++. .+........+++. +...++.+.|..||+..    +.+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a-~~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRA-RKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH-HCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHH-HcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46778888888888888888888888 433 22333333333332 33345677788888888    7777888889999


Q ss_pred             HHhcCCHHHHHHHHHhcCC--C----ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038429          164 YAVCGDLAMAYCVFVMIGK--K----DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       164 ~~~~g~~~~a~~~~~~m~~--~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      +.+.|+.+.|..+|++...  +    -...|...|.-=.+.|+.+.+..+.+++.+.  -|+...+..+++-|
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            9999999999999988765  2    2348888888888899999999998888764  35555555555544

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=97.46  E-value=0.014  Score=50.83  Aligned_cols=145  Identities=11%  Similarity=-0.050  Sum_probs=84.5

Q ss_pred             cchhhHHHHHHHHHhh-ccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHH
Q 038429           34 TNQKQLKRIHAQMLST-DFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFL  112 (258)
Q Consensus        34 ~~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~  112 (258)
                      +++......|+..+.. .+.....+|.-.+......+  -.+.+..++++..+.++..-+.-|..++..+++++|-+.+.
T Consensus       116 ~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~--lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la  193 (835)
T KOG2047|consen  116 GLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHG--LPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLA  193 (835)
T ss_pred             chHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCC--ChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHH
Confidence            3444444444444332 23333444555555555555  66677777777777667777778888888888888888777


Q ss_pred             HhHhcC-----CCCCCcchHHHHHHHhcCcCCcchhh---hhhhcc---cCc--hhHHHHHHHHHHhcCCHHHHHHHHHh
Q 038429          113 QLVYNS-----PYFPNEFTLPFVIKAAARPVQFRVGQ---AIHGMF---EDD--LVISNSLIHFYAVCGDLAMAYCVFVM  179 (258)
Q Consensus       113 ~m~~~~-----~~~p~~~~~~~ll~~~~~~~~~~~a~---~~~~~~---~~~--~~~~~~li~~~~~~g~~~~a~~~~~~  179 (258)
                      ..+.+.     .-+.+...|..+-+..++..+.-...   .++..+   -+|  ...|++|.+-|.+.|.+++|.++|++
T Consensus       194 ~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyee  273 (835)
T KOG2047|consen  194 TVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEE  273 (835)
T ss_pred             HhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            663211     11334445666655555554433322   233333   223  24788888888888888888888765


Q ss_pred             c
Q 038429          180 I  180 (258)
Q Consensus       180 m  180 (258)
                      .
T Consensus       274 a  274 (835)
T KOG2047|consen  274 A  274 (835)
T ss_pred             H
Confidence            4

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.45  E-value=0.0019  Score=46.39  Aligned_cols=51  Identities=14%  Similarity=0.203  Sum_probs=26.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCC--ChhhHHHHHHHHHcCCChHHHHHHHHH
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIGKK--DVVSWNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      |...+...|++++|...++....+  ....+...-..|.+.|++++|...|+.
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            444555556666666666543332  222333444555566666666665543

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

Probab=97.45  E-value=0.0054  Score=47.71  Aligned_cols=134  Identities=8%  Similarity=-0.120  Sum_probs=77.9

Q ss_pred             HHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCC
Q 038429           41 RIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPY  120 (258)
Q Consensus        41 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  120 (258)
                      ++.+++.......+......-...|...+  ++++|.+......  +..+...=+..+.+..+.+-|.+.+++| .+-  
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~--~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~m-q~i--  166 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDG--DFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKM-QQI--  166 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCC--ChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hcc--
Confidence            34444444443444333334444566666  8888888777743  3333333344556667777888888777 432  


Q ss_pred             CCCcchHHHHHHHh----cCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 038429          121 FPNEFTLPFVIKAA----ARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       121 ~p~~~~~~~ll~~~----~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (258)
                       -+..|.+.|..++    ...+.+..|.-+|+.+    +|+.-+.|....++...|++++|..++++...
T Consensus       167 -ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~  235 (299)
T KOG3081|consen  167 -DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALD  235 (299)
T ss_pred             -chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHh
Confidence             2344555444443    3344566666666666    56666666666666667777777777666544

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

Probab=97.42  E-value=0.041  Score=48.35  Aligned_cols=182  Identities=10%  Similarity=0.001  Sum_probs=120.6

Q ss_pred             hhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCc
Q 038429           61 LFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARP  137 (258)
Q Consensus        61 li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~  137 (258)
                      ...-+..+|  ++..|..++.+.-+   .+...|-.-+..-..+.++++|..+|.+. +.  ..|+...|.--++.---.
T Consensus       590 ~ake~w~ag--dv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llaka-r~--~sgTeRv~mKs~~~er~l  664 (913)
T KOG0495|consen  590 YAKEKWKAG--DVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKA-RS--ISGTERVWMKSANLERYL  664 (913)
T ss_pred             HHHHHHhcC--CcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHH-hc--cCCcchhhHHHhHHHHHh
Confidence            333344444  66666665554432   34455666666667777777777777655 32  456666666555555556


Q ss_pred             CCcchhhhhhhcc---cCch-hHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHH
Q 038429          138 VQFRVGQAIHGMF---EDDL-VISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       138 ~~~~~a~~~~~~~---~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      ++.++|.++++..   -|+- -.|-.+-..+-+.++++.|.+.|..=.+  | .+..|-.|...=-+.|..-.|..++++
T Consensus       665 d~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildr  744 (913)
T KOG0495|consen  665 DNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDR  744 (913)
T ss_pred             hhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHH
Confidence            6677777776665   3333 3566666666777777777777764433  5 444566666666778899999999998


Q ss_pred             HHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          211 MEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       211 m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      -...+ +-|...|...|+.-.+.|+.+.|..+..+..+
T Consensus       745 arlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ  781 (913)
T KOG0495|consen  745 ARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQ  781 (913)
T ss_pred             HHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            87765 23667899999999999999999888776654

>PLN02789 farnesyltranstransferase

Probab=97.41  E-value=0.02  Score=46.86  Aligned_cols=210  Identities=8%  Similarity=-0.041  Sum_probs=136.6

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh--hhH
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP--IQS  107 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~--~~a  107 (258)
                      .+..++|..+.+.+++.+ +-+..+|+.--.++...+ .++++++..++++.+   .+..+|+..-..+.+.|+.  +++
T Consensus        50 ~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~-~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~e  127 (320)
T PLN02789         50 DERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALD-ADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKE  127 (320)
T ss_pred             CCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcc-hhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHH
Confidence            345556666666655543 223334544433444443 146888888877653   4566787766666666653  677


Q ss_pred             HHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhc---CCH----HHHHHH
Q 038429          108 FMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVC---GDL----AMAYCV  176 (258)
Q Consensus       108 ~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~---g~~----~~a~~~  176 (258)
                      +.+++.+ .+.+ +-|..+|+-..-++.+.|+++++...++.+    +.+...|+.....+.+.   |+.    ++..+.
T Consensus       128 l~~~~ka-l~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y  205 (320)
T PLN02789        128 LEFTRKI-LSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKY  205 (320)
T ss_pred             HHHHHHH-HHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHHHHHH
Confidence            8888888 3332 345677887777888888999999988888    66777888877766655   323    345555


Q ss_pred             HHhcC--CC-ChhhHHHHHHHHHcC----CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccC---------------
Q 038429          177 FVMIG--KK-DVVSWNSMISGFVEG----GFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKR---------------  234 (258)
Q Consensus       177 ~~~m~--~~-~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g---------------  234 (258)
                      .....  .| |...|+-+...+...    ++..+|.+.+.+....+ ..+......|++.|+...               
T Consensus       206 ~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~  284 (320)
T PLN02789        206 TIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAE  284 (320)
T ss_pred             HHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchhhhhhhhcccc
Confidence            54443  34 778899888888773    33456888887766543 235667888888888642               


Q ss_pred             ---ChhHHHHHHHHHH
Q 038429          235 ---DLEFGIWVSSHIE  247 (258)
Q Consensus       235 ---~~~~a~~~~~~m~  247 (258)
                         ..++|..+++.+.
T Consensus       285 ~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        285 ELSDSTLAQAVCSELE  300 (320)
T ss_pred             ccccHHHHHHHHHHHH
Confidence               2367888888873

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.39  E-value=0.0036  Score=49.57  Aligned_cols=189  Identities=12%  Similarity=0.056  Sum_probs=126.2

Q ss_pred             hhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHH-HHH
Q 038429           58 ASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFV-IKA  133 (258)
Q Consensus        58 ~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l-l~~  133 (258)
                      +.+.+-.+.+..  ++++|.+++..-.+   ++....+.+-.+|-...++..|-..++++ -..  -|...-|..- ...
T Consensus        13 ftaviy~lI~d~--ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL-~ql--~P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   13 FTAVVYRLIRDA--RYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQL-GQL--HPELEQYRLYQAQS   87 (459)
T ss_pred             hHHHHHHHHHHh--hHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHH-Hhh--ChHHHHHHHHHHHH
Confidence            444454555666  78888877764433   35566777778888888888888888877 322  3444444321 223


Q ss_pred             hcCcCCcchhhhhhhcccC--chhHHHHHHHHHH--hcCCHHHHHHHHHhcCC-CChhhHHHHHHHHHcCCChHHHHHHH
Q 038429          134 AARPVQFRVGQAIHGMFED--DLVISNSLIHFYA--VCGDLAMAYCVFVMIGK-KDVVSWNSMISGFVEGGFFEKAIELY  208 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~~~--~~~~~~~li~~~~--~~g~~~~a~~~~~~m~~-~~~~~~~~li~~~~~~g~~~~a~~~~  208 (258)
                      +-+.+.+..|.++...|..  ....-..-+.+-.  ..+++..+..+.+.... .+..+.+..-....+.|+.+.|.+-|
T Consensus        88 LY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkF  167 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKF  167 (459)
T ss_pred             HHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHH
Confidence            4456677778888877733  2222222233322  35778888888877763 45555555555567889999999999


Q ss_pred             HHHHHc-CCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCcc
Q 038429          209 REMEVE-NVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKM  253 (258)
Q Consensus       209 ~~m~~~-~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  253 (258)
                      ....+. |+.| ...|+..+.-|. .|+.+.|.+...+++++|++-
T Consensus       168 qaAlqvsGyqp-llAYniALaHy~-~~qyasALk~iSEIieRG~r~  211 (459)
T KOG4340|consen  168 QAALQVSGYQP-LLAYNLALAHYS-SRQYASALKHISEIIERGIRQ  211 (459)
T ss_pred             HHHHhhcCCCc-hhHHHHHHHHHh-hhhHHHHHHHHHHHHHhhhhc
Confidence            887765 6655 678888887765 589999999999999999764

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.33  E-value=0.003  Score=46.77  Aligned_cols=82  Identities=7%  Similarity=-0.040  Sum_probs=38.5

Q ss_pred             ChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCC-CCC-cchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHH
Q 038429           87 NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPY-FPN-EFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSL  160 (258)
Q Consensus        87 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~l  160 (258)
                      ....|..+...+...|++++|+..|++. .+... .++ ...+..+...+.+.|++++|...+...    +.+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~a-l~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEA-LKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHH-HHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHH
Confidence            3344555666666666666666666665 22111 111 123444444444444444444444444    2233344444


Q ss_pred             HHHHHhcCC
Q 038429          161 IHFYAVCGD  169 (258)
Q Consensus       161 i~~~~~~g~  169 (258)
                      ...|...|+
T Consensus       113 g~~~~~~g~  121 (172)
T PRK02603        113 AVIYHKRGE  121 (172)
T ss_pred             HHHHHHcCC
Confidence            444544444

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.30  E-value=0.0012  Score=44.29  Aligned_cols=46  Identities=13%  Similarity=0.047  Sum_probs=32.6

Q ss_pred             HHHHHHHhcCCChhhHHHHHHHhHhcCCC-CCCcchHHHHHHHhcCcC
Q 038429           92 NTLIRAYSSSDEPIQSFMIFLQLVYNSPY-FPNEFTLPFVIKAAARPV  138 (258)
Q Consensus        92 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~p~~~~~~~ll~~~~~~~  138 (258)
                      ...|..+...+++.....+|+.+ ++.|+ .|+..+|+.++.+.++..
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqsl-kRN~i~lPsv~~Yn~VL~Si~~R~   75 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSL-KRNGITLPSVELYNKVLKSIAKRE   75 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHH-HhcCCCCCcHHHHHHHHHHHHHcc
Confidence            34555555567777777788777 77777 777777877777766643

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 [, , ].

>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=97.30  E-value=0.0047  Score=43.08  Aligned_cols=81  Identities=11%  Similarity=-0.025  Sum_probs=62.6

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcC-------------------CCChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMIG-------------------KKDVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~-------------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      |..++.++|.++++.|+++....+.+..-                   .|+..+..+++.+|+.+|++..|+++.+...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            34566777777777777777777665431                   26888999999999999999999999999876


Q ss_pred             c-CCCCChhhHHHHHHHHhcc
Q 038429          214 E-NVKPDEVTMVVVLSACAKK  233 (258)
Q Consensus       214 ~-~~~p~~~t~~~li~~~~~~  233 (258)
                      . +++.+..+|..|++-+...
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHh
Confidence            5 7777788898888866443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.29  E-value=0.00032  Score=45.26  Aligned_cols=52  Identities=15%  Similarity=0.148  Sum_probs=25.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCC-C-ChhhHHHHHHHHHcCCChHHHHHHHHH
Q 038429          159 SLIHFYAVCGDLAMAYCVFVMIGK-K-DVVSWNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~-~-~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      .+..+|.+.|++++|.++++.... + +....-.+-.+|.+.|++++|+.++++
T Consensus        30 ~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l~~   83 (84)
T PF12895_consen   30 NLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKALEK   83 (84)
T ss_dssp             HHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHHhc
Confidence            355555666666666666655111 1 212222334455556666666665543

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

Probab=97.26  E-value=0.019  Score=50.99  Aligned_cols=196  Identities=12%  Similarity=0.009  Sum_probs=134.9

Q ss_pred             hhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCc
Q 038429           48 STDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNE  124 (258)
Q Consensus        48 ~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~  124 (258)
                      ...+..++.+|..|..+...+|  +++.+.+.|++...   .....|+.+-..|...|....|..+++.-.....-+++.
T Consensus       316 ~~~~qnd~ai~d~Lt~al~~~g--~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~  393 (799)
T KOG4162|consen  316 LKKFQNDAAIFDHLTFALSRCG--QFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDI  393 (799)
T ss_pred             HhhhcchHHHHHHHHHHHHHHH--HHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcc
Confidence            3466779999999999999999  99999999998765   456779999999999999999999988762222222333


Q ss_pred             chHHHHHHHhcCc-CCcchhhhhhhcc---------cCchhHHHHHHHHHHhc-----------CCHHHHHHHHHhcCC-
Q 038429          125 FTLPFVIKAAARP-VQFRVGQAIHGMF---------EDDLVISNSLIHFYAVC-----------GDLAMAYCVFVMIGK-  182 (258)
Q Consensus       125 ~~~~~ll~~~~~~-~~~~~a~~~~~~~---------~~~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~-  182 (258)
                      ..+-..-..|.+. +..+++...-...         ......|-.+--+|+..           ....++.+.+++..+ 
T Consensus       394 s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~  473 (799)
T KOG4162|consen  394 SVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQF  473 (799)
T ss_pred             hHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhc
Confidence            3344444444433 4444444333322         33334444444444432           124566777776654 


Q ss_pred             ----CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          183 ----KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       183 ----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                          |++.-|-++  -|+..++++.|++..++..+.+-.-+...|..|.-.+...+++.+|..+++...
T Consensus       474 d~~dp~~if~lal--q~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al  540 (799)
T KOG4162|consen  474 DPTDPLVIFYLAL--QYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAAL  540 (799)
T ss_pred             CCCCchHHHHHHH--HHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence                333333333  456667899999999999988666788889999999999999999999998654

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

Probab=97.25  E-value=0.015  Score=53.58  Aligned_cols=53  Identities=17%  Similarity=0.088  Sum_probs=29.7

Q ss_pred             hHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 038429          126 TLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVM  179 (258)
Q Consensus       126 ~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~  179 (258)
                      ++..+..+|-+.|+.+++..+++.+    +.|+...|.+...|... ++++|.+++..
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~K  174 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKK  174 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHH
Confidence            4444555555556666666665555    44555555565555555 56665555544

>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=0.0028  Score=44.23  Aligned_cols=79  Identities=8%  Similarity=0.037  Sum_probs=58.0

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCC-------------------CCChhhHHHHHHHHhcCCChhhHHHHHHHh
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIP-------------------QPNLYTWNTLIRAYSSSDEPIQSFMIFLQL  114 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~-------------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  114 (258)
                      |..++..+|-++++.|  +++....+++..-                   .|+.....+++.+|+..|++..|+++++..
T Consensus         1 de~~~~~ii~al~r~g--~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~f   78 (126)
T PF12921_consen    1 DEELLCNIIYALGRSG--QLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFF   78 (126)
T ss_pred             ChHHHHHHHHHHhhcC--CHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            3456777788888888  8777777765331                   167777888888888888888888888887


Q ss_pred             HhcCCCCCCcchHHHHHHHh
Q 038429          115 VYNSPYFPNEFTLPFVIKAA  134 (258)
Q Consensus       115 ~~~~~~~p~~~~~~~ll~~~  134 (258)
                      .+..+++.+..+|..|++=+
T Consensus        79 s~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   79 SRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HHHcCCCCCHHHHHHHHHHH
Confidence            67777777777777777644

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.21  E-value=0.0043  Score=45.72  Aligned_cols=27  Identities=11%  Similarity=0.084  Sum_probs=15.6

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHh
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQL  114 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m  114 (258)
                      ...|..+...+...|++++|+..|+..
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~a   61 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEA   61 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344555555555566666666666555

>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=97.20  E-value=0.0015  Score=41.89  Aligned_cols=90  Identities=13%  Similarity=0.112  Sum_probs=47.4

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCH
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDL  170 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~  170 (258)
                      |..+...+...|++++|...++.. .+.  .|+                             +...+..+...+...|++
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~-~~~--~~~-----------------------------~~~~~~~~~~~~~~~~~~   50 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKA-LEL--DPD-----------------------------NADAYYNLAAAYYKLGKY   50 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHH-Hhc--CCc-----------------------------cHHHHHHHHHHHHHHHHH
Confidence            445566666677777777777666 222  111                             112334444445555555


Q ss_pred             HHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          171 AMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       171 ~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      ++|.+.|+...+  | +..++..+...+...|+.++|...+.+..
T Consensus        51 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~   95 (100)
T cd00189          51 EEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKAL   95 (100)
T ss_pred             HHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            566655554332  2 33445555555566666666666655544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.16  E-value=0.029  Score=52.74  Aligned_cols=218  Identities=11%  Similarity=0.011  Sum_probs=134.5

Q ss_pred             cccccchhhHHHHHHHHHhhcc---Cc--chhhhhhhhhhhhccCCCChHHHHHHhccCCC-------C----ChhhHHH
Q 038429           30 PHFLTNQKQLKRIHAQMLSTDF---FF--DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-------P----NLYTWNT   93 (258)
Q Consensus        30 ~~~~~~~~~a~~~~~~m~~~~~---~~--~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-------~----~~~~~~~   93 (258)
                      +...|++++|...+.+.....-   .+  ...++..+...+...|  +++.|...+++...       +    ....+..
T Consensus       501 ~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  578 (903)
T PRK04841        501 HHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQG--FLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRI  578 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhccccccHHHHHHHH
Confidence            4456788888888877764311   11  1234455566667777  88888887765432       1    1223445


Q ss_pred             HHHHHhcCCChhhHHHHHHHhHhc-CCCCCC--cchHHHHHHHhcCcCCcchhhhhhhcc-----cC-chhHH-----HH
Q 038429           94 LIRAYSSSDEPIQSFMIFLQLVYN-SPYFPN--EFTLPFVIKAAARPVQFRVGQAIHGMF-----ED-DLVIS-----NS  159 (258)
Q Consensus        94 li~~~~~~g~~~~a~~~~~~m~~~-~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~-~~~~~-----~~  159 (258)
                      +...+...|++++|...+.+.... ....+.  ..++..+...+...|+++.|...+...     .. ....+     ..
T Consensus       579 la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~  658 (903)
T PRK04841        579 RAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKV  658 (903)
T ss_pred             HHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHH
Confidence            555667779999998888775221 111121  233444555677788888887776665     11 11111     11


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCCChh-------hHHHHHHHHHcCCChHHHHHHHHHHHHc----CCCCC-hhhHHHHH
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIGKKDVV-------SWNSMISGFVEGGFFEKAIELYREMEVE----NVKPD-EVTMVVVL  227 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~~~~~-------~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~t~~~li  227 (258)
                      .+..+...|+.+.|.+.+.....+...       .+..+..++...|+.++|..++++....    |..++ ..+...+-
T Consensus       659 ~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la  738 (903)
T PRK04841        659 RLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLN  738 (903)
T ss_pred             HHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            224445678888988888766543211       1345666778889999999999887553    33332 24566667


Q ss_pred             HHHhccCChhHHHHHHHHHHHc
Q 038429          228 SACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .++.+.|+.++|...+.+..+.
T Consensus       739 ~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        739 QLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            7788999999999999987654

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.15  E-value=0.0028  Score=50.88  Aligned_cols=124  Identities=13%  Similarity=0.031  Sum_probs=93.8

Q ss_pred             chHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHH-HHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHH
Q 038429          125 FTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHF-YAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFV  196 (258)
Q Consensus       125 ~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~-~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~  196 (258)
                      .+|..+++..-+.+..+.|..+|...    ..+..+|-..... |...++.+.|.++|+...+   .+...|...+.-+.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~   81 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFLI   81 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            36888889999999999999999999    2234444444444 3335677779999998765   47788999999999


Q ss_pred             cCCChHHHHHHHHHHHHcCCCCCh---hhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          197 EGGFFEKAIELYREMEVENVKPDE---VTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       197 ~~g~~~~a~~~~~~m~~~~~~p~~---~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ..|+.+.|..+|++.... +.++.   ..|...++--.+.|+++.+..+.+.+.+.
T Consensus        82 ~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   82 KLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999998765 43333   47999999999999999999999887653

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.

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

Probab=97.10  E-value=0.083  Score=46.24  Aligned_cols=100  Identities=14%  Similarity=0.122  Sum_probs=73.1

Q ss_pred             cCchhHHH--HHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHH---HHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHH
Q 038429          151 EDDLVISN--SLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSM---ISGFVEGGFFEKAIELYREMEVENVKPDEVTMVV  225 (258)
Q Consensus       151 ~~~~~~~~--~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~  225 (258)
                      +|+...|+  -++..|-+.|+++.|....+.....++..+...   -..+..+|.+++|..++++..+... ||...=..
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INsK  444 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINSK  444 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHHH
Confidence            45555554  567888899999999999998877544433333   3677889999999999998877542 44444335


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHcCC
Q 038429          226 VLSACAKKRDLEFGIWVSSHIEKNGI  251 (258)
Q Consensus       226 li~~~~~~g~~~~a~~~~~~m~~~g~  251 (258)
                      -.+-..+.+++++|.++.....+.|.
T Consensus       445 cAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  445 CAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHccccHHHHHHHHHhhhccc
Confidence            56666788999999999888877764

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.07  E-value=0.0021  Score=41.38  Aligned_cols=78  Identities=12%  Similarity=-0.018  Sum_probs=58.4

Q ss_pred             ccchhhHHHHHHHHHhhccC-cchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHH
Q 038429           33 LTNQKQLKRIHAQMLSTDFF-FDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSF  108 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~  108 (258)
                      .|+++.|..+++.+...... ++...+-.+..++.+.|  ++++|..+++. .+   .+....-.+..++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~--~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQG--KYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTT--HHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCC--CHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            46788999999999887642 34555666888899999  99999999988 33   34344556688889999999999


Q ss_pred             HHHHH
Q 038429          109 MIFLQ  113 (258)
Q Consensus       109 ~~~~~  113 (258)
                      ++|++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            98875

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.05  E-value=0.044  Score=51.57  Aligned_cols=217  Identities=12%  Similarity=-0.016  Sum_probs=136.4

Q ss_pred             cccccchhhHHHHHHHHHhhccCcch----hhhhhhhhhhhccCCCChHHHHHHhccCCC-------C--ChhhHHHHHH
Q 038429           30 PHFLTNQKQLKRIHAQMLSTDFFFDP----YSASKLFTPCALSTFSSLEYARKMFDQIPQ-------P--NLYTWNTLIR   96 (258)
Q Consensus        30 ~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-------~--~~~~~~~li~   96 (258)
                      +...|+++.+...+......--..+.    ...+.+...+...|  +++.|...+++...       +  -..++..+..
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G--~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~  539 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKG--ELARALAMMQQTEQMARQHDVYHYALWSLLQQSE  539 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHH
Confidence            34577889999988887653111121    23455555666778  99999888876542       1  1234566677


Q ss_pred             HHhcCCChhhHHHHHHHhHh---cCCCCC---CcchHHHHHHHhcCcCCcchhhhhhhcc-------cC--chhHHHHHH
Q 038429           97 AYSSSDEPIQSFMIFLQLVY---NSPYFP---NEFTLPFVIKAAARPVQFRVGQAIHGMF-------ED--DLVISNSLI  161 (258)
Q Consensus        97 ~~~~~g~~~~a~~~~~~m~~---~~~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~-------~~--~~~~~~~li  161 (258)
                      .+...|++++|...+++...   ..+...   ....+..+...+...|++++|...+...       .+  ....+..+.
T Consensus       540 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  619 (903)
T PRK04841        540 ILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLA  619 (903)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHH
Confidence            88889999999998877522   222211   1223444555667779999998877766       11  233444566


Q ss_pred             HHHHhcCCHHHHHHHHHhcCC----CC-hhhH-----HHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh---hhHHHHHH
Q 038429          162 HFYAVCGDLAMAYCVFVMIGK----KD-VVSW-----NSMISGFVEGGFFEKAIELYREMEVENVKPDE---VTMVVVLS  228 (258)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~----~~-~~~~-----~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~---~t~~~li~  228 (258)
                      ..+...|+.++|.+.+.....    .. ...+     ...+..+...|+.+.|..++............   ..+..+..
T Consensus       620 ~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~  699 (903)
T PRK04841        620 KISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIAR  699 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHH
Confidence            677889999999988876632    11 1111     11224455678999998887665432111111   11345667


Q ss_pred             HHhccCChhHHHHHHHHHHH
Q 038429          229 ACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       229 ~~~~~g~~~~a~~~~~~m~~  248 (258)
                      ++...|+.++|...+++...
T Consensus       700 ~~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        700 AQILLGQFDEAEIILEELNE  719 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            78889999999999998754

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

Probab=97.04  E-value=0.028  Score=49.97  Aligned_cols=227  Identities=11%  Similarity=-0.095  Sum_probs=142.7

Q ss_pred             eeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--C----------
Q 038429           19 TLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P----------   86 (258)
Q Consensus        19 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~----------   86 (258)
                      .+..+..+...++..++++.|.+...+..+.+-.-++..|..|...++..+  ++.+|+.+.+....  +          
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~k--r~~~Al~vvd~al~E~~~N~~l~~~~~  554 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQK--RLKEALDVVDAALEEFGDNHVLMDGKI  554 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhh--hhHHHHHHHHHHHHHhhhhhhhchhhh
Confidence            334444444567778899999999999988866778888998888888888  99988888764321  1          


Q ss_pred             -----------ChhhHHHHHHHHhcC-----------------------CChhhHHHHHHHhH-------hcCC------
Q 038429           87 -----------NLYTWNTLIRAYSSS-----------------------DEPIQSFMIFLQLV-------YNSP------  119 (258)
Q Consensus        87 -----------~~~~~~~li~~~~~~-----------------------g~~~~a~~~~~~m~-------~~~~------  119 (258)
                                 -..|+..++..+-..                       ++..++.+-.....       +..|      
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp  634 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLP  634 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccC
Confidence                       122233333322200                       01111111111110       0011      


Q ss_pred             ---CCCCcc--------hHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC--C
Q 038429          120 ---YFPNEF--------TLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG--K  182 (258)
Q Consensus       120 ---~~p~~~--------~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~--~  182 (258)
                         +.|+..        .|......+.+.++.++|...+.+.    +.....|...-..+-..|..++|.+.|....  .
T Consensus       635 ~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld  714 (799)
T KOG4162|consen  635 SSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD  714 (799)
T ss_pred             cccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC
Confidence               111111        1333444555566666665444444    4444555555566677788888888887654  4


Q ss_pred             C-ChhhHHHHHHHHHcCCChHHHHH--HHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          183 K-DVVSWNSMISGFVEGGFFEKAIE--LYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       183 ~-~~~~~~~li~~~~~~g~~~~a~~--~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      | ++...+++-..+.+.|+..-|..  ++.++.+.+ +-+...|-.+-..+-+.|+.+.|.+.|+-..+
T Consensus       715 P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  715 PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHh
Confidence            6 55678888899999998777777  888887754 23557789999999999999999999987654

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

Probab=97.03  E-value=0.015  Score=48.93  Aligned_cols=139  Identities=14%  Similarity=0.104  Sum_probs=69.7

Q ss_pred             ChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCc-chHHHHHHHhcCcCCcchhhhhh
Q 038429           72 SLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNE-FTLPFVIKAAARPVQFRVGQAIH  147 (258)
Q Consensus        72 ~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~  147 (258)
                      ++..|.++|++...   .+...|-.-+.+=.+..++..|-.++++.+.   +.|-+ ..|---+..=-..|++..|.++|
T Consensus        88 e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt---~lPRVdqlWyKY~ymEE~LgNi~gaRqif  164 (677)
T KOG1915|consen   88 EIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVT---ILPRVDQLWYKYIYMEEMLGNIAGARQIF  164 (677)
T ss_pred             HHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHH---hcchHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            44455555554432   3444454455555555555566666555421   11221 11222222223345555555555


Q ss_pred             hcc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhc--CCCChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          148 GMF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMI--GKKDVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       148 ~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      +.-   +|+...|++.|+.=.+-..++.|..+++..  ..|++.+|--...-=.++|++.-|..+|+...+
T Consensus       165 erW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie  235 (677)
T KOG1915|consen  165 ERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIE  235 (677)
T ss_pred             HHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            544   556666666666555555666666665543  235555555555555555555555555555443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.01  E-value=0.0084  Score=40.92  Aligned_cols=96  Identities=15%  Similarity=0.023  Sum_probs=52.9

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCC
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGD  169 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~  169 (258)
                      ++..+...+.+.|++++|...|+.+....   |+..                          .....+..+...+.+.|+
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---~~~~--------------------------~~~~~~~~l~~~~~~~~~   54 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKY---PKST--------------------------YAPNAHYWLGEAYYAQGK   54 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCcc--------------------------ccHHHHHHHHHHHHhhcc
Confidence            34555666666777777777777662221   1110                          001233345555666666


Q ss_pred             HHHHHHHHHhcCC--CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          170 LAMAYCVFVMIGK--KD----VVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       170 ~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ++.|.+.|+....  |+    ...+..+...+...|+.++|...+++....
T Consensus        55 ~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        55 YADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            6666666665432  32    234555555666666777777777666654

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.01  E-value=0.036  Score=50.99  Aligned_cols=86  Identities=13%  Similarity=-0.026  Sum_probs=59.5

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHh
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAA  134 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~  134 (258)
                      +.+|..+..+=.+.+  .+.+|.+-|-+.  .|+..|..++....+.|.+++-.+.+.-. ++..-.|...  +.||-+|
T Consensus      1104 p~vWsqlakAQL~~~--~v~dAieSyika--dDps~y~eVi~~a~~~~~~edLv~yL~Ma-Rkk~~E~~id--~eLi~Ay 1176 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGG--LVKDAIESYIKA--DDPSNYLEVIDVASRTGKYEDLVKYLLMA-RKKVREPYID--SELIFAY 1176 (1666)
T ss_pred             hHHHHHHHHHHHhcC--chHHHHHHHHhc--CCcHHHHHHHHHHHhcCcHHHHHHHHHHH-HHhhcCccch--HHHHHHH
Confidence            455666666666666  666666655433  56677888888888888888888877655 6666566544  5678888


Q ss_pred             cCcCCcchhhhhh
Q 038429          135 ARPVQFRVGQAIH  147 (258)
Q Consensus       135 ~~~~~~~~a~~~~  147 (258)
                      ++.+++.+-+.+.
T Consensus      1177 Akt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1177 AKTNRLTELEEFI 1189 (1666)
T ss_pred             HHhchHHHHHHHh
Confidence            8888776655544

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

Probab=97.00  E-value=0.022  Score=52.42  Aligned_cols=61  Identities=16%  Similarity=0.116  Sum_probs=50.6

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      +...+-.+..+|-+.|+.++|..+++++.+  | |....|.+-..|... +.++|++++.+....
T Consensus       115 ~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~  178 (906)
T PRK14720        115 NKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR  178 (906)
T ss_pred             hhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH
Confidence            335677788899999999999999998876  3 778899999999888 999999888776554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.98  E-value=0.054  Score=42.05  Aligned_cols=174  Identities=13%  Similarity=0.085  Sum_probs=112.8

Q ss_pred             CChHHHHHHhccCCC--------CCh-hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHH-HhcCcCCc
Q 038429           71 SSLEYARKMFDQIPQ--------PNL-YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIK-AAARPVQF  140 (258)
Q Consensus        71 ~~~~~a~~~~~~m~~--------~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~-~~~~~~~~  140 (258)
                      .+.++..+++.++..        ++. ..|..++-+....|+.+.|...++++ ++. . |+..-...|=. -+-..|++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L-~~~-f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQL-RDR-F-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHH-HHh-C-CCChhHHHHHHHHHHHhhch
Confidence            377778887776642        232 23666677777778888888888887 443 2 33322211111 12335678


Q ss_pred             chhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          141 RVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       141 ~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      ++|.+.++.+    +.|..++--=+-..-..|+.-+|++-+....+   -|...|.-+-+.|..-|++++|..-++++.-
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            8888888887    55666776666666667777777777766554   3888888888888888888888888888876


Q ss_pred             cCCCCCh-hhHHHHHHHHhccC---ChhHHHHHHHHHHHc
Q 038429          214 ENVKPDE-VTMVVVLSACAKKR---DLEFGIWVSSHIEKN  249 (258)
Q Consensus       214 ~~~~p~~-~t~~~li~~~~~~g---~~~~a~~~~~~m~~~  249 (258)
                      .  .|-. ..|..+-+.+-..|   +.+.|..++....+.
T Consensus       183 ~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  183 I--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             c--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            3  4544 34455555544433   455677777766554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.94  E-value=0.01  Score=47.74  Aligned_cols=107  Identities=14%  Similarity=0.107  Sum_probs=55.8

Q ss_pred             HHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhc-CCHHHHHHHHHhcCC-------C--ChhhHHHHHHHHHcCCC
Q 038429          131 IKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVC-GDLAMAYCVFVMIGK-------K--DVVSWNSMISGFVEGGF  200 (258)
Q Consensus       131 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~-------~--~~~~~~~li~~~~~~g~  200 (258)
                      +..|...|++..+-.+          +..+-..|-.. |++++|.+.|.+..+       +  -..++..+...+.+.|+
T Consensus       101 ~~~y~~~G~~~~aA~~----------~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~  170 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKC----------LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGR  170 (282)
T ss_dssp             HHHHHHCT-HHHHHHH----------HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-
T ss_pred             HHHHHhcCcHHHHHHH----------HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCC
Confidence            3444555555544332          33344444444 566666665554332       1  12355666777788888


Q ss_pred             hHHHHHHHHHHHHcCCC-----CChh-hHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          201 FEKAIELYREMEVENVK-----PDEV-TMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       201 ~~~a~~~~~~m~~~~~~-----p~~~-t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      +++|.++|++....-..     ++.. .|-..+-++...||...|.+.+++..
T Consensus       171 y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~  223 (282)
T PF14938_consen  171 YEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYC  223 (282)
T ss_dssp             HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88888888877654322     2222 22223334445678888888887765

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.91  E-value=0.0079  Score=50.10  Aligned_cols=59  Identities=5%  Similarity=-0.133  Sum_probs=30.9

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      ..|..+..+|.+.|++++|...++...+  | +...|..+-.+|...|++++|+..|++..+
T Consensus        37 ~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~   98 (356)
T PLN03088         37 ELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGAS   98 (356)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3444445555555555555555554432  2 334455555555555566666665555554

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

Probab=96.88  E-value=0.039  Score=47.70  Aligned_cols=173  Identities=9%  Similarity=-0.027  Sum_probs=106.6

Q ss_pred             hhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHh--cCc
Q 038429           63 TPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAA--ARP  137 (258)
Q Consensus        63 ~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~--~~~  137 (258)
                      +-+...+  ++++|.....++..   .+...+..-+-++.+.+++++|+.+.+.-   .+...+..-+  +=.+|  -+.
T Consensus        20 n~~~~~~--e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~---~~~~~~~~~~--fEKAYc~Yrl   92 (652)
T KOG2376|consen   20 NRHGKNG--EYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKN---GALLVINSFF--FEKAYCEYRL   92 (652)
T ss_pred             HHhccch--HHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhc---chhhhcchhh--HHHHHHHHHc
Confidence            3445556  88888877776653   45566777788888889999988554322   1111111111  23333  456


Q ss_pred             CCcchhhhhhhcc-cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHH-cCCChHHHHHHHHHHHHcC
Q 038429          138 VQFRVGQAIHGMF-EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFV-EGGFFEKAIELYREMEVEN  215 (258)
Q Consensus       138 ~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~-~~g~~~~a~~~~~~m~~~~  215 (258)
                      +..++|...++.. +.|..+-..--..+-+.|++++|.++|..+.+.+...+...+.+=+ ..+-   +... .-|....
T Consensus        93 nk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a---~l~~-~~~q~v~  168 (652)
T KOG2376|consen   93 NKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA---ALQV-QLLQSVP  168 (652)
T ss_pred             ccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH---hhhH-HHHHhcc
Confidence            7888888888876 4444466666677888999999999999987765555554443211 1111   1111 1234444


Q ss_pred             CCCChhhHHHHHHH---HhccCChhHHHHHHHHHH
Q 038429          216 VKPDEVTMVVVLSA---CAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       216 ~~p~~~t~~~li~~---~~~~g~~~~a~~~~~~m~  247 (258)
                      ..| ..||..+.+.   +...|++..|.+++....
T Consensus       169 ~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~  202 (652)
T KOG2376|consen  169 EVP-EDSYELLYNTACILIENGKYNQAIELLEKAL  202 (652)
T ss_pred             CCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            445 4566666654   446799999999999873

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=96.88  E-value=0.2  Score=45.64  Aligned_cols=214  Identities=14%  Similarity=0.047  Sum_probs=138.5

Q ss_pred             ccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhH
Q 038429           31 HFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQS  107 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a  107 (258)
                      -..++++.|.+....+.+.-  |+ ..|...+.++...+.|..++|..+++....   .|..|...+-..|...++.++|
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PN-ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CC-cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHH
Confidence            34577888888888776652  22 235556666654433499999988886653   5788999999999999999999


Q ss_pred             HHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcch----hhhhhhcccCchhHHHHHHHHHHhcCC----------HHHH
Q 038429          108 FMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRV----GQAIHGMFEDDLVISNSLIHFYAVCGD----------LAMA  173 (258)
Q Consensus       108 ~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~----a~~~~~~~~~~~~~~~~li~~~~~~g~----------~~~a  173 (258)
                      ..+|++...   .-|+..-...+..+|++.+.+.+    |.++++..+...+.+-++|+.+...-.          ..-|
T Consensus        97 ~~~Ye~~~~---~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   97 VHLYERANQ---KYPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHHh---hCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            999998832   34677777888889999887754    566666667777877777777765421          2345


Q ss_pred             HHHHHhcCCCC-----hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCC-CCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          174 YCVFVMIGKKD-----VVSWNSMISGFVEGGFFEKAIELYREMEVENV-KPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       174 ~~~~~~m~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .+.++.+.+..     ..-.-.-...+-..|++++|.+++..=..... .-+...-+--++-+...+++.+..++-.++.
T Consensus       174 ~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll  253 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLL  253 (932)
T ss_pred             HHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            55555554432     11111222334556778999988844333222 2233333445555666677777776666666


Q ss_pred             HcC
Q 038429          248 KNG  250 (258)
Q Consensus       248 ~~g  250 (258)
                      ..|
T Consensus       254 ~k~  256 (932)
T KOG2053|consen  254 EKG  256 (932)
T ss_pred             HhC
Confidence            554

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.85  E-value=0.0074  Score=48.96  Aligned_cols=152  Identities=13%  Similarity=0.193  Sum_probs=99.9

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHH-----hcCcCCcchhhhhhhcc------cCchhHHHH
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKA-----AARPVQFRVGQAIHGMF------EDDLVISNS  159 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~-----~~~~~~~~~a~~~~~~~------~~~~~~~~~  159 (258)
                      --.|+--|.+.+++.+|..+.+++ .  ...|-....-.+..+     ......+.-|.+.|+..      ..++.--.+
T Consensus       288 RlNL~iYyL~q~dVqeA~~L~Kdl-~--PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQs  364 (557)
T KOG3785|consen  288 RLNLIIYYLNQNDVQEAISLCKDL-D--PTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQS  364 (557)
T ss_pred             hhhheeeecccccHHHHHHHHhhc-C--CCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHH
Confidence            445666778889999999888777 1  122222222222222     22233456677777777      233344556


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC----CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhH-HHHHHHHhccC
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIGK----KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTM-VVVLSACAKKR  234 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~-~~li~~~~~~g  234 (258)
                      +...+.-..++++.+-.++..+.    .|...| .+..+++..|+..+|+++|-......++ |..+| ..|.++|.+.+
T Consensus       365 mAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nk  442 (557)
T KOG3785|consen  365 MASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNK  442 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcC
Confidence            66777777788888888877764    344444 4668889999999999999776655554 55565 55667788999


Q ss_pred             ChhHHHHHHHHHH
Q 038429          235 DLEFGIWVSSHIE  247 (258)
Q Consensus       235 ~~~~a~~~~~~m~  247 (258)
                      ..+.|.+++-.+.
T Consensus       443 kP~lAW~~~lk~~  455 (557)
T KOG3785|consen  443 KPQLAWDMMLKTN  455 (557)
T ss_pred             CchHHHHHHHhcC
Confidence            9999988876553

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.84  E-value=0.025  Score=40.72  Aligned_cols=85  Identities=7%  Similarity=-0.106  Sum_probs=43.3

Q ss_pred             HHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC--CC-ChhhHHHHHHHHHcCCCh
Q 038429          129 FVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG--KK-DVVSWNSMISGFVEGGFF  201 (258)
Q Consensus       129 ~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~g~~  201 (258)
                      .+-..+...|++++|+.+|+.+    +-+..-|..|--++...|++++|+..|....  +| |...+-.+-.++...|+.
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~lG~~  119 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLACDNV  119 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCCH
Confidence            3334444555555555555555    3334445555555555555555555554332  12 444555555555555555


Q ss_pred             HHHHHHHHHHHH
Q 038429          202 EKAIELYREMEV  213 (258)
Q Consensus       202 ~~a~~~~~~m~~  213 (258)
                      +.|.+-|+....
T Consensus       120 ~~A~~aF~~Ai~  131 (157)
T PRK15363        120 CYAIKALKAVVR  131 (157)
T ss_pred             HHHHHHHHHHHH
Confidence            555555554443

>PLN02789 farnesyltranstransferase

Probab=96.82  E-value=0.12  Score=42.38  Aligned_cols=193  Identities=7%  Similarity=-0.029  Sum_probs=123.5

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCC-ChhhHH
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSD-EPIQSF  108 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g-~~~~a~  108 (258)
                      ..++.++...|..+.+.                  .+  ..++|..+.++..+   .+..+|+..-..+...| ++++++
T Consensus        33 ~~~~~~a~~~~ra~l~~------------------~e--~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL   92 (320)
T PLN02789         33 TPEFREAMDYFRAVYAS------------------DE--RSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEEL   92 (320)
T ss_pred             CHHHHHHHHHHHHHHHc------------------CC--CCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHH
Confidence            35566666666655543                  34  66677777766544   34456776666667777 579999


Q ss_pred             HHHHHhHhcCCCCCCcchHHHHHHHhcCcCC--cchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 038429          109 MIFLQLVYNSPYFPNEFTLPFVIKAAARPVQ--FRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       109 ~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~--~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (258)
                      ..++.+ .+.+ +-+..+|+-.--.+.+.|+  .+.+..+.+.+    +.+..+|+...-.+.+.|+++++++.++.+.+
T Consensus        93 ~~~~~~-i~~n-pknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~  170 (320)
T PLN02789         93 DFAEDV-AEDN-PKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLE  170 (320)
T ss_pred             HHHHHH-HHHC-CcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            999998 4332 2233455543333334443  24556666555    67788999999999999999999999999865


Q ss_pred             ---CChhhHHHHHHHHHcC---CCh----HHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhcc----CChhHHHHHHHHHH
Q 038429          183 ---KDVVSWNSMISGFVEG---GFF----EKAIELYREMEVENVKP-DEVTMVVVLSACAKK----RDLEFGIWVSSHIE  247 (258)
Q Consensus       183 ---~~~~~~~~li~~~~~~---g~~----~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~----g~~~~a~~~~~~m~  247 (258)
                         .|...|+.....+.+.   |..    ++++.+..++...  .| |...|+.+...+...    +...+|.+.+.+..
T Consensus       171 ~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~--~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~  248 (320)
T PLN02789        171 EDVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILA--NPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVL  248 (320)
T ss_pred             HCCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHh--CCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhh
Confidence               3667787666555443   222    4566666565553  34 456677777777662    34456777777765


Q ss_pred             Hc
Q 038429          248 KN  249 (258)
Q Consensus       248 ~~  249 (258)
                      +.
T Consensus       249 ~~  250 (320)
T PLN02789        249 SK  250 (320)
T ss_pred             cc
Confidence            53

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.81  E-value=0.15  Score=39.76  Aligned_cols=178  Identities=10%  Similarity=0.053  Sum_probs=116.5

Q ss_pred             ccchhhHHHHHHHHHhh---c-cCcchhh-hhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHHHHHH-HHhcCCCh
Q 038429           33 LTNQKQLKRIHAQMLST---D-FFFDPYS-ASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWNTLIR-AYSSSDEP  104 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~---~-~~~~~~~-~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~-~~~~~g~~  104 (258)
                      .++.++..+++.++...   | ..++.++ |..++-+....+  +.+.|...++++..  |++.---.|=. -+-..|++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~--~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTG--RDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhch
Confidence            45778888888888753   4 6667664 566666667778  89999988887653  32221111111 12345889


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMI  180 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (258)
                      ++|+++++.. ...+ +-|..++--=+...-..|+--+|.+-+...    ..|...|--+-..|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~l-L~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESL-LEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHH-hccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            9999999999 5444 455666654444444444444444333333    899999999999999999999999999987


Q ss_pred             C--CCChh-hHHHHHHHH---HcCCChHHHHHHHHHHHHc
Q 038429          181 G--KKDVV-SWNSMISGF---VEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       181 ~--~~~~~-~~~~li~~~---~~~g~~~~a~~~~~~m~~~  214 (258)
                      .  +|... -|..+-+.+   +...+.+-+.++|.+-.+.
T Consensus       181 ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  181 LLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            5  56333 333443333   3344567788888877664

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

Probab=96.78  E-value=0.09  Score=43.78  Aligned_cols=155  Identities=7%  Similarity=-0.036  Sum_probs=91.4

Q ss_pred             CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcch-HHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHH
Q 038429           86 PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFT-LPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSL  160 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~l  160 (258)
                      -|+.....+.+.+...|+.++|+..|+.. +..  -|+..+ ...-.-.+.+.|+.+....+...+    .-+...|-.-
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~-~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~  306 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSST-LCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVH  306 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHH-hhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhh
Confidence            57788889999999999999999999877 322  233221 111122235566666655555444    2233334333


Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCCChhhHHHH---HHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCCh
Q 038429          161 IHFYAVCGDLAMAYCVFVMIGKKDVVSWNSM---ISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDL  236 (258)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~  236 (258)
                      ........+++.|+.+-+...+.|......+   -..+...|+.++|.-.|+..+.  +.| +...|.-|+.+|...|.+
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~~  384 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKRF  384 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhchH
Confidence            4444455666777766666554333322222   2455566777777777766554  333 556777777777777777


Q ss_pred             hHHHHHHHH
Q 038429          237 EFGIWVSSH  245 (258)
Q Consensus       237 ~~a~~~~~~  245 (258)
                      .+|..+-+.
T Consensus       385 kEA~~~An~  393 (564)
T KOG1174|consen  385 KEANALANW  393 (564)
T ss_pred             HHHHHHHHH
Confidence            776655443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.77  E-value=0.021  Score=41.17  Aligned_cols=101  Identities=11%  Similarity=-0.049  Sum_probs=65.2

Q ss_pred             HHhccCC-CCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cC
Q 038429           78 KMFDQIP-QPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----ED  152 (258)
Q Consensus        78 ~~~~~m~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~  152 (258)
                      ..+..+. +.+....-.+-.-+...|++++|..+|+.. -... +-+..-|-.|--++-..|++++|...+...    +.
T Consensus        24 ~~l~~~~~~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L-~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d  101 (157)
T PRK15363         24 RMLLDDDVTQPLNTLYRYAMQLMEVKEFAGAARLFQLL-TIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID  101 (157)
T ss_pred             HHHHCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH-HHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC
Confidence            3334444 344444455555666777777777777766 2221 112333455666666667777777777776    56


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMI  180 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (258)
                      |...+-.+-.++...|+.+.|.+.|+..
T Consensus       102 dp~~~~~ag~c~L~lG~~~~A~~aF~~A  129 (157)
T PRK15363        102 APQAPWAAAECYLACDNVCYAIKALKAV  129 (157)
T ss_pred             CchHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            6777888888899999999999888754

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

Probab=96.77  E-value=0.12  Score=44.93  Aligned_cols=212  Identities=10%  Similarity=-0.014  Sum_probs=127.0

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHh--cCCChhh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYS--SSDEPIQ  106 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~--~~g~~~~  106 (258)
                      ...+.+++++|.+..+.+...+ +-+...+..=+-+..+.+  .+++|+.+.+.-........-.+=.+||  +.+..++
T Consensus        21 ~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~--ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk~De   97 (652)
T KOG2376|consen   21 RHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLD--KYEDALKLIKKNGALLVINSFFFEKAYCEYRLNKLDE   97 (652)
T ss_pred             HhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhh--HHHHHHHHHHhcchhhhcchhhHHHHHHHHHcccHHH
Confidence            3455678999999999998887 444555555555677777  9999997766543211111111234444  6788899


Q ss_pred             HHHHHHHhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHhc-CCHHHHHHHHHhcCCC
Q 038429          107 SFMIFLQLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAVC-GDLAMAYCVFVMIGKK  183 (258)
Q Consensus       107 a~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~  183 (258)
                      |+..++..      .++ ..+...-...+-+.|++++|..+|+.+ ..+...+...+.+-+-. +..-.+. +.+.....
T Consensus        98 alk~~~~~------~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~-~~q~v~~v  170 (652)
T KOG2376|consen   98 ALKTLKGL------DRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQ-LLQSVPEV  170 (652)
T ss_pred             HHHHHhcc------cccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHH-HHHhccCC
Confidence            98887744      222 235555566678899999999999999 44444444333332211 1111121 34444333


Q ss_pred             ChhhHHHHHH---HHHcCCChHHHHHHHHHHHHcC-------------CCCChhh-HHHHHHHHhccCChhHHHHHHHHH
Q 038429          184 DVVSWNSMIS---GFVEGGFFEKAIELYREMEVEN-------------VKPDEVT-MVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       184 ~~~~~~~li~---~~~~~g~~~~a~~~~~~m~~~~-------------~~p~~~t-~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      ...+|..+-.   .+...|++.+|+++++....-+             +.-+..+ -..|.-.+-..|+.++|..++...
T Consensus       171 ~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~  250 (652)
T KOG2376|consen  171 PEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDI  250 (652)
T ss_pred             CcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            3445554442   3456789999999888762211             1111112 223444556789999999999888


Q ss_pred             HHcC
Q 038429          247 EKNG  250 (258)
Q Consensus       247 ~~~g  250 (258)
                      .+.+
T Consensus       251 i~~~  254 (652)
T KOG2376|consen  251 IKRN  254 (652)
T ss_pred             HHhc
Confidence            8765

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.74  E-value=0.019  Score=47.90  Aligned_cols=87  Identities=13%  Similarity=0.022  Sum_probs=73.7

Q ss_pred             HHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCCh
Q 038429          161 IHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDL  236 (258)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~  236 (258)
                      ...+...|++++|.+.|.+..+  | +...|..+-.+|...|++++|+..+++....  .| +...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCCH
Confidence            3556678999999999998764  3 6678888889999999999999999998875  34 456788888999999999


Q ss_pred             hHHHHHHHHHHHc
Q 038429          237 EFGIWVSSHIEKN  249 (258)
Q Consensus       237 ~~a~~~~~~m~~~  249 (258)
                      ++|...|++..+.
T Consensus        87 ~eA~~~~~~al~l   99 (356)
T PLN03088         87 QTAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988764

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.72  E-value=0.0085  Score=36.26  Aligned_cols=55  Identities=7%  Similarity=0.106  Sum_probs=35.4

Q ss_pred             HHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          193 SGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       193 ~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ..+...|++++|...|++..+..  | +...+..+...+.+.|++++|...|++..+.
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            45566677777777777766653  4 4455666666777777777777777776543

>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=96.68  E-value=0.012  Score=42.15  Aligned_cols=54  Identities=15%  Similarity=0.196  Sum_probs=23.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHH
Q 038429          158 NSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREM  211 (258)
Q Consensus       158 ~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m  211 (258)
                      ..++..+...|++++|.++......  | |...|..+|.+|...|+..+|.++|+++
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            3344444445555555555444432  2 3344555555555555555555544443

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=96.66  E-value=0.0027  Score=38.82  Aligned_cols=47  Identities=15%  Similarity=0.152  Sum_probs=21.2

Q ss_pred             cCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          167 CGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       167 ~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      .|++++|.+.|+...+  | +...+-.+..+|.+.|++++|..+++++..
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4445555555544422  2 333444444555555555555555544443

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.63  E-value=0.083  Score=43.21  Aligned_cols=123  Identities=13%  Similarity=0.086  Sum_probs=94.7

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCC
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGD  169 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~  169 (258)
                      +.+.-|.-+...|+...|.++-.+.    . .|+-.-|...+.+++..++|++-+.+-.. ..++.-|--.+.+|.+.|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F----k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s-kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF----K-VPDKRFWWLKIKALAENKDWDELEKFAKS-KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc----C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-CCCCCChHHHHHHHHHCCC
Confidence            4566677888889988888887666    2 47888899999999999999988776543 5567889999999999999


Q ss_pred             HHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038429          170 LAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       170 ~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      ..+|..+...      .++..-+..|.+.|++.+|.+.--+.      -|......+.+.+
T Consensus       253 ~~eA~~yI~k------~~~~~rv~~y~~~~~~~~A~~~A~~~------kd~~~L~~i~~~~  301 (319)
T PF04840_consen  253 KKEASKYIPK------IPDEERVEMYLKCGDYKEAAQEAFKE------KDIDLLKQILKRC  301 (319)
T ss_pred             HHHHHHHHHh------CChHHHHHHHHHCCCHHHHHHHHHHc------CCHHHHHHHHHHC
Confidence            9999999887      44577888999999999997764332      2444444444444

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

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.58  E-value=0.26  Score=45.75  Aligned_cols=88  Identities=16%  Similarity=0.152  Sum_probs=50.8

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC--ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 038429          152 DDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK--DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSA  229 (258)
Q Consensus       152 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  229 (258)
                      .|+..|.-+++...+.|++++-.+.+...++.  ....=+.||-+|++.++..+.++++       ..||......+-+-
T Consensus      1131 dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdr 1203 (1666)
T KOG0985|consen 1131 DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDSELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGDR 1203 (1666)
T ss_pred             CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchHHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhHH
Confidence            34455666666666666666666655433321  2222245666666666655544433       34666666777777


Q ss_pred             HhccCChhHHHHHHHHH
Q 038429          230 CAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       230 ~~~~g~~~~a~~~~~~m  246 (258)
                      |...|.++.|.-++..+
T Consensus      1204 cf~~~~y~aAkl~y~~v 1220 (1666)
T KOG0985|consen 1204 CFEEKMYEAAKLLYSNV 1220 (1666)
T ss_pred             HhhhhhhHHHHHHHHHh
Confidence            77777777776666544

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=96.57  E-value=0.17  Score=43.58  Aligned_cols=141  Identities=12%  Similarity=0.067  Sum_probs=77.9

Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc------cCchhHHHHHHHHHHhcCCHHHHHHHHH
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF------EDDLVISNSLIHFYAVCGDLAMAYCVFV  178 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~~~  178 (258)
                      +.....+++......+.|+ .+|-..++..-+...+..|..+|...      .-++++++++|.-|| .++.+-|.++|+
T Consensus       348 ~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  348 KKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            4444444444222333333 24555555555555555555555555      225556666666555 345566666665


Q ss_pred             hcCC--CChhh-HHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh--hhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          179 MIGK--KDVVS-WNSMISGFVEGGFFEKAIELYREMEVENVKPDE--VTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       179 ~m~~--~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .=.+  +|... -+..+.-+...|+-..+..+|++....++.||.  ..|..+|.--+..|++..+.++-+++.
T Consensus       426 LGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~  499 (656)
T KOG1914|consen  426 LGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRF  499 (656)
T ss_pred             HHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            4322  23332 234555556666666666777776666555543  457777777677777776666666543

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

Probab=96.54  E-value=0.04  Score=47.39  Aligned_cols=201  Identities=14%  Similarity=0.011  Sum_probs=135.8

Q ss_pred             hhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC------------CChhhHHHHHHHHhcCCCh
Q 038429           37 KQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ------------PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        37 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~------------~~~~~~~~li~~~~~~g~~  104 (258)
                      ..|...+.+..+.. +-+....-.|.-.|...|  .-..|...++.=..            .+...=+.  ..+.....+
T Consensus       336 ~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg--~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l  410 (579)
T KOG1125|consen  336 QNAISALRRCLELD-PTNLEALMALAVSYTNEG--LQNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHL  410 (579)
T ss_pred             HHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhh--hHHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHH
Confidence            44455555555444 334566777777777777  77777777653210            01110000  233333445


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMI  180 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (258)
                      ....++|-++.+..+.++|......|--.|--.|.++.|..+|+..    +-|..+||-|--.++...+.++|+..|.+.
T Consensus       411 ~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rA  490 (579)
T KOG1125|consen  411 AHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRA  490 (579)
T ss_pred             HHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHH
Confidence            6777788777677777788888998888899999999999999998    667789999999999999999999999988


Q ss_pred             CC--CC-h-hhHHHHHHHHHcCCChHHHHHHHHHH---HHcCC------CCChhhHHHHHHHHhccCChhHHHHHH
Q 038429          181 GK--KD-V-VSWNSMISGFVEGGFFEKAIELYREM---EVENV------KPDEVTMVVVLSACAKKRDLEFGIWVS  243 (258)
Q Consensus       181 ~~--~~-~-~~~~~li~~~~~~g~~~~a~~~~~~m---~~~~~------~p~~~t~~~li~~~~~~g~~~~a~~~~  243 (258)
                      .+  |+ + .=||.-| +|...|.+++|...|-+.   ...+-      .++...|..|=.++.-.++.|.+.+..
T Consensus       491 LqLqP~yVR~RyNlgI-S~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a~  565 (579)
T KOG1125|consen  491 LQLQPGYVRVRYNLGI-SCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEAA  565 (579)
T ss_pred             HhcCCCeeeeehhhhh-hhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHhc
Confidence            65  63 2 3355444 578889999998877553   33321      223456777766777677777555443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.52  E-value=0.071  Score=39.37  Aligned_cols=79  Identities=16%  Similarity=0.087  Sum_probs=44.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC--CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHH
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK--KD----VVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVL  227 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li  227 (258)
                      ..+..+...|...|++++|...|++..+  |+    ...+..+...+.+.|++++|...+++....  .| +...+..+.
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg  113 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHH
Confidence            3455555666666666666666665532  21    235566666666677777777766666553  23 233444445


Q ss_pred             HHHhccCC
Q 038429          228 SACAKKRD  235 (258)
Q Consensus       228 ~~~~~~g~  235 (258)
                      ..+...|+
T Consensus       114 ~~~~~~g~  121 (172)
T PRK02603        114 VIYHKRGE  121 (172)
T ss_pred             HHHHHcCC
Confidence            55555444

>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=96.52  E-value=0.01  Score=42.52  Aligned_cols=69  Identities=17%  Similarity=0.205  Sum_probs=50.4

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH-----HcCCcccc
Q 038429          186 VSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE-----KNGIKMDL  255 (258)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~  255 (258)
                      .....++..+...|++++|..+.+++.... +.|...|..++.++...|+...|.++|+.+.     +.|+.|+.
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~  136 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSP  136 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----H
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCH
Confidence            456667778888999999999999888753 3477889999999999999999999998774     46888864

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.51  E-value=0.068  Score=46.79  Aligned_cols=129  Identities=11%  Similarity=-0.087  Sum_probs=88.1

Q ss_pred             CCCCCcchHHHHHHHhcCcC-----Ccchhhhhhhcc---cCc-hhHHHHHHHHHHhc--------CCHHHHHHHHHhcC
Q 038429          119 PYFPNEFTLPFVIKAAARPV-----QFRVGQAIHGMF---EDD-LVISNSLIHFYAVC--------GDLAMAYCVFVMIG  181 (258)
Q Consensus       119 ~~~p~~~~~~~ll~~~~~~~-----~~~~a~~~~~~~---~~~-~~~~~~li~~~~~~--------g~~~~a~~~~~~m~  181 (258)
                      ..+.|..+|...+.+.....     +...|..+|+..   .|+ ...|..+..+|...        ++...+.+......
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            44567788888888854432     255788888877   443 44555544444322        12334444444321


Q ss_pred             -----CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          182 -----KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       182 -----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                           ..+...|..+--.+...|++++|...+++....+  |+...|..+.+.+...|+.++|.+.+++....
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence                 1244667777666667799999999999988764  78888999999999999999999999887654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=96.48  E-value=0.38  Score=43.80  Aligned_cols=196  Identities=8%  Similarity=0.006  Sum_probs=101.7

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-------------CChhhHHHHHHHHh
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-------------PNLYTWNTLIRAYS   99 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-------------~~~~~~~~li~~~~   99 (258)
                      .|+.+.|.+-...++      +..+|..+.+.|.+..  +++-|.-.+..|..             ++ ..=......-.
T Consensus       741 iG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~--RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAi  811 (1416)
T KOG3617|consen  741 IGSMDAAFKSIQFIK------SDSVWDNMASMCVKTR--RLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAI  811 (1416)
T ss_pred             eccHHHHHHHHHHHh------hhHHHHHHHHHhhhhc--cccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHH
Confidence            455555544333322      4456667777777666  66666666655542             11 11111222223


Q ss_pred             cCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc--cCchhHHHHHHHHHHhcCCHHHHHHHH
Q 038429          100 SSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF--EDDLVISNSLIHFYAVCGDLAMAYCVF  177 (258)
Q Consensus       100 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~  177 (258)
                      +.|.+++|+.+|.+- ++         |..|=+.|-..|.|++|.++-+.-  -.=..||.....-+-..++.+.|++.|
T Consensus       812 eLgMlEeA~~lYr~c-kR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~Aleyy  881 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQC-KR---------YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYY  881 (1416)
T ss_pred             HHhhHHHHHHHHHHH-HH---------HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHH
Confidence            445666666666555 32         333334455566666666655444  112235555555555566777777766


Q ss_pred             HhcCCC-----------------------ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc--------------------
Q 038429          178 VMIGKK-----------------------DVVSWNSMISGFVEGGFFEKAIELYREMEVE--------------------  214 (258)
Q Consensus       178 ~~m~~~-----------------------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--------------------  214 (258)
                      +....|                       |...|.---.-+-..|+.+.|+.+|+..+..                    
T Consensus       882 EK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA  961 (1416)
T KOG3617|consen  882 EKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIA  961 (1416)
T ss_pred             HhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHH
Confidence            655421                       2211111111122345666666666544221                    


Q ss_pred             CCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          215 NVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       215 ~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .-.-|....-+|-+.|-..|++.+|..+|.+..
T Consensus       962 ~esgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  962 EESGDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HhcccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            011356667777888888888888887776543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.47  E-value=0.035  Score=38.37  Aligned_cols=28  Identities=11%  Similarity=0.025  Sum_probs=18.7

Q ss_pred             HHHHHhcCCChhhHHHHHHHhHhcCCCCC
Q 038429           94 LIRAYSSSDEPIQSFMIFLQLVYNSPYFP  122 (258)
Q Consensus        94 li~~~~~~g~~~~a~~~~~~m~~~~~~~p  122 (258)
                      +-.++-..|+.++|+.+|++. ...|...
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~A-l~~gL~~   34 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRA-LAAGLSG   34 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHH-HHcCCCc
Confidence            445566677888888888877 5555443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=96.41  E-value=0.072  Score=48.99  Aligned_cols=153  Identities=12%  Similarity=0.040  Sum_probs=102.0

Q ss_pred             hhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHH--HH
Q 038429           57 SASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPF--VI  131 (258)
Q Consensus        57 ~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~--ll  131 (258)
                      .|..|-..|....  +...|...|+..-+   .+..++......|++..+++.|+.+.-...++.  +.-...++.  .-
T Consensus       494 af~~LG~iYrd~~--Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka--~a~~~k~nW~~rG  569 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSD--DMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKA--PAFACKENWVQRG  569 (1238)
T ss_pred             HHHHHHHHHHHHH--HHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhc--hHHHHHhhhhhcc
Confidence            4667777777776  77778888876544   567788999999999999999998843331111  111122222  22


Q ss_pred             HHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC-ChhhHHHHHH--HHHcCCChHHH
Q 038429          132 KAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK-DVVSWNSMIS--GFVEGGFFEKA  204 (258)
Q Consensus       132 ~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~li~--~~~~~g~~~~a  204 (258)
                      -.+.+.+++..+..-|+..    +.|...|..+..+|.++|++..|.++|.+...- ...+|...-.  .-+..|...+|
T Consensus       570 ~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkea  649 (1238)
T KOG1127|consen  570 PYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEA  649 (1238)
T ss_pred             ccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHH
Confidence            2345566666666656555    778889999999999999999999999766442 2233333322  23667888888


Q ss_pred             HHHHHHHHH
Q 038429          205 IELYREMEV  213 (258)
Q Consensus       205 ~~~~~~m~~  213 (258)
                      ...+.....
T Consensus       650 ld~l~~ii~  658 (1238)
T KOG1127|consen  650 LDALGLIIY  658 (1238)
T ss_pred             HHHHHHHHH
Confidence            887776543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.38  E-value=0.06  Score=42.77  Aligned_cols=95  Identities=15%  Similarity=-0.053  Sum_probs=69.7

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC--CCh----hhHHHHHHHHHcCCChHHHHHHHHHHHHcC--CCCChhhHHHH
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK--KDV----VSWNSMISGFVEGGFFEKAIELYREMEVEN--VKPDEVTMVVV  226 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~t~~~l  226 (258)
                      ..|+..+..+.+.|++++|...|+...+  |+.    ..+-.+-..|...|++++|...|+.+...-  -......+-.+
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            4566666666777999999999988765  533    466677788899999999999999987641  11123344445


Q ss_pred             HHHHhccCChhHHHHHHHHHHHc
Q 038429          227 LSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       227 i~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ...+...|+.+.|..+++.+.+.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            66677889999999999988764

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.35  E-value=0.095  Score=38.51  Aligned_cols=91  Identities=14%  Similarity=-0.006  Sum_probs=65.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-hhhHHHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK--KD----VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-EVTMVVV  226 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~t~~~l  226 (258)
                      ...|..+...+...|++++|...|+....  |+    ..+|..+-..+...|+.++|+..+++....  .|+ ..++..+
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~~~~~~~l  112 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER--NPFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHH
Confidence            45667777788888999999999887642  22    247888888889999999999999887764  333 3455666


Q ss_pred             HHHHh-------ccCChhHHHHHHHHH
Q 038429          227 LSACA-------KKRDLEFGIWVSSHI  246 (258)
Q Consensus       227 i~~~~-------~~g~~~~a~~~~~~m  246 (258)
                      ...+.       ..|+++.|...+++.
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            66666       778888666666543

>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=96.31  E-value=0.013  Score=35.66  Aligned_cols=50  Identities=8%  Similarity=0.064  Sum_probs=32.7

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ   85 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~   85 (258)
                      .|++++|.++++.+.+.. +-+...+-.+..+|.+.|  ++++|..+++.+..
T Consensus         4 ~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g--~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQG--QYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT---HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHH
Confidence            466777777777776665 335666666777777777  77777777776654

...

>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=96.28  E-value=0.011  Score=37.30  Aligned_cols=61  Identities=16%  Similarity=0.200  Sum_probs=39.4

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHc--CCC---CC-hhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          187 SWNSMISGFVEGGFFEKAIELYREMEVE--NVK---PD-EVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~---p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      +|+.+-..|...|++++|+..|++..+.  ...   |+ ..++..+-..+...|++++|.+.+++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666666666666666666665432  111   22 4567778888888888888888888754

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.27  E-value=0.4  Score=37.65  Aligned_cols=57  Identities=9%  Similarity=0.068  Sum_probs=45.1

Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHc--CCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          191 MISGFVEGGFFEKAIELYREMEVE--NVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       191 li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      +..-|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|..+...+.
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            445578889999999999998875  333455667788999999999999998877654

>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=96.18  E-value=0.012  Score=37.10  Aligned_cols=58  Identities=21%  Similarity=0.223  Sum_probs=46.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC---------CC-hhhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK---------KD-VVSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~---------~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      .+|+.+-..|.+.|++++|.+.|++..+         |+ ..+++.+-..|...|+.++|+.++++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4788888999999999999988876542         22 4578888899999999999999988754

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.16  E-value=0.019  Score=34.63  Aligned_cols=55  Identities=18%  Similarity=0.194  Sum_probs=44.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      +...+.+.|++++|.+.|+...+  | +...+..+-..+...|++++|..+|++..+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            45677889999999999998865  4 5567778888899999999999999988764

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.14  E-value=0.53  Score=37.75  Aligned_cols=164  Identities=8%  Similarity=-0.099  Sum_probs=108.3

Q ss_pred             CCCCceeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--------
Q 038429           14 HPNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--------   85 (258)
Q Consensus        14 ~p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--------   85 (258)
                      .|+..+...++......-+.|+.+.|.+=|....+.+--.....||..+..|.+ +  +.+.|.+...++.+        
T Consensus       138 lp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy~~-~--qyasALk~iSEIieRG~r~HPE  214 (459)
T KOG4340|consen  138 LPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHYSS-R--QYASALKHISEIIERGIRQHPE  214 (459)
T ss_pred             ccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHhh-h--hHHHHHHHHHHHHHhhhhcCCc
Confidence            455555666666556777889999999999988876444457788877766654 4  78888777655421        


Q ss_pred             ---------CChh---------------hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcc
Q 038429           86 ---------PNLY---------------TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFR  141 (258)
Q Consensus        86 ---------~~~~---------------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~  141 (258)
                               +|+.               ++|.-...+-+.|+.+.|.+.+-+|-.+..-..|+.|...+.-.=. .+++.
T Consensus       215 lgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~  293 (459)
T KOG4340|consen  215 LGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPT  293 (459)
T ss_pred             cCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCcc
Confidence                     2221               2444444456778999999998888444445567778765432222 23344


Q ss_pred             hhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          142 VGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       142 ~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      .+.+-+..+    +-...|+..++-.|||..-++.|-+++.+=.
T Consensus       294 ~g~~KLqFLL~~nPfP~ETFANlLllyCKNeyf~lAADvLAEn~  337 (459)
T KOG4340|consen  294 EGFEKLQFLLQQNPFPPETFANLLLLYCKNEYFDLAADVLAENA  337 (459)
T ss_pred             ccHHHHHHHHhcCCCChHHHHHHHHHHhhhHHHhHHHHHHhhCc
Confidence            333333333    5556799999999999999999999987643

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=96.12  E-value=0.048  Score=49.21  Aligned_cols=146  Identities=10%  Similarity=0.103  Sum_probs=92.3

Q ss_pred             CCChhhHHHHHH--HHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc------------
Q 038429           85 QPNLYTWNTLIR--AYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF------------  150 (258)
Q Consensus        85 ~~~~~~~~~li~--~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~------------  150 (258)
                      .-|..|-..+++  .|...|+.+.|.+-.+-+ +      +...|..|.+.|.+..+++.|+-++..|            
T Consensus       723 ~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~I-k------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a  795 (1416)
T KOG3617|consen  723 NCDESTRKAMLDFSFYVTIGSMDAAFKSIQFI-K------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRA  795 (1416)
T ss_pred             ccCHHHHHhhhceeEEEEeccHHHHHHHHHHH-h------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHH
Confidence            346666666665  456678888887777666 3      3346888888888888888777777766            


Q ss_pred             --cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 038429          151 --EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLS  228 (258)
Q Consensus       151 --~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~  228 (258)
                        .++ .+=.-+.-.....|.+++|+.+|.+.++     |..|=+.|...|+|++|.++-+.=..-.+   ..||..-..
T Consensus       796 ~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~  866 (1416)
T KOG3617|consen  796 QQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAK  866 (1416)
T ss_pred             HhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHH
Confidence              222 2222222233467888888888887654     44555667778888888877654322222   235555555


Q ss_pred             HHhccCChhHHHHHHHHH
Q 038429          229 ACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       229 ~~~~~g~~~~a~~~~~~m  246 (258)
                      -+...+|++.|.+.|++-
T Consensus       867 ~Lear~Di~~AleyyEK~  884 (1416)
T KOG3617|consen  867 YLEARRDIEAALEYYEKA  884 (1416)
T ss_pred             HHHhhccHHHHHHHHHhc
Confidence            555667777777777643

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.10  E-value=0.059  Score=47.15  Aligned_cols=135  Identities=13%  Similarity=-0.031  Sum_probs=79.8

Q ss_pred             CCChhhHHHHHHHHhcCC-----ChhhHHHHHHHhHhcCCCCCCc-chHHHHHHHhcCc--------CCcchhhhhhhcc
Q 038429           85 QPNLYTWNTLIRAYSSSD-----EPIQSFMIFLQLVYNSPYFPNE-FTLPFVIKAAARP--------VQFRVGQAIHGMF  150 (258)
Q Consensus        85 ~~~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~~~~~~~p~~-~~~~~ll~~~~~~--------~~~~~a~~~~~~~  150 (258)
                      ..|..+|...+++.....     +.+.|..+|++... .  .|+- ..|..+..++...        .++..+.......
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~-l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK-S--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH-h--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            356666777666654322     25567777766622 1  2332 2233222221110        1122333333221


Q ss_pred             ------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC--CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhh
Q 038429          151 ------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG--KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVT  222 (258)
Q Consensus       151 ------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t  222 (258)
                            +.+...|..+--.....|++++|...+++..  +|+...|..+-..+...|+.++|.+.+++...  +.|...|
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P~~pt  488 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRPGENT  488 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCCch
Confidence                  3344566666555556789999999998765  36777888888888999999999998887665  4566666


Q ss_pred             HH
Q 038429          223 MV  224 (258)
Q Consensus       223 ~~  224 (258)
                      |.
T Consensus       489 ~~  490 (517)
T PRK10153        489 LY  490 (517)
T ss_pred             HH
Confidence            53

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.09  E-value=0.18  Score=35.21  Aligned_cols=68  Identities=15%  Similarity=0.092  Sum_probs=49.4

Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCc
Q 038429          184 DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIK  252 (258)
Q Consensus       184 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  252 (258)
                      +..-++..+..++..|+-+.-.++..++.+ +-.++....--+-.+|.+.|+..++.+++.+.-+.|+.
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            334566778888889999988889888765 34578888888999999999999999999999988864

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.09  E-value=0.04  Score=43.47  Aligned_cols=47  Identities=9%  Similarity=-0.037  Sum_probs=36.5

Q ss_pred             ChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCc-chhhhhhhcc
Q 038429          103 EPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQF-RVGQAIHGMF  150 (258)
Q Consensus       103 ~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~~  150 (258)
                      +-+-++.++++| ...|+.||-.+-..|++++++.+.. .+..++.-.|
T Consensus       138 QQ~C~I~vLeqM-E~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  138 QQNCAIKVLEQM-EWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             hhhHHHHHHHHH-HHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence            346678999999 9999999999999999999998764 2333443333

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.02  E-value=0.3  Score=38.40  Aligned_cols=165  Identities=12%  Similarity=-0.007  Sum_probs=114.9

Q ss_pred             hhhhhhhhhccCCCChHHHHHHhccCCC----------CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchH
Q 038429           58 ASKLFTPCALSTFSSLEYARKMFDQIPQ----------PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTL  127 (258)
Q Consensus        58 ~~~li~~~~~~~~~~~~~a~~~~~~m~~----------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~  127 (258)
                      +++|++.+.-..  -+++-...++.-..          +-....+.++..+.-.|.+.-...++++. .++.-+.++...
T Consensus       139 qesLdRl~~L~~--~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~v-i~~~~e~~p~L~  215 (366)
T KOG2796|consen  139 QESLDRLHKLKT--VVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSV-IKYYPEQEPQLL  215 (366)
T ss_pred             HHHHHHHHHHHH--HHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHH-HHhCCcccHHHH
Confidence            677777776655  55555555554332          23445677888888888888889999998 666667777778


Q ss_pred             HHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHHHHHH-----HHhcCCHHHHHHHHHhcCCC---ChhhHHHHHHH
Q 038429          128 PFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNSLIHF-----YAVCGDLAMAYCVFVMIGKK---DVVSWNSMISG  194 (258)
Q Consensus       128 ~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~li~~-----~~~~g~~~~a~~~~~~m~~~---~~~~~~~li~~  194 (258)
                      +.|.+.-...||.+.|+..|+..     ..|..+.+.++..     |.-+.++..|...|.++...   |...-|.=.-.
T Consensus       216 s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALc  295 (366)
T KOG2796|consen  216 SGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALC  295 (366)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHH
Confidence            88888889999999999999976     5556666655533     33467888999999877653   44444433333


Q ss_pred             HHcCCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 038429          195 FVEGGFFEKAIELYREMEVENVKPDEVTMVVVL  227 (258)
Q Consensus       195 ~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li  227 (258)
                      ..-.|+..+|.+.++.|...  .|...+-++++
T Consensus       296 llYlg~l~DAiK~~e~~~~~--~P~~~l~es~~  326 (366)
T KOG2796|consen  296 LLYLGKLKDALKQLEAMVQQ--DPRHYLHESVL  326 (366)
T ss_pred             HHHHHHHHHHHHHHHHHhcc--CCccchhhhHH
Confidence            34457899999999999875  45555554333

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

Probab=95.95  E-value=0.65  Score=40.98  Aligned_cols=97  Identities=11%  Similarity=0.008  Sum_probs=60.7

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-----------------------
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----------------------   85 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----------------------   85 (258)
                      .+...|+-++|......-.+.. ..+.+.|..+--.+-...  ++++|.+.|.....                       
T Consensus        50 ~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK--~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~  126 (700)
T KOG1156|consen   50 TLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDK--KYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYE  126 (700)
T ss_pred             hhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhh--hHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhh
Confidence            5566777788877666666544 235556665554444445  67777666653321                       


Q ss_pred             --------------CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHH
Q 038429           86 --------------PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLP  128 (258)
Q Consensus        86 --------------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~  128 (258)
                                    .....|-.+..+..-.|+...|..++++.++...-.|+...|.
T Consensus       127 ~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e  183 (700)
T KOG1156|consen  127 GYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYE  183 (700)
T ss_pred             hHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHH
Confidence                          2334577777777788889999999988844444456655543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=95.94  E-value=0.13  Score=41.42  Aligned_cols=177  Identities=12%  Similarity=0.096  Sum_probs=96.7

Q ss_pred             hhhhhhhhhccCCCChHHHHHHhccCC-------C--CChhhHHHHHHHHhcCCChhhHHHHHHHhH---hcCCCCCC-c
Q 038429           58 ASKLFTPCALSTFSSLEYARKMFDQIP-------Q--PNLYTWNTLIRAYSSSDEPIQSFMIFLQLV---YNSPYFPN-E  124 (258)
Q Consensus        58 ~~~li~~~~~~~~~~~~~a~~~~~~m~-------~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~---~~~~~~p~-~  124 (258)
                      |......|...+  ++++|...|.+..       .  .-...|......|.+. ++++|+..+++..   .+.|-... .
T Consensus        38 y~~Aa~~fk~~~--~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA  114 (282)
T PF14938_consen   38 YEKAANCFKLAK--DWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAA  114 (282)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHH
T ss_pred             HHHHHHHHHHHh--ccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            444444555555  5555555554321       1  1123344444444444 6666666665542   12221111 2


Q ss_pred             chHHHHHHHhcCc-CCcchhhhhhhcc------cC----chhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----C----C
Q 038429          125 FTLPFVIKAAARP-VQFRVGQAIHGMF------ED----DLVISNSLIHFYAVCGDLAMAYCVFVMIGK-----K----D  184 (258)
Q Consensus       125 ~~~~~ll~~~~~~-~~~~~a~~~~~~~------~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~----~  184 (258)
                      ..+..+-..|-.. |+++.|...|+..      ..    -..++..+...+.+.|++++|.++|++...     +    +
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~  194 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYS  194 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchh
Confidence            2455556677777 8888888888777      11    123566778889999999999999987642     1    1


Q ss_pred             hh-hHHHHHHHHHcCCChHHHHHHHHHHHHc--CCCCC--hhhHHHHHHHHhccCChhH
Q 038429          185 VV-SWNSMISGFVEGGFFEKAIELYREMEVE--NVKPD--EVTMVVVLSACAKKRDLEF  238 (258)
Q Consensus       185 ~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~--~~t~~~li~~~~~~g~~~~  238 (258)
                      .. .|-..+-.+...|+...|...+++....  ++..+  ......||.+|-. ||.+.
T Consensus       195 ~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~-~D~e~  252 (282)
T PF14938_consen  195 AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE-GDVEA  252 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT-T-CCC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh-CCHHH
Confidence            11 2222333556678999999999998754  33322  2346677777654 44433

>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=95.92  E-value=0.047  Score=33.32  Aligned_cols=62  Identities=21%  Similarity=0.199  Sum_probs=38.7

Q ss_pred             hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccC-ChhHHHHHHHHHHH
Q 038429          185 VVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKR-DLEFGIWVSSHIEK  248 (258)
Q Consensus       185 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g-~~~~a~~~~~~m~~  248 (258)
                      ..+|..+-..+...|++++|+..|++..+..  | +...|..+-.++.+.| ++++|.+.+++..+
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            3455666666666677777777776666542  3 3445666666666666 57777777666554

...

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.90  E-value=0.41  Score=39.89  Aligned_cols=73  Identities=12%  Similarity=0.062  Sum_probs=38.5

Q ss_pred             hhhhhhhhccCCCChHHHHHHhccCCCC-------ChhhHHHHHHHHhc---CCChhhHHHHHHHhHhcCCCCCCcchHH
Q 038429           59 SKLFTPCALSTFSSLEYARKMFDQIPQP-------NLYTWNTLIRAYSS---SDEPIQSFMIFLQLVYNSPYFPNEFTLP  128 (258)
Q Consensus        59 ~~li~~~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~~p~~~~~~  128 (258)
                      ..++-+|-...  +++...++++.+..+       ....--...-++.+   .|+.++|++++..+ ....-.+++.||.
T Consensus       145 ~~lllSyRdiq--dydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~-l~~~~~~~~d~~g  221 (374)
T PF13281_consen  145 INLLLSYRDIQ--DYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPV-LESDENPDPDTLG  221 (374)
T ss_pred             HHHHHHhhhhh--hHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHH-HhccCCCChHHHH
Confidence            34444566666  677777777666542       11112223334445   66677777777664 2333345555665


Q ss_pred             HHHHHh
Q 038429          129 FVIKAA  134 (258)
Q Consensus       129 ~ll~~~  134 (258)
                      .+-..|
T Consensus       222 L~GRIy  227 (374)
T PF13281_consen  222 LLGRIY  227 (374)
T ss_pred             HHHHHH
Confidence            555444

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.88  E-value=0.13  Score=43.46  Aligned_cols=64  Identities=11%  Similarity=-0.087  Sum_probs=52.3

Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CCh----hhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KDV----VSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      +.+...|+.+-.+|.+.|++++|...|++..+  |+.    .+|..+-.+|...|+.++|+..+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            45667888999999999999999999987543  543    35888899999999999999999888775

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

Probab=95.88  E-value=1.2  Score=39.57  Aligned_cols=84  Identities=8%  Similarity=-0.022  Sum_probs=35.6

Q ss_pred             HHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHhcCCHHHHHH
Q 038429           97 AYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAVCGDLAMAYC  175 (258)
Q Consensus        97 ~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~  175 (258)
                      .+.+.|++......|+...+...+.--...|...+.-....+-++.+..+++.. +.++..-+-.|..+++.+++++|-+
T Consensus       111 ~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~  190 (835)
T KOG2047|consen  111 FLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQ  190 (835)
T ss_pred             HHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHH
Confidence            333444444444444433233323223333444444444444444444444444 3333334444444555555555544


Q ss_pred             HHHhc
Q 038429          176 VFVMI  180 (258)
Q Consensus       176 ~~~~m  180 (258)
                      .+...
T Consensus       191 ~la~v  195 (835)
T KOG2047|consen  191 RLATV  195 (835)
T ss_pred             HHHHh
Confidence            44443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.83  E-value=0.11  Score=46.25  Aligned_cols=124  Identities=8%  Similarity=-0.083  Sum_probs=100.0

Q ss_pred             HHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhh
Q 038429          109 MIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVS  187 (258)
Q Consensus       109 ~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  187 (258)
                      .+.+.+..+.|..-..-+.+--+.-+...|+-..|+++-... -||-..|-.-+.+++..+++++-+++-+.++.  +..
T Consensus       669 ~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskks--PIG  746 (829)
T KOG2280|consen  669 KLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKKS--PIG  746 (829)
T ss_pred             HHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccCC--CCC
Confidence            344444445565666667888888888999999999999999 89999999999999999999999998887766  678


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHH
Q 038429          188 WNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVS  243 (258)
Q Consensus       188 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~  243 (258)
                      |--.+++|.+.|+.++|..++-+..     +..    -.+.+|.+.|++.+|.++-
T Consensus       747 y~PFVe~c~~~~n~~EA~KYiprv~-----~l~----ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  747 YLPFVEACLKQGNKDEAKKYIPRVG-----GLQ----EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             chhHHHHHHhcccHHHHhhhhhccC-----ChH----HHHHHHHHhccHHHHHHHH
Confidence            8999999999999999999986532     111    5678888888888887654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.81  E-value=0.2  Score=44.55  Aligned_cols=143  Identities=12%  Similarity=0.091  Sum_probs=85.2

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCC
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGD  169 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~  169 (258)
                      +|+.+-..++....|++|.+.|..-    |      --...+.++.+..++++-+.+...++.+....-.+.+++.+.|.
T Consensus       798 A~r~ig~~fa~~~~We~A~~yY~~~----~------~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGM  867 (1189)
T KOG2041|consen  798 AFRNIGETFAEMMEWEEAAKYYSYC----G------DTENQIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGM  867 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhc----c------chHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhch
Confidence            3455555555555555555544332    1      01223455555555666666666667777788888999999999


Q ss_pred             HHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCC-----------CChhhHHHHHHHHhccCChhH
Q 038429          170 LAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVK-----------PDEVTMVVVLSACAKKRDLEF  238 (258)
Q Consensus       170 ~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-----------p~~~t~~~li~~~~~~g~~~~  238 (258)
                      -++|.+.|-+-..|-     ..+..|...++|.+|.++-++..-..+.           -+..+. -.|.-+.+.|.+-.
T Consensus       868 C~qAV~a~Lr~s~pk-----aAv~tCv~LnQW~~avelaq~~~l~qv~tliak~aaqll~~~~~~-eaIe~~Rka~~~~d  941 (1189)
T KOG2041|consen  868 CDQAVEAYLRRSLPK-----AAVHTCVELNQWGEAVELAQRFQLPQVQTLIAKQAAQLLADANHM-EAIEKDRKAGRHLD  941 (1189)
T ss_pred             HHHHHHHHHhccCcH-----HHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHhhcchH-HHHHHhhhcccchh
Confidence            999999887766663     3345566677787777776553221110           111111 23455677777777


Q ss_pred             HHHHHHHHHH
Q 038429          239 GIWVSSHIEK  248 (258)
Q Consensus       239 a~~~~~~m~~  248 (258)
                      |.+++.+|.+
T Consensus       942 aarll~qmae  951 (1189)
T KOG2041|consen  942 AARLLSQMAE  951 (1189)
T ss_pred             HHHHHHHHhH
Confidence            7777777753

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.79  E-value=0.069  Score=42.43  Aligned_cols=95  Identities=14%  Similarity=0.089  Sum_probs=63.5

Q ss_pred             hcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhhHHHHHHHHHcCCChHHHHH
Q 038429          134 AARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK---DVVSWNSMISGFVEGGFFEKAIE  206 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~a~~  206 (258)
                      +.+.+++.+|...|...    +.|.+-|..--.+|++.|.++.|++=-+...+-   -..+|..|-.+|...|++++|++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~~  170 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAIE  170 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHHH
Confidence            34556666666666665    566677777777888888777777666555442   33467777777888888888887


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHH
Q 038429          207 LYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       207 ~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      .|++..+  +.|+..+|..=++..
T Consensus       171 aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  171 AYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHhhhc--cCCCcHHHHHHHHHH
Confidence            7776554  567776665555443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.79  E-value=0.49  Score=41.08  Aligned_cols=156  Identities=10%  Similarity=-0.022  Sum_probs=104.6

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcc-----hHHHHHHHhcCc----CCcchhhhhhhcc---cCchhHHH
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEF-----TLPFVIKAAARP----VQFRVGQAIHGMF---EDDLVISN  158 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~-----~~~~ll~~~~~~----~~~~~a~~~~~~~---~~~~~~~~  158 (258)
                      ...+++..+-.|+-+..++.+.+-.+..++.-...     +|...+..++..    .+.+.++.+++.+   -|+...|.
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP~s~lfl  270 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRYPNSALFL  270 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhCCCcHHHH
Confidence            45677788888999999999988744444443322     355555555443    4567788888888   57777765


Q ss_pred             HH-HHHHHhcCCHHHHHHHHHhcCC-----C--ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038429          159 SL-IHFYAVCGDLAMAYCVFVMIGK-----K--DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       159 ~l-i~~~~~~g~~~~a~~~~~~m~~-----~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      .. -+.+...|++++|.+.|+....     |  ....+--+.-.+.-..+|++|...|.++.+.+- -+..+|.-+..+|
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~-WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK-WSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc-cHHHHHHHHHHHH
Confidence            54 4566678999999999996543     1  222233333446677899999999999998642 2333444333333


Q ss_pred             -hccCCh-------hHHHHHHHHHH
Q 038429          231 -AKKRDL-------EFGIWVSSHIE  247 (258)
Q Consensus       231 -~~~g~~-------~~a~~~~~~m~  247 (258)
                       ...|+.       ++|.++|.++.
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHH
Confidence             346777       88888888774

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.

>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=95.77  E-value=0.026  Score=34.49  Aligned_cols=61  Identities=18%  Similarity=0.158  Sum_probs=49.1

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCC-ChHHHHHHHHHHHH
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGG-FFEKAIELYREMEV  213 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~  213 (258)
                      +..+|..+-..+...|++++|+..|++..+  | +...|..+-.+|...| ++++|+..+++..+
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            456788888888999999999999987654  4 5667888888888888 68999998887655

...

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.73  E-value=0.15  Score=40.47  Aligned_cols=64  Identities=5%  Similarity=-0.007  Sum_probs=50.6

Q ss_pred             hHHHHHHhccCC--CCChhhHHHHHHHHhcC-----CChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCc
Q 038429           73 LEYARKMFDQIP--QPNLYTWNTLIRAYSSS-----DEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARP  137 (258)
Q Consensus        73 ~~~a~~~~~~m~--~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~  137 (258)
                      +-..+..|...+  ++|-.+|-+.+..|...     +.++-....++.| ++.|+.-|..+|+.||+.+=+.
T Consensus        50 Lv~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m-~eyGVerDl~vYk~LlnvfPKg  120 (406)
T KOG3941|consen   50 LVHVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYM-KEYGVERDLDVYKGLLNVFPKG  120 (406)
T ss_pred             ccchhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHH-HHhcchhhHHHHHHHHHhCccc
Confidence            444566677665  58888999999888654     5677777888999 9999999999999999887664

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.61  E-value=0.068  Score=32.98  Aligned_cols=53  Identities=9%  Similarity=0.003  Sum_probs=24.1

Q ss_pred             HHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          195 FVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       195 ~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      |.+.+++++|.++++++...+ +.+...+...-..+.+.|++++|.+.++...+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            444455555555555544431 11223344444444455555555555554443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.49  E-value=0.53  Score=39.87  Aligned_cols=140  Identities=14%  Similarity=0.045  Sum_probs=107.9

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCC-CCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCchh-HHHHHHH
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSP-YFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDDLV-ISNSLIH  162 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~-~~~~li~  162 (258)
                      ..+|+..|+...+..-++.|..+|-+. ++.+ +.+++..++++|..++. |+...|.++|+.-   -||.. --+-.+.
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~-rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~f~d~~~y~~kyl~  474 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKL-RKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLKFPDSTLYKEKYLL  474 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHH-hccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHhCCCchHHHHHHHH
Confidence            456888899888888899999999999 7777 67888899999988764 6778888888876   44444 4466788


Q ss_pred             HHHhcCCHHHHHHHHHhcCCC---C--hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038429          163 FYAVCGDLAMAYCVFVMIGKK---D--VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACA  231 (258)
Q Consensus       163 ~~~~~g~~~~a~~~~~~m~~~---~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  231 (258)
                      -+.+.++-+.|..+|+....+   +  ...|..+|+-=..-|+...+..+=++|.+.  -|-..+.......|.
T Consensus       475 fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         475 FLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            888999999999999865542   2  457889998888889998888888887663  455555555555554

>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=95.47  E-value=0.022  Score=40.64  Aligned_cols=125  Identities=9%  Similarity=0.053  Sum_probs=86.5

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSF  108 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~  108 (258)
                      .+.+.+.+....++++.+...+...+....+.++..|++.+  +.+...++++....   .-...+++.|-+.|.++++.
T Consensus        16 ~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~--~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a~   90 (143)
T PF00637_consen   16 AFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYD--PYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEAV   90 (143)
T ss_dssp             HCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTT--TCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcC--CchHHHHHcccccc---cCHHHHHHHHHhcchHHHHH
Confidence            66667889999999999998877778999999999999998  88888888874433   44467888888888888888


Q ss_pred             HHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCC
Q 038429          109 MIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGD  169 (258)
Q Consensus       109 ~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~  169 (258)
                      -++.++ ...         ...+..+...++++.|.+..... ++...|..+++.|...++
T Consensus        91 ~Ly~~~-~~~---------~~al~i~~~~~~~~~a~e~~~~~-~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   91 YLYSKL-GNH---------DEALEILHKLKDYEEAIEYAKKV-DDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             HHHHCC-TTH---------TTCSSTSSSTHCSCCCTTTGGGC-SSSHHHHHHHHHHCTSTC
T ss_pred             HHHHHc-ccH---------HHHHHHHHHHccHHHHHHHHHhc-CcHHHHHHHHHHHHhcCc
Confidence            888766 211         11111244556666666444433 446677777777765544

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.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.36  E-value=0.095  Score=32.30  Aligned_cols=59  Identities=20%  Similarity=0.185  Sum_probs=46.1

Q ss_pred             HHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhh
Q 038429          162 HFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVT  222 (258)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t  222 (258)
                      ..|.+.+++++|.++++.+..  | +...|...-..+...|++++|.+.|++..+.  .|+...
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~~~   64 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALEL--SPDDPD   64 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCcHH
Confidence            567888999999999988765  4 5667777778888999999999999888865  355443

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.31  E-value=0.54  Score=34.48  Aligned_cols=133  Identities=17%  Similarity=0.118  Sum_probs=82.8

Q ss_pred             HHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc--cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhh
Q 038429          110 IFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF--EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVS  187 (258)
Q Consensus       110 ~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  187 (258)
                      .+.-+ .+.+++|+...+..+++.+.+.|++..-..++..-  +++...-..|++. ..  ....+.++--.|.++=...
T Consensus        16 YirSl-~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~-~~--~~~~~~Ql~lDMLkRL~~~   91 (167)
T PF07035_consen   16 YIRSL-NQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSL-GN--QYPPAYQLGLDMLKRLGTA   91 (167)
T ss_pred             HHHHH-HHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHh-Hc--cChHHHHHHHHHHHHhhhh
Confidence            34444 56778888888888888888888877666665554  4444444333322 21  2223333333333332235


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          188 WNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       188 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      +..+++.+...|++-+|.++.+.....    +......++.+..+.+|...-..+++...+.+
T Consensus        92 ~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   92 YEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            667777888889999999988764322    23334567888888888888888888766544

>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=95.25  E-value=0.46  Score=40.82  Aligned_cols=149  Identities=12%  Similarity=0.046  Sum_probs=100.3

Q ss_pred             ChHHHHHHhc--cCC-CCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhh
Q 038429           72 SLEYARKMFD--QIP-QPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHG  148 (258)
Q Consensus        72 ~~~~a~~~~~--~m~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  148 (258)
                      +++++.++.+  ++. .-+..-.+.++.-+-+.|.++.|+.+..+- .            .-.....+.|+++.|.++.+
T Consensus       276 d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~-~------------~rFeLAl~lg~L~~A~~~a~  342 (443)
T PF04053_consen  276 DFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDP-D------------HRFELALQLGNLDIALEIAK  342 (443)
T ss_dssp             -HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-H-H------------HHHHHHHHCT-HHHHHHHCC
T ss_pred             ChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCCh-H------------HHhHHHHhcCCHHHHHHHHH
Confidence            7777544443  111 222445788888899999999998876544 1            22445567888888888777


Q ss_pred             cccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 038429          149 MFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLS  228 (258)
Q Consensus       149 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~  228 (258)
                      ... +...|..|-+...+.|+++-|++.|.+..     -|..|+-.|.-.|+.++-.++.+.....|-      ++..+.
T Consensus       343 ~~~-~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~-----d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~  410 (443)
T PF04053_consen  343 ELD-DPEKWKQLGDEALRQGNIELAEECYQKAK-----DFSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQ  410 (443)
T ss_dssp             CCS-THHHHHHHHHHHHHTTBHHHHHHHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHH
T ss_pred             hcC-cHHHHHHHHHHHHHcCCHHHHHHHHHhhc-----CccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHH
Confidence            764 56699999999999999999999999865     366777778888888887777766665542      566666


Q ss_pred             HHhccCChhHHHHHHHH
Q 038429          229 ACAKKRDLEFGIWVSSH  245 (258)
Q Consensus       229 ~~~~~g~~~~a~~~~~~  245 (258)
                      ++.-.|++++..+++.+
T Consensus       411 ~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  411 AALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHT-HHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHH
Confidence            67777888888877764

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.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=95.21  E-value=0.92  Score=33.88  Aligned_cols=119  Identities=11%  Similarity=-0.032  Sum_probs=66.8

Q ss_pred             CCCCcchHHHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C---ChhhHH
Q 038429          120 YFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K---DVVSWN  189 (258)
Q Consensus       120 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~---~~~~~~  189 (258)
                      +-|+...---|-+++.+.|+..+|...|+..     ..|....-.+.++....+++..|...++..-+  |   +..+.-
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            3455555556666666666666666666665     44555555666666666777777776665433  1   333444


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHH
Q 038429          190 SMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGI  240 (258)
Q Consensus       190 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~  240 (258)
                      .+-..+...|+..+|+.-|+-...-  -|+...-...-..+.+.|+.+++.
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHH
Confidence            4556666667777777777665553  344433222233344455444443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=94.74  E-value=0.49  Score=43.21  Aligned_cols=98  Identities=14%  Similarity=0.085  Sum_probs=46.2

Q ss_pred             cCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHh--cCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHH
Q 038429          100 SSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAA--ARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMA  173 (258)
Q Consensus       100 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a  173 (258)
                      .++++..|+.......++.+-.+    |..++.++  .+.|+.++|..+++..    ..|..|...+-..|.+.|+.++|
T Consensus        21 d~~qfkkal~~~~kllkk~Pn~~----~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKHPNAL----YAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHCCCcH----HHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHH
Confidence            34455555555555433332221    22223322  3445555555555554    33455555555556666666666


Q ss_pred             HHHHHhcCC--CChhhHHHHHHHHHcCCCh
Q 038429          174 YCVFVMIGK--KDVVSWNSMISGFVEGGFF  201 (258)
Q Consensus       174 ~~~~~~m~~--~~~~~~~~li~~~~~~g~~  201 (258)
                      ..+|+...+  |+..-...+.-+|++-+.+
T Consensus        97 ~~~Ye~~~~~~P~eell~~lFmayvR~~~y  126 (932)
T KOG2053|consen   97 VHLYERANQKYPSEELLYHLFMAYVREKSY  126 (932)
T ss_pred             HHHHHHHHhhCCcHHHHHHHHHHHHHHHHH
Confidence            666655543  3333333444444554444

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=94.73  E-value=0.28  Score=39.03  Aligned_cols=59  Identities=15%  Similarity=0.006  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--KD----VVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      .+-.+-..|...|++++|...|..+.+  |+    ...+-.+...+...|+.++|..+|++..+.
T Consensus       182 A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        182 ANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344556666677777777777776653  32    223333444556677777777777777654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.68  E-value=2.2  Score=35.66  Aligned_cols=157  Identities=13%  Similarity=0.026  Sum_probs=87.1

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcch---------------------------------------HHH
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFT---------------------------------------LPF  129 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~---------------------------------------~~~  129 (258)
                      ..+...+...|..|+|++|+++++.-....-+.++..-                                       --.
T Consensus       189 WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL~pdlvPaav~  268 (531)
T COG3898         189 WAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKLAPDLVPAAVV  268 (531)
T ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCccchHHHH
Confidence            45788899999999999999999876223333343321                                       111


Q ss_pred             HHHHhcCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHH--HH--HHHHhcCCCChhhHHHHHHHHHcCCChH
Q 038429          130 VIKAAARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAM--AY--CVFVMIGKKDVVSWNSMISGFVEGGFFE  202 (258)
Q Consensus       130 ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~--a~--~~~~~m~~~~~~~~~~li~~~~~~g~~~  202 (258)
                      -..++.+.|+..++-.+++.+   +|...++  .+..+.+.|+...  ..  +-+..|+..+..+--.+..+....|++.
T Consensus       269 AAralf~d~~~rKg~~ilE~aWK~ePHP~ia--~lY~~ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~  346 (531)
T COG3898         269 AARALFRDGNLRKGSKILETAWKAEPHPDIA--LLYVRARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFS  346 (531)
T ss_pred             HHHHHHhccchhhhhhHHHHHHhcCCChHHH--HHHHHhcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchH
Confidence            223445555555555555555   3333332  2223344444211  11  1234444455556666666666666666


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHh-ccCChhHHHHHHHHHHHc
Q 038429          203 KAIELYREMEVENVKPDEVTMVVVLSACA-KKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       203 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~-~~g~~~~a~~~~~~m~~~  249 (258)
                      .|..--+....  ..|....|..|-+.-. ..||-.++.+.+.+-.+.
T Consensus       347 ~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         347 AARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            55443333322  4577777777766644 348888877777776654

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.66  E-value=0.29  Score=39.01  Aligned_cols=84  Identities=12%  Similarity=0.005  Sum_probs=69.0

Q ss_pred             HHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccCChhH
Q 038429          163 FYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-EVTMVVVLSACAKKRDLEF  238 (258)
Q Consensus       163 ~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g~~~~  238 (258)
                      -..+.+++.+|+..|.+..+  | |.+-|..--.+|.+.|..+.|.+=.+....  +-|. ..+|..|-.+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcHHH
Confidence            34577899999999998765  4 778888999999999999999887766554  3454 4689999999999999999


Q ss_pred             HHHHHHHHHH
Q 038429          239 GIWVSSHIEK  248 (258)
Q Consensus       239 a~~~~~~m~~  248 (258)
                      |.+.|+...+
T Consensus       168 A~~aykKaLe  177 (304)
T KOG0553|consen  168 AIEAYKKALE  177 (304)
T ss_pred             HHHHHHhhhc
Confidence            9999887653

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=94.65  E-value=0.68  Score=40.10  Aligned_cols=112  Identities=12%  Similarity=0.049  Sum_probs=82.9

Q ss_pred             cchhhhhhhcc-----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC----C-ChhhHHHHHHHHHcCCChHHHHHHHH
Q 038429          140 FRVGQAIHGMF-----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK----K-DVVSWNSMISGFVEGGFFEKAIELYR  209 (258)
Q Consensus       140 ~~~a~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~-~~~~~~~li~~~~~~g~~~~a~~~~~  209 (258)
                      .+....+++.+     ..-..+|..+|+.--|..-++.|..+|.+.++    + ++..++++++-||. ++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHH
Confidence            33444444444     23345788999999999999999999998876    2 77788999987775 67788999997


Q ss_pred             HHHHcCCCCChh-hHHHHHHHHhccCChhHHHHHHHHHHHcCCccc
Q 038429          210 EMEVENVKPDEV-TMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMD  254 (258)
Q Consensus       210 ~m~~~~~~p~~~-t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  254 (258)
                      --.+. + +|.. --...++-+.+.++-..|..+|+.....++.||
T Consensus       426 LGLkk-f-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~  469 (656)
T KOG1914|consen  426 LGLKK-F-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSAD  469 (656)
T ss_pred             HHHHh-c-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChh
Confidence            64443 2 3443 346777888888888889999998888776665

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.65  E-value=0.87  Score=36.39  Aligned_cols=99  Identities=11%  Similarity=-0.031  Sum_probs=72.6

Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCC---ChHHHHHHHHHHHHcCCCCChhhHH
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGG---FFEKAIELYREMEVENVKPDEVTMV  224 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~p~~~t~~  224 (258)
                      +-|...|-.|-..|...|+++.|...|....+   ++...+..+-+++....   ...++..+|+++.... .-|..+..
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~  231 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALS  231 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHH
Confidence            66778899999999999999999999887654   46666666655554332   3568888888887653 12445566


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          225 VVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      -|--.+...|++.+|...|+.|.+..
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            66677888899999999999887754

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.61  E-value=0.41  Score=38.20  Aligned_cols=105  Identities=10%  Similarity=-0.068  Sum_probs=58.7

Q ss_pred             CcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhc---CCHHHHHHHHHhcCC--C-ChhhHHHHH
Q 038429          123 NEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVC---GDLAMAYCVFVMIGK--K-DVVSWNSMI  192 (258)
Q Consensus       123 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~--~-~~~~~~~li  192 (258)
                      |...|-.|-.+|...|+++.|..-|...    +++...+..+-.++...   .+..++.++|+++.+  | |+.+-..|-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~lLA  234 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSLLA  234 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            4455555555555555555555555544    44444444444444332   235667777776654  3 444455555


Q ss_pred             HHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 038429          193 SGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSA  229 (258)
Q Consensus       193 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  229 (258)
                      ..+...|++.+|...|+.|.+..  |....+..+|..
T Consensus       235 ~~afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie~  269 (287)
T COG4235         235 FAAFEQGDYAEAAAAWQMLLDLL--PADDPRRSLIER  269 (287)
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC--CCCCchHHHHHH
Confidence            66777777777777777777652  334444444443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=94.57  E-value=1.4  Score=39.19  Aligned_cols=189  Identities=13%  Similarity=0.085  Sum_probs=100.9

Q ss_pred             HHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHHH-----HHHHHhcCCChhhHHHHHHHhHh
Q 038429           44 AQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWNT-----LIRAYSSSDEPIQSFMIFLQLVY  116 (258)
Q Consensus        44 ~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~-----li~~~~~~g~~~~a~~~~~~m~~  116 (258)
                      +++++.|-.|+....   ...|+-.|  .+.+|.++|.+--.  +-...|+.     ...-+...|..++-..+.+.- .
T Consensus       624 ~~~k~rge~P~~iLl---A~~~Ay~g--KF~EAAklFk~~G~enRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKR-A  697 (1081)
T KOG1538|consen  624 EERKKRGETPNDLLL---ADVFAYQG--KFHEAAKLFKRSGHENRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKR-A  697 (1081)
T ss_pred             HHHHhcCCCchHHHH---HHHHHhhh--hHHHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHH-H
Confidence            455566666665433   33455566  77777777765543  11122221     233344445444433333221 1


Q ss_pred             c--CCC-CCCcchHHHHHHHhcCcCCcchhhhh-------------hhcc-cCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 038429          117 N--SPY-FPNEFTLPFVIKAAARPVQFRVGQAI-------------HGMF-EDDLVISNSLIHFYAVCGDLAMAYCVFVM  179 (258)
Q Consensus       117 ~--~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~-------------~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~  179 (258)
                      +  +++ +|.     +....+...|+.++|..+             -..+ ..+..+.-.+-.-+.+...+.-|-++|..
T Consensus       698 ~WAr~~kePk-----aAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k  772 (1081)
T KOG1538|consen  698 DWARNIKEPK-----AAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLK  772 (1081)
T ss_pred             HHhhhcCCcH-----HHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHH
Confidence            1  111 121     122233344554444433             2222 33444444445555566677778888887


Q ss_pred             cCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChh-----------hHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          180 IGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEV-----------TMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       180 m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-----------t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      |..     ...++......++|.+|..+-++.-+  +.||.+           -|.-.-.+|-+.|+-.+|.++++++..
T Consensus       773 ~gD-----~ksiVqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  773 MGD-----LKSLVQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hcc-----HHHHhhheeecccchHhHhhhhhCcc--ccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence            653     23456667788889998888766433  334332           244455678888888888888888765


Q ss_pred             cC
Q 038429          249 NG  250 (258)
Q Consensus       249 ~g  250 (258)
                      ..
T Consensus       846 na  847 (1081)
T KOG1538|consen  846 NA  847 (1081)
T ss_pred             hh
Confidence            43

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.57  E-value=0.097  Score=37.27  Aligned_cols=129  Identities=12%  Similarity=0.099  Sum_probs=76.8

Q ss_pred             HHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHH
Q 038429           94 LIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMA  173 (258)
Q Consensus        94 li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  173 (258)
                      +|..+.+.+.+.....+++.+ ...+...+....+.++..|++.++.+....+++..  +.+-...+++.|.+.|.++.+
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~-~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~--~~yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEAL-VKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS--NNYDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHH-HHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS--SSS-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHH-HhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc--cccCHHHHHHHHHhcchHHHH
Confidence            566667777777777788777 55554556667788888888887767777666633  224555677777777777777


Q ss_pred             HHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCh
Q 038429          174 YCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDL  236 (258)
Q Consensus       174 ~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~  236 (258)
                      .-++.++...+...     ..+...++++.|.+++.+      .+|...|..+++.|...++.
T Consensus        90 ~~Ly~~~~~~~~al-----~i~~~~~~~~~a~e~~~~------~~~~~l~~~l~~~~l~~~~~  141 (143)
T PF00637_consen   90 VYLYSKLGNHDEAL-----EILHKLKDYEEAIEYAKK------VDDPELWEQLLKYCLDSKPF  141 (143)
T ss_dssp             HHHHHCCTTHTTCS-----STSSSTHCSCCCTTTGGG------CSSSHHHHHHHHHHCTSTCT
T ss_pred             HHHHHHcccHHHHH-----HHHHHHccHHHHHHHHHh------cCcHHHHHHHHHHHHhcCcc
Confidence            77777665421110     012233344444432221      24567777777777766543

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.41  E-value=0.26  Score=41.79  Aligned_cols=64  Identities=6%  Similarity=-0.028  Sum_probs=56.6

Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          184 DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE----VTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       184 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +...|+.+-.+|...|++++|+..|++..+.  .|+.    .+|..+-.+|...|++++|.+.+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6678999999999999999999999997774  5764    35899999999999999999999998775

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.24  E-value=1.3  Score=31.23  Aligned_cols=78  Identities=12%  Similarity=0.040  Sum_probs=43.3

Q ss_pred             ccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHH
Q 038429           31 HFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMI  110 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~  110 (258)
                      ...+.+.....+++.+.+.+ ..++...+.++..|++..   -+.....++.  ..+......+++.|.+.+.++++.-+
T Consensus        18 ~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~---~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~~~~~l   91 (140)
T smart00299       18 EKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD---PQKEIERLDN--KSNHYDIEKVGKLCEKAKLYEEAVEL   91 (140)
T ss_pred             HhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC---HHHHHHHHHh--ccccCCHHHHHHHHHHcCcHHHHHHH
Confidence            33456666666666666665 356666777777776553   2333333331  23334444566666666666666666


Q ss_pred             HHHh
Q 038429          111 FLQL  114 (258)
Q Consensus       111 ~~~m  114 (258)
                      +..+
T Consensus        92 ~~k~   95 (140)
T smart00299       92 YKKD   95 (140)
T ss_pred             HHhh
Confidence            6555

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.14  E-value=0.86  Score=31.94  Aligned_cols=80  Identities=9%  Similarity=-0.024  Sum_probs=57.3

Q ss_pred             CCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcC---CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          138 VQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIG---KKDVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       138 ~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      |++..+...+..+..+....+..++.+...|+-|.-.+++..+.   ++++...-.+-.+|.+.|+..++.+++++.-+.
T Consensus        70 ~NlKrVi~C~~~~n~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   70 GNLKRVIECYAKRNKLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             S-THHHHHHHHHTT---HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHhcchHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            34444444444445556677888999999999999999998875   578888888999999999999999999999888


Q ss_pred             CCC
Q 038429          215 NVK  217 (258)
Q Consensus       215 ~~~  217 (258)
                      |++
T Consensus       150 G~k  152 (161)
T PF09205_consen  150 GLK  152 (161)
T ss_dssp             T-H
T ss_pred             chH
Confidence            863

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=94.04  E-value=0.18  Score=38.44  Aligned_cols=166  Identities=13%  Similarity=0.047  Sum_probs=75.3

Q ss_pred             ChHHHHHHhccCCC--C----ChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhh
Q 038429           72 SLEYARKMFDQIPQ--P----NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQA  145 (258)
Q Consensus        72 ~~~~a~~~~~~m~~--~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  145 (258)
                      ++++|...|+.+..  |    ...+.-.++.++-+.|++++|...+++..+...-.|.. -+...+.+.+..........
T Consensus        20 ~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~-~~A~Y~~g~~~~~~~~~~~~   98 (203)
T PF13525_consen   20 DYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKA-DYALYMLGLSYYKQIPGILR   98 (203)
T ss_dssp             -HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTH-HHHHHHHHHHHHHHHHHHH-
T ss_pred             CHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcch-hhHHHHHHHHHHHhCccchh
Confidence            67777777666543  2    22334456666677777777777777764443333321 12222222211110000000


Q ss_pred             hhhcc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh--
Q 038429          146 IHGMF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE--  220 (258)
Q Consensus       146 ~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--  220 (258)
                      .....   ..-...+..+|.-|=.+.-..+|......+++.=...--.+..-|.+.|.+..|..-++.+.+. . |+.  
T Consensus        99 ~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~-y-p~t~~  176 (203)
T PF13525_consen   99 SDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIEN-Y-PDTPA  176 (203)
T ss_dssp             TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHH-S-TTSHH
T ss_pred             cccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH-C-CCCch
Confidence            00000   0011233333444444444444444433332211111112445678888888888888888775 2 332  


Q ss_pred             --hhHHHHHHHHhccCChhHHH
Q 038429          221 --VTMVVVLSACAKKRDLEFGI  240 (258)
Q Consensus       221 --~t~~~li~~~~~~g~~~~a~  240 (258)
                        .....++.++.+.|..+.+.
T Consensus       177 ~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  177 AEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHHHHHHhCChHHHH
Confidence              34577788888888877443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=94.03  E-value=0.26  Score=34.08  Aligned_cols=82  Identities=11%  Similarity=0.058  Sum_probs=42.8

Q ss_pred             ccccchhhHHHHHHHHHhhccCcc--hhhhhhhhhhhhccCCCChHHHHHHhccCCC--CC----hhhHHHHHHHHhcCC
Q 038429           31 HFLTNQKQLKRIHAQMLSTDFFFD--PYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PN----LYTWNTLIRAYSSSD  102 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~g  102 (258)
                      -..|+.++|..+|+.....|+..+  ...+-.+-..+...|  +.++|..+|++...  |+    ......+.-++...|
T Consensus        12 d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG--~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~g   89 (120)
T PF12688_consen   12 DSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLG--RYDEALALLEEALEEFPDDELNAALRVFLALALYNLG   89 (120)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHCC
Confidence            345666667777776666665443  223444555555556  66666666654432  22    111122223445556


Q ss_pred             ChhhHHHHHHHh
Q 038429          103 EPIQSFMIFLQL  114 (258)
Q Consensus       103 ~~~~a~~~~~~m  114 (258)
                      +.++|++.+-..
T Consensus        90 r~~eAl~~~l~~  101 (120)
T PF12688_consen   90 RPKEALEWLLEA  101 (120)
T ss_pred             CHHHHHHHHHHH
Confidence            666666655443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.02  E-value=0.58  Score=37.37  Aligned_cols=78  Identities=13%  Similarity=0.166  Sum_probs=63.6

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH-----cCCCCChhhHH
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV-----ENVKPDEVTMV  224 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~t~~  224 (258)
                      -..++..++..+...|+++.+.+.+++...  | +...|..++.+|.+.|+...|+..|+.+..     .|+.|...+..
T Consensus       152 ~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         152 FIKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            455677888888889999999999888765  3 778899999999999999999999988765     48888888777


Q ss_pred             HHHHHH
Q 038429          225 VVLSAC  230 (258)
Q Consensus       225 ~li~~~  230 (258)
                      ......
T Consensus       232 ~y~~~~  237 (280)
T COG3629         232 LYEEIL  237 (280)
T ss_pred             HHHHHh
Confidence            666663

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.01  E-value=0.56  Score=36.94  Aligned_cols=107  Identities=9%  Similarity=-0.023  Sum_probs=75.4

Q ss_pred             CCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHH-----HhcCcCCcchhhhhhhcc----cCchh
Q 038429           85 QPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIK-----AAARPVQFRVGQAIHGMF----EDDLV  155 (258)
Q Consensus        85 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~-----~~~~~~~~~~a~~~~~~~----~~~~~  155 (258)
                      +.++..-..|.+.--+.|+.+.|...|++. .+..-+.|..+++.++.     .+.-.+++..+...+..+    +.|+.
T Consensus       209 e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~v-ek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~  287 (366)
T KOG2796|consen  209 EQEPQLLSGLGRISMQIGDIKTAEKYFQDV-EKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAV  287 (366)
T ss_pred             cccHHHHHHHHHHHHhcccHHHHHHHHHHH-HHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchh
Confidence            456667777888888899999999999999 44444556666655443     344556777777777666    55666


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--CChhhHHHHH
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--KDVVSWNSMI  192 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~~~~~~li  192 (258)
                      ..|+-.-+..-.|+..+|.+..+.|.+  |...+-++++
T Consensus       288 a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l~es~~  326 (366)
T KOG2796|consen  288 ANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYLHESVL  326 (366)
T ss_pred             hhchHHHHHHHHHHHHHHHHHHHHHhccCCccchhhhHH
Confidence            666666666667999999999999987  5444444443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=93.73  E-value=2.2  Score=31.96  Aligned_cols=95  Identities=14%  Similarity=0.013  Sum_probs=50.5

Q ss_pred             CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cC---chhHHHH
Q 038429           86 PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---ED---DLVISNS  159 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~---~~~~~~~  159 (258)
                      |++..--.|..++.+.|+..+|...|++. ...-.--|....-.+.++....+++..+...++.+   +|   +..+.-.
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qa-lsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQA-LSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHH-hccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            44444445555666666666666666555 33333344455555555555566666665555555   11   1122233


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcC
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +-+.|.-.|+..+|+..|+...
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~  187 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAI  187 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHH
Confidence            4455666666666666666544

>PRK15331 chaperone protein SicA; Provisional

Probab=93.71  E-value=0.7  Score=33.66  Aligned_cols=80  Identities=8%  Similarity=-0.098  Sum_probs=50.1

Q ss_pred             hcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhc---CCCChhhHHHHHHHHHcCCChHHHHH
Q 038429          134 AARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMI---GKKDVVSWNSMISGFVEGGFFEKAIE  206 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m---~~~~~~~~~~li~~~~~~g~~~~a~~  206 (258)
                      +-..|++++|+.+|..+    .-+..-|..|-.++...+++++|...|...   ...|...+--.-.+|...|+.+.|..
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            34567777777777777    444455666666666777777777777532   22344444455556666777777777


Q ss_pred             HHHHHHH
Q 038429          207 LYREMEV  213 (258)
Q Consensus       207 ~~~~m~~  213 (258)
                      -|+....
T Consensus       127 ~f~~a~~  133 (165)
T PRK15331        127 CFELVNE  133 (165)
T ss_pred             HHHHHHh
Confidence            7666555

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.62  E-value=1.3  Score=35.90  Aligned_cols=123  Identities=11%  Similarity=0.080  Sum_probs=74.8

Q ss_pred             hhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcC--cCC----cchhhhhhhcc--------cCchhHHHHHHHHHHhcCC
Q 038429          104 PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAAR--PVQ----FRVGQAIHGMF--------EDDLVISNSLIHFYAVCGD  169 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~--~~~----~~~a~~~~~~~--------~~~~~~~~~li~~~~~~g~  169 (258)
                      +++.+.+++.| ++.|..-+..+|-+..-....  ..+    ...+..+++.|        .++-..+..++..  ...+
T Consensus        78 ~~~~~~~y~~L-~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~  154 (297)
T PF13170_consen   78 FKEVLDIYEKL-KEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSED  154 (297)
T ss_pred             HHHHHHHHHHH-HHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--cccc
Confidence            45667788888 889999888777653333322  333    34678888888        5555666666554  2232


Q ss_pred             ----HHHHHHHHHhcCC------CChhhHHHHHHHHHcCCC--hHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 038429          170 ----LAMAYCVFVMIGK------KDVVSWNSMISGFVEGGF--FEKAIELYREMEVENVKPDEVTMVVVLSA  229 (258)
Q Consensus       170 ----~~~a~~~~~~m~~------~~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~~~~p~~~t~~~li~~  229 (258)
                          .+.++.+|+.+.+      .+......++........  ...+.++++.+.+.|+++....|..+.-.
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence                3555566665543      133444444433332222  44788889999999988877776655433

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=93.55  E-value=3.5  Score=35.22  Aligned_cols=135  Identities=10%  Similarity=0.083  Sum_probs=88.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccC----cc-hhhhhhhhhhhhccCCCChHHHHHHhccCCC-CChhhHHHHHHHHh--c
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFF----FD-PYSASKLFTPCALSTFSSLEYARKMFDQIPQ-PNLYTWNTLIRAYS--S  100 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~----~~-~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~--~  100 (258)
                      .+.+.+++.++..+|..+.+..-.    .. ...-+.++++|...   +++.....+....+ -....|-.+..++.  +
T Consensus        15 ~Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~---nld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~   91 (549)
T PF07079_consen   15 ILQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN---NLDLMEKQLMELRQQFGKSAYLPLFKALVAYK   91 (549)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh---hHHHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            566788999999999999876422    11 22346788888865   56666666655544 22444555555443  4


Q ss_pred             CCChhhHHHHHHHhHhcC--CCCCC-----------cch-HHHHHHHhcCcCCcchhhhhhhcc---------cCchhHH
Q 038429          101 SDEPIQSFMIFLQLVYNS--PYFPN-----------EFT-LPFVIKAAARPVQFRVGQAIHGMF---------EDDLVIS  157 (258)
Q Consensus       101 ~g~~~~a~~~~~~m~~~~--~~~p~-----------~~~-~~~ll~~~~~~~~~~~a~~~~~~~---------~~~~~~~  157 (258)
                      .++.++|++.+..- +..  +..|.           ... =+..++++...|++.++..+++.+         ..+..+|
T Consensus        92 ~k~~~kal~~ls~w-~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   92 QKEYRKALQALSVW-KEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             hhhHHHHHHHHHHH-HhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            57788887777554 322  22221           111 246677889999999999998888         4688888


Q ss_pred             HHHHHHHHhc
Q 038429          158 NSLIHFYAVC  167 (258)
Q Consensus       158 ~~li~~~~~~  167 (258)
                      |.++-.++++
T Consensus       171 d~~vlmlsrS  180 (549)
T PF07079_consen  171 DRAVLMLSRS  180 (549)
T ss_pred             HHHHHHHhHH
Confidence            8877777654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.50  E-value=0.62  Score=37.18  Aligned_cols=70  Identities=14%  Similarity=0.149  Sum_probs=60.5

Q ss_pred             hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH-----cCCcccc
Q 038429          185 VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK-----NGIKMDL  255 (258)
Q Consensus       185 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~  255 (258)
                      ..++..+++.+...|+.+.+...++++.... +-|...|..++.+|.+.|+...|...++.+.+     .|+.|..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~  227 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAP  227 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccH
Confidence            4578889999999999999999999998763 35889999999999999999999999998764     6777754

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=93.31  E-value=0.85  Score=32.54  Aligned_cols=90  Identities=12%  Similarity=0.074  Sum_probs=70.9

Q ss_pred             HhhccCcchh--hhhhhhhhhhccCCCChHHHHHHhccCCC---------CChhhHHHHHHHHhcCCC-hhhHHHHHHHh
Q 038429           47 LSTDFFFDPY--SASKLFTPCALSTFSSLEYARKMFDQIPQ---------PNLYTWNTLIRAYSSSDE-PIQSFMIFLQL  114 (258)
Q Consensus        47 ~~~~~~~~~~--~~~~li~~~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~li~~~~~~g~-~~~a~~~~~~m  114 (258)
                      ...+..++..  ..|.++.-...-+  ++.....+++.+..         .+..+|+.++++.+++.. ---+..+|+-|
T Consensus        29 ~~~~~~~~~k~~fiN~iL~hl~~~~--nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~L  106 (145)
T PF13762_consen   29 QEENASQSTKTIFINCILNHLASYQ--NFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFL  106 (145)
T ss_pred             hhcccChhHHHHHHHHHHHHHHHcc--chHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHH
Confidence            4445565554  4688888888777  99988888887753         567789999999988776 45668888999


Q ss_pred             HhcCCCCCCcchHHHHHHHhcCcCC
Q 038429          115 VYNSPYFPNEFTLPFVIKAAARPVQ  139 (258)
Q Consensus       115 ~~~~~~~p~~~~~~~ll~~~~~~~~  139 (258)
                       ++.+.+++..-|..+|+++.+...
T Consensus       107 -k~~~~~~t~~dy~~li~~~l~g~~  130 (145)
T PF13762_consen  107 -KKNDIEFTPSDYSCLIKAALRGYF  130 (145)
T ss_pred             -HHcCCCCCHHHHHHHHHHHHcCCC
Confidence             778899999999999999888643

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.13  E-value=1.3  Score=35.02  Aligned_cols=93  Identities=14%  Similarity=0.156  Sum_probs=72.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--C----ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC-CCCC-hhhHHHHH
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--K----DVVSWNSMISGFVEGGFFEKAIELYREMEVEN-VKPD-EVTMVVVL  227 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~-~~t~~~li  227 (258)
                      .|+.-+..| +.|++.+|...|..-.+  |    ....+--|-+++...|+.++|..+|..+.+.- =.|- ...+--|.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            577766655 56779999999987765  3    33456678899999999999999999998752 1122 25666777


Q ss_pred             HHHhccCChhHHHHHHHHHHHc
Q 038429          228 SACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .+..+.|+.++|..+|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            7888999999999999999865

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

Probab=93.01  E-value=4.5  Score=33.38  Aligned_cols=214  Identities=11%  Similarity=-0.029  Sum_probs=135.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcc------------hhhh--hhhhhhhhccCCCChHHHHHHhccCCC---CChhhH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFD------------PYSA--SKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTW   91 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~------------~~~~--~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~   91 (258)
                      .+-+.|.+++|.+=|+.+++......            ...+  ...+..+.-.|  +...|.....++.+   -+...|
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~G--D~~~ai~~i~~llEi~~Wda~l~  192 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSG--DCQNAIEMITHLLEIQPWDASLR  192 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCC--chhhHHHHHHHHHhcCcchhHHH
Confidence            45568999999999999987743211            1112  22334445556  88888888877754   577888


Q ss_pred             HHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCchhHH-H---HH----
Q 038429           92 NTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDDLVIS-N---SL----  160 (258)
Q Consensus        92 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~-~---~l----  160 (258)
                      ..-..+|...|.+..|+.=++.. .+. -.-|+.++--+-..+-..|+.+.+.......   .||--.+ .   .|    
T Consensus       193 ~~Rakc~i~~~e~k~AI~Dlk~a-skL-s~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~YKklkKv~  270 (504)
T KOG0624|consen  193 QARAKCYIAEGEPKKAIHDLKQA-SKL-SQDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPFYKKLKKVV  270 (504)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHH-Hhc-cccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHHHHHHHHHH
Confidence            88899999999999997666555 222 1234555656666667778877776655555   3333221 1   11    


Q ss_pred             -----HHHHHhcCCHHHHHHHHHhcCC--CC--hh---hHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-hhhHHHHH
Q 038429          161 -----IHFYAVCGDLAMAYCVFVMIGK--KD--VV---SWNSMISGFVEGGFFEKAIELYREMEVENVKPD-EVTMVVVL  227 (258)
Q Consensus       161 -----i~~~~~~g~~~~a~~~~~~m~~--~~--~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~t~~~li  227 (258)
                           +....+.+++.++.+-.+...+  |.  .+   .+..+-.++...+++.+|+..-.+...  +.|| ..++.-=.
T Consensus       271 K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~--~d~~dv~~l~dRA  348 (504)
T KOG0624|consen  271 KSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD--IDPDDVQVLCDRA  348 (504)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh--cCchHHHHHHHHH
Confidence                 1222344566666666554432  32  22   344566777888899999988887765  4565 56666666


Q ss_pred             HHHhccCChhHHHHHHHHHHH
Q 038429          228 SACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      .+|.-...++.|..=|+...+
T Consensus       349 eA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  349 EAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             HHHhhhHHHHHHHHHHHHHHh
Confidence            777777777777776666544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.99  E-value=1.9  Score=37.48  Aligned_cols=150  Identities=12%  Similarity=0.077  Sum_probs=99.1

Q ss_pred             hhhhhhhhhccCCCChHHHHHHhccCCC-C---------ChhhHHHHHHHHhcC----CChhhHHHHHHHhHhcCCCCCC
Q 038429           58 ASKLFTPCALSTFSSLEYARKMFDQIPQ-P---------NLYTWNTLIRAYSSS----DEPIQSFMIFLQLVYNSPYFPN  123 (258)
Q Consensus        58 ~~~li~~~~~~~~~~~~~a~~~~~~m~~-~---------~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~~~~~p~  123 (258)
                      +..++...+-.|  |-+...+++.+..+ .         -.-.|+.++..++..    ...+.|.++++.+ .+.  -|+
T Consensus       191 ~~kll~~vGF~g--dR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~-~~~--yP~  265 (468)
T PF10300_consen  191 VLKLLSFVGFSG--DRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEM-LKR--YPN  265 (468)
T ss_pred             HHHHHhhcCcCC--cHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHH-HHh--CCC
Confidence            455666677777  88888888776543 2         223477777666654    4678899999988 432  366


Q ss_pred             cchHHHH-HHHhcCcCCcchhhhhhhcc--------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhhHHHH
Q 038429          124 EFTLPFV-IKAAARPVQFRVGQAIHGMF--------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK---DVVSWNSM  191 (258)
Q Consensus       124 ~~~~~~l-l~~~~~~~~~~~a~~~~~~~--------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~l  191 (258)
                      ..-|... -+.+...|++++|...++..        +.....+--+.-.+.-.+++++|.+.|..+.+-   ...+|.-+
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            6555433 34466778999999999965        333334444555677789999999999988763   33445544


Q ss_pred             HHHH-HcCCCh-------HHHHHHHHHHH
Q 038429          192 ISGF-VEGGFF-------EKAIELYREME  212 (258)
Q Consensus       192 i~~~-~~~g~~-------~~a~~~~~~m~  212 (258)
                      ..+| ...|+.       ++|.++|++..
T Consensus       346 ~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  346 AAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            4333 455666       88888887753

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.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=92.99  E-value=0.25  Score=41.29  Aligned_cols=218  Identities=9%  Similarity=-0.039  Sum_probs=130.1

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchh----hhhhhhhhhhccCCCChHHHHHHhcc-------CC----C--------
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPY----SASKLFTPCALSTFSSLEYARKMFDQ-------IP----Q--------   85 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~li~~~~~~~~~~~~~a~~~~~~-------m~----~--------   85 (258)
                      .+++.|+.+....+|...++.|.. |..    +|..|-++|...+  ++++|+++...       |.    +        
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~--DY~kAl~yH~hDltlar~lgdklGEAKssgNLG  102 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLK--DYEKALKYHTHDLTLARLLGDKLGEAKSSGNLG  102 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHh--hHHHHHhhhhhhHHHHHHhcchhcccccccccc
Confidence            467789999999999999998843 433    4666777777777  88888776431       10    0        


Q ss_pred             ------------------------------CChhhHHHHHHHHhcCCC--------------------hhhHHHHHHHh-
Q 038429           86 ------------------------------PNLYTWNTLIRAYSSSDE--------------------PIQSFMIFLQL-  114 (258)
Q Consensus        86 ------------------------------~~~~~~~~li~~~~~~g~--------------------~~~a~~~~~~m-  114 (258)
                                                    ....++..+-..|...|+                    ++.|.++|.+= 
T Consensus       103 NtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL  182 (639)
T KOG1130|consen  103 NTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENL  182 (639)
T ss_pred             chhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHH
Confidence                                          011223333344433321                    12222222210 


Q ss_pred             --HhcCCCC-CCcchHHHHHHHhcCcCCcchhhhhhhcc----------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          115 --VYNSPYF-PNEFTLPFVIKAAARPVQFRVGQAIHGMF----------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       115 --~~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                        ..+.|-. .-...|..|-+.|--.|+++.|...++.-          ......+..|-+++.-.|+++.|.+.|+.-.
T Consensus       183 ~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl  262 (639)
T KOG1130|consen  183 ELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTL  262 (639)
T ss_pred             HHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHH
Confidence              0111110 11234555555555567777776665544          3344567778888888888888888876432


Q ss_pred             -------CC--ChhhHHHHHHHHHcCCChHHHHHHHHHHHH----cC-CCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          182 -------KK--DVVSWNSMISGFVEGGFFEKAIELYREMEV----EN-VKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       182 -------~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~-~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                             .+  ...+.-+|-..|.-..++++|+.++.+=..    .+ ..-....|.+|-.++...|..++|..+...-.
T Consensus       263 ~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  263 NLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence                   22  223445566666666778888887755321    11 22356789999999999999999988777654


Q ss_pred             Hc
Q 038429          248 KN  249 (258)
Q Consensus       248 ~~  249 (258)
                      +.
T Consensus       343 ~~  344 (639)
T KOG1130|consen  343 RS  344 (639)
T ss_pred             HH
Confidence            43

>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=92.94  E-value=1  Score=38.73  Aligned_cols=133  Identities=11%  Similarity=0.009  Sum_probs=88.4

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHh
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAA  134 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~  134 (258)
                      ....+.++..+-+.|  -.+.|+.+...-        ..-.....+.|+++.|.++.++.       .+...|..|-+..
T Consensus       295 ~~~~~~i~~fL~~~G--~~e~AL~~~~D~--------~~rFeLAl~lg~L~~A~~~a~~~-------~~~~~W~~Lg~~A  357 (443)
T PF04053_consen  295 KDQGQSIARFLEKKG--YPELALQFVTDP--------DHRFELALQLGNLDIALEIAKEL-------DDPEKWKQLGDEA  357 (443)
T ss_dssp             HHHHHHHHHHHHHTT---HHHHHHHSS-H--------HHHHHHHHHCT-HHHHHHHCCCC-------STHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCC--CHHHHHhhcCCh--------HHHhHHHHhcCCHHHHHHHHHhc-------CcHHHHHHHHHHH
Confidence            334788888888888  888888885432        34556667788888887765444       3667888999999


Q ss_pred             cCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHH
Q 038429          135 ARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       135 ~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      .+.|+++.|+..+....    -+..|+--|.-.|+.++-.++.+......  -+|....++.-.|+.++..+++.+
T Consensus       358 L~~g~~~lAe~c~~k~~----d~~~L~lLy~~~g~~~~L~kl~~~a~~~~--~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  358 LRQGNIELAEECYQKAK----DFSGLLLLYSSTGDREKLSKLAKIAEERG--DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHTTBHHHHHHHHHHCT-----HHHHHHHHHHCT-HHHHHHHHHHHHHTT---HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHhhc----CccccHHHHHHhCCHHHHHHHHHHHHHcc--CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999988888888763    25666667777788777777766544322  245555555555777777666643

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.93  E-value=0.62  Score=37.58  Aligned_cols=94  Identities=13%  Similarity=0.142  Sum_probs=58.7

Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-C--------ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChh
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-K--------DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEV  221 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~--------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  221 (258)
                      +.+..+...++..-....+++++...+-..+. |        +.++|--+   +.+ =+.++++.++..=.+-|+-||.+
T Consensus        61 ~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irl---llk-y~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   61 PVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRL---LLK-YDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHH---HHc-cChHHHHHHHhCcchhccccchh
Confidence            33444555555555555667777766655543 2        22233222   222 24567777777767778888888


Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          222 TMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       222 t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      |+..+++.+.+.+++.+|.++.-.|+.
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            888888888888888888877776654

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.46  E-value=2.8  Score=33.53  Aligned_cols=61  Identities=10%  Similarity=-0.008  Sum_probs=29.2

Q ss_pred             CChhhHHHHHHHHHcCCChHHHHHHHHHHHHc-CCCCChhhHHHHHHHHhccCChhHHHHHH
Q 038429          183 KDVVSWNSMISGFVEGGFFEKAIELYREMEVE-NVKPDEVTMVVVLSACAKKRDLEFGIWVS  243 (258)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~t~~~li~~~~~~g~~~~a~~~~  243 (258)
                      ++..+....|+.+++.++|.+-.++|+.-... +..-|...|..+|+.-...|+..-...+.
T Consensus       200 l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI  261 (292)
T PF13929_consen  200 LTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKII  261 (292)
T ss_pred             CChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHh
Confidence            34444445555555555555555555443332 23334445555555555555554443333

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.43  E-value=0.29  Score=25.53  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=12.7

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHH
Q 038429          188 WNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       188 ~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      |+.|-..|.+.|++++|++++++
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            44555555566666666666555

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.39  E-value=0.24  Score=25.90  Aligned_cols=25  Identities=20%  Similarity=0.232  Sum_probs=21.0

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHh
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQL  114 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m  114 (258)
                      +|+.|-..|.+.|++++|+.+|++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5788899999999999999999884

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=92.26  E-value=1.4  Score=41.16  Aligned_cols=148  Identities=11%  Similarity=-0.079  Sum_probs=100.0

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCC---C--hhhHHHHHHHHhcCCC
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQP---N--LYTWNTLIRAYSSSDE  103 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~---~--~~~~~~li~~~~~~g~  103 (258)
                      .++...+..+|.+.|....... .-+...+....+.|+...  +++.|..+.-...+.   .  ..-|-..--.|...++
T Consensus       501 iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~--~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n  577 (1238)
T KOG1127|consen  501 IYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEES--TWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHN  577 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccc--cHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccc
Confidence            3444446777777777776655 446677889999999999  999998884333221   1  1223334445667788


Q ss_pred             hhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 038429          104 PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVM  179 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~  179 (258)
                      ..+|+.-|+.. -+. -+-|...|..+..+|.++|++..|..+|...    +.+.+.---.--.-|..|++.+|.+.+..
T Consensus       578 ~h~aV~~fQsA-LR~-dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~  655 (1238)
T KOG1127|consen  578 LHGAVCEFQSA-LRT-DPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALDALGL  655 (1238)
T ss_pred             hhhHHHHHHHH-hcC-CchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            88888887766 222 1335677889999999999999999999877    22233333333445677889998888876


Q ss_pred             cC
Q 038429          180 IG  181 (258)
Q Consensus       180 m~  181 (258)
                      ..
T Consensus       656 ii  657 (1238)
T KOG1127|consen  656 II  657 (1238)
T ss_pred             HH
Confidence            54

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.93  E-value=2.1  Score=38.64  Aligned_cols=116  Identities=11%  Similarity=-0.026  Sum_probs=76.1

Q ss_pred             ccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHH
Q 038429           50 DFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPF  129 (258)
Q Consensus        50 ~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~  129 (258)
                      |....-.+.+-.+.-+...|  +-.+|.++-.+..-||-..|-.-+.+++..++|++-+++-+.+ +      ++.-|.-
T Consensus       679 ~~~f~dlSl~dTv~~li~~g--~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAksk-k------sPIGy~P  749 (829)
T KOG2280|consen  679 GGSFVDLSLHDTVTTLILIG--QNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSK-K------SPIGYLP  749 (829)
T ss_pred             ccccccCcHHHHHHHHHHcc--chHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhcc-C------CCCCchh
Confidence            33334445555666666677  7788888888777788888888888888888777765554433 1      2455666


Q ss_pred             HHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHH
Q 038429          130 VIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFV  178 (258)
Q Consensus       130 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  178 (258)
                      ...+|.+.|+.++|...+....+..    -...+|.+.|++.+|.++--
T Consensus       750 FVe~c~~~~n~~EA~KYiprv~~l~----ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  750 FVEACLKQGNKDEAKKYIPRVGGLQ----EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HHHHHHhcccHHHHhhhhhccCChH----HHHHHHHHhccHHHHHHHHH
Confidence            7777777777777777666663322    45666777777766666543

>PRK15331 chaperone protein SicA; Provisional

Probab=91.69  E-value=1  Score=32.82  Aligned_cols=46  Identities=13%  Similarity=-0.011  Sum_probs=19.6

Q ss_pred             hcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 038429          134 AARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVM  179 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~  179 (258)
                      +-..+++++|...+...    ..|...+-..-.+|...|+.+.|.+.|..
T Consensus        81 ~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~~~f~~  130 (165)
T PRK15331         81 CQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQCFEL  130 (165)
T ss_pred             HHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHHHHHHH
Confidence            33344444444444444    22222333334444444555555544443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=91.66  E-value=1.6  Score=36.51  Aligned_cols=98  Identities=9%  Similarity=-0.003  Sum_probs=64.2

Q ss_pred             CCCceeeecCCCccCcccccchhhHHHHHHHHHhhc---cCcchhhhhhhhhhhhc---cCCCChHHHHHHhcc-CC---
Q 038429           15 PNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTD---FFFDPYSASKLFTPCAL---STFSSLEYARKMFDQ-IP---   84 (258)
Q Consensus        15 p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~---~~~~~~~~~~li~~~~~---~~~~~~~~a~~~~~~-m~---   84 (258)
                      |...+..++..++.++....+++...++.+.+....   +.-++.+--....++.+   .|  +-++|..++.. ..   
T Consensus       136 ~~~ls~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~g--dre~Al~il~~~l~~~~  213 (374)
T PF13281_consen  136 PELLSPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPG--DREKALQILLPVLESDE  213 (374)
T ss_pred             HhhcChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCC--CHHHHHHHHHHHHhccC
Confidence            455566666777778999999999999999998762   22233333344555556   56  99999999877 33   


Q ss_pred             CCChhhHHHHHHHHhc----C-----CChhhHHHHHHHh
Q 038429           85 QPNLYTWNTLIRAYSS----S-----DEPIQSFMIFLQL  114 (258)
Q Consensus        85 ~~~~~~~~~li~~~~~----~-----g~~~~a~~~~~~m  114 (258)
                      .++..+|..+.+.|-.    +     ...++|+..|.+-
T Consensus       214 ~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kg  252 (374)
T PF13281_consen  214 NPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKG  252 (374)
T ss_pred             CCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHH
Confidence            2667777776665532    1     1255666655543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=91.66  E-value=3.7  Score=32.29  Aligned_cols=145  Identities=10%  Similarity=0.025  Sum_probs=81.3

Q ss_pred             hhccCCCChHHHHHHhccCCC--CChh-h---HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcC--
Q 038429           65 CALSTFSSLEYARKMFDQIPQ--PNLY-T---WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAAR--  136 (258)
Q Consensus        65 ~~~~~~~~~~~a~~~~~~m~~--~~~~-~---~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~--  136 (258)
                      +...|  +++.|...|+.+..  |+.. .   .-.+..++.+.+++++|...+++.++...-.|+. -|...+.+.+.  
T Consensus        42 ~~~~g--~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~-~~a~Y~~g~~~~~  118 (243)
T PRK10866         42 KLQDG--NWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNI-DYVLYMRGLTNMA  118 (243)
T ss_pred             HHHCC--CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCch-HHHHHHHHHhhhh
Confidence            34456  77787777777654  3221 1   2345566677778888888887775544444433 22222222221  


Q ss_pred             c---------------CCcc---hhhhhhhcc---cCc-hhH-----------------HHHHHHHHHhcCCHHHHHHHH
Q 038429          137 P---------------VQFR---VGQAIHGMF---EDD-LVI-----------------SNSLIHFYAVCGDLAMAYCVF  177 (258)
Q Consensus       137 ~---------------~~~~---~a~~~~~~~---~~~-~~~-----------------~~~li~~~~~~g~~~~a~~~~  177 (258)
                      .               .|..   .|...++.+   -|+ ...                 --.+.+-|.+.|++..|..=|
T Consensus       119 ~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~~e~~ia~~Y~~~~~y~AA~~r~  198 (243)
T PRK10866        119 LDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKYELSVAEYYTKRGAYVAVVNRV  198 (243)
T ss_pred             cchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHH
Confidence            0               1111   233334333   111 111                 113345577888888888888


Q ss_pred             HhcCC--C----ChhhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          178 VMIGK--K----DVVSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       178 ~~m~~--~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      +.+.+  |    .....-.++.+|...|..++|..+...+.
T Consensus       199 ~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        199 EQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            87765  3    33456677888888888888887765543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=91.52  E-value=5.3  Score=36.14  Aligned_cols=116  Identities=11%  Similarity=-0.028  Sum_probs=65.3

Q ss_pred             ccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-CCh------------hhHHHHHHHHhcCCChhhHHHHHHHhHh
Q 038429           50 DFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-PNL------------YTWNTLIRAYSSSDEPIQSFMIFLQLVY  116 (258)
Q Consensus        50 ~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-~~~------------~~~~~li~~~~~~g~~~~a~~~~~~m~~  116 (258)
                      .-.|.+..|..|..+....-  .++.|+..|-+... +..            .--.+=|.+|  -|++++|.++|-+| .
T Consensus       687 EdnPHprLWrllAe~Al~Kl--~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~-d  761 (1189)
T KOG2041|consen  687 EDNPHPRLWRLLAEYALFKL--ALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDA-D  761 (1189)
T ss_pred             hcCCchHHHHHHHHHHHHHH--hhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhcc-c
Confidence            33688899998888888777  88888888876643 111            1111222222  37888898888887 4


Q ss_pred             cCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc------cCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 038429          117 NSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF------EDDLVISNSLIHFYAVCGDLAMAYCVFVM  179 (258)
Q Consensus       117 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~  179 (258)
                      ++.+         .|....+.|+|-.+.++++.-      +--...|+.+-+.+.....+++|.+.+..
T Consensus       762 rrDL---------Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~  821 (1189)
T KOG2041|consen  762 RRDL---------AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSY  821 (1189)
T ss_pred             hhhh---------hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4432         344444555555555544443      11123444555555555555555554443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.51  E-value=1.4  Score=34.44  Aligned_cols=88  Identities=17%  Similarity=0.137  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--------CCh-hhHHHHHHHHHcCCChHHHHHHHHHHHHcC--CCC-ChhhH
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--------KDV-VSWNSMISGFVEGGFFEKAIELYREMEVEN--VKP-DEVTM  223 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--------~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~p-~~~t~  223 (258)
                      .+..+-+.+.+..++++|-..|..-..        ++. ..|-..|-.+.-..++..|+..++.--+.+  ..| |..+.
T Consensus       152 l~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~l  231 (308)
T KOG1585|consen  152 LYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSL  231 (308)
T ss_pred             HHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHH
Confidence            445556666777777777666654332        111 234445555566667888888887754432  112 45678


Q ss_pred             HHHHHHHhccCChhHHHHHHH
Q 038429          224 VVVLSACAKKRDLEFGIWVSS  244 (258)
Q Consensus       224 ~~li~~~~~~g~~~~a~~~~~  244 (258)
                      ..||.+|- .||.+++..++.
T Consensus       232 enLL~ayd-~gD~E~~~kvl~  251 (308)
T KOG1585|consen  232 ENLLTAYD-EGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHhc-cCCHHHHHHHHc
Confidence            88888874 477777766654

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=91.44  E-value=2  Score=35.86  Aligned_cols=93  Identities=13%  Similarity=0.049  Sum_probs=65.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhc---CCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMI---GKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSA  229 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  229 (258)
                      -..+++.|.-+|.+.+++..|.+.-+..   ..+|+...----.+|...|+++.|...|+++.+  +.|+......=|..
T Consensus       256 k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~  333 (397)
T KOG0543|consen  256 KLACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIK  333 (397)
T ss_pred             HHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHH
Confidence            3456778888888999988888766544   445666666666788888999999999999887  46877766555555


Q ss_pred             Hhcc-C-ChhHHHHHHHHHH
Q 038429          230 CAKK-R-DLEFGIWVSSHIE  247 (258)
Q Consensus       230 ~~~~-g-~~~~a~~~~~~m~  247 (258)
                      |.+. . ..+...++|..|-
T Consensus       334 l~~k~~~~~~kekk~y~~mF  353 (397)
T KOG0543|consen  334 LKQKIREYEEKEKKMYANMF  353 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            5433 2 3344567777775

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=90.98  E-value=1.1  Score=33.41  Aligned_cols=61  Identities=10%  Similarity=-0.030  Sum_probs=37.2

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCc--chHHHHHHHhcCcCCcchhhhhhhcc
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNE--FTLPFVIKAAARPVQFRVGQAIHGMF  150 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~  150 (258)
                      ..+..+...|++.|+.++|++.|.++ ++....+..  ..+-.+|......+++..+.......
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~-~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRA-RDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHH-hhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            34667777777777777777777777 655544443  23455556666666665555544444

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.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=90.97  E-value=4.1  Score=28.66  Aligned_cols=127  Identities=13%  Similarity=0.055  Sum_probs=67.2

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCC
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGD  169 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~  169 (258)
                      .-..+|..+.+.+.+.....+++.+ ...+ ..+....+.++..|++... ......+.. ..+.+....+++.|.+.+.
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~-~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~-~~~~yd~~~~~~~c~~~~l   84 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESA-LKLN-SENPALQTKLIELYAKYDP-QKEIERLDN-KSNHYDIEKVGKLCEKAKL   84 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHH-HccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh-ccccCCHHHHHHHHHHcCc
Confidence            3456777777777788888888877 4444 2555667777777765432 222222221 2233334446666666666


Q ss_pred             HHHHHHHHHhcCCCChhhHHHHHHHHHcC-CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038429          170 LAMAYCVFVMIGKKDVVSWNSMISGFVEG-GFFEKAIELYREMEVENVKPDEVTMVVVLSACA  231 (258)
Q Consensus       170 ~~~a~~~~~~m~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  231 (258)
                      ++++.-++..+..     |...+..+... ++.+.|.+++.+      .-+...|..++..+.
T Consensus        85 ~~~~~~l~~k~~~-----~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l  136 (140)
T smart00299       85 YEEAVELYKKDGN-----FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALL  136 (140)
T ss_pred             HHHHHHHHHhhcC-----HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHH
Confidence            6666666665533     12222222222 556666665543      114445555555543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=90.96  E-value=4.3  Score=28.87  Aligned_cols=53  Identities=13%  Similarity=0.097  Sum_probs=38.2

Q ss_pred             HHHhcCCHHHHHHHHHhcCCC------ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC
Q 038429          163 FYAVCGDLAMAYCVFVMIGKK------DVVSWNSMISGFVEGGFFEKAIELYREMEVEN  215 (258)
Q Consensus       163 ~~~~~g~~~~a~~~~~~m~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  215 (258)
                      ...+.|++++|.+.|+.+...      ....--.|+.+|-+.+++++|...+++..+.+
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            344668888888888877652      33455567788888888888888888877753

>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=90.63  E-value=5.3  Score=29.34  Aligned_cols=59  Identities=15%  Similarity=0.073  Sum_probs=40.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC
Q 038429          157 SNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVEN  215 (258)
Q Consensus       157 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  215 (258)
                      +..+++.+...|++-+|.++.+....-+...-..++++....++...=..+|+-..+.+
T Consensus        92 ~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   92 YEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            55566777788888888888887666555666777787777777665555555555543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=90.50  E-value=3.9  Score=32.88  Aligned_cols=163  Identities=10%  Similarity=-0.024  Sum_probs=75.7

Q ss_pred             ChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhccc
Q 038429           72 SLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFE  151 (258)
Q Consensus        72 ~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  151 (258)
                      .-+...+.+++...+....--.-.......|+..+|..+|+.. .... +-+...--.+..+|...|+.+.|..++..++
T Consensus       118 Pesqlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~a-l~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP  195 (304)
T COG3118         118 PESQLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQA-LQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALP  195 (304)
T ss_pred             cHHHHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHH-HHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCc
Confidence            3334444444444332222222333445556666666666665 2221 1223445556666666666666666666661


Q ss_pred             C-----chhHHHHHHHHHHhcCCHHHHHHHHHhc-CCC-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc--CCCCChhh
Q 038429          152 D-----DLVISNSLIHFYAVCGDLAMAYCVFVMI-GKK-DVVSWNSMISGFVEGGFFEKAIELYREMEVE--NVKPDEVT  222 (258)
Q Consensus       152 ~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m-~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~t  222 (258)
                      .     .......-|..+.+.....+...+-... ..| |...=-.+-..+...|+.++|.+.+-.+...  |. -|...
T Consensus       196 ~~~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~-~d~~~  274 (304)
T COG3118         196 LQAQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGF-EDGEA  274 (304)
T ss_pred             ccchhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc-cCcHH
Confidence            1     1111112233333333333333222222 224 4444445555666677777776655444433  22 23444


Q ss_pred             HHHHHHHHhccCChh
Q 038429          223 MVVVLSACAKKRDLE  237 (258)
Q Consensus       223 ~~~li~~~~~~g~~~  237 (258)
                      -..|+..+.--|.-+
T Consensus       275 Rk~lle~f~~~g~~D  289 (304)
T COG3118         275 RKTLLELFEAFGPAD  289 (304)
T ss_pred             HHHHHHHHHhcCCCC
Confidence            455555555555333

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=90.26  E-value=7.6  Score=30.54  Aligned_cols=55  Identities=9%  Similarity=0.026  Sum_probs=41.2

Q ss_pred             HHHHHcCCChHHHHHHHHHHHHcCCCCC---hhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          192 ISGFVEGGFFEKAIELYREMEVENVKPD---EVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       192 i~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      -.-|.+.|.+..|..-+++|.+. ..-.   ...+-.+..+|.+.|-.++|...-.-+.
T Consensus       174 aryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~  231 (254)
T COG4105         174 ARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLG  231 (254)
T ss_pred             HHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            35678899999999999999886 3222   2346677888999999998887765554

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=90.00  E-value=12  Score=32.49  Aligned_cols=60  Identities=15%  Similarity=0.076  Sum_probs=41.8

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF  150 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  150 (258)
                      -..+..+..+.|+.++|++.|++|.+.....-+......|+.++...+.+.++..++...
T Consensus       262 KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  262 KRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            344666667788999999999888444432223445667788888888888887777776

The molecular function of this protein is uncertain.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=89.77  E-value=9.1  Score=30.72  Aligned_cols=36  Identities=14%  Similarity=0.034  Sum_probs=18.8

Q ss_pred             cccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhc
Q 038429           32 FLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCAL   67 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   67 (258)
                      +.|+.+.|..++..........++.....|...|..
T Consensus         5 ~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn   40 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYN   40 (278)
T ss_pred             hhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHH
Confidence            456777777777766654323333333333333333

It is also involved in sporulation [].

>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=89.68  E-value=4  Score=30.35  Aligned_cols=92  Identities=13%  Similarity=0.027  Sum_probs=63.0

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCCCC------hhhHHHHHHHHHcCCChHHHHHHHHHHHHc---CCCCChhhHHH
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGKKD------VVSWNSMISGFVEGGFFEKAIELYREMEVE---NVKPDEVTMVV  225 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~t~~~  225 (258)
                      ..+..+.+-|++.|+.++|.+.|.++.+..      ...+-.+|......+++..+.....+....   |-.++...--.
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            356778889999999999999999988742      235667788888889999888888776543   22222222222


Q ss_pred             HHHH--HhccCChhHHHHHHHHH
Q 038429          226 VLSA--CAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       226 li~~--~~~~g~~~~a~~~~~~m  246 (258)
                      ...|  +...|++..|-+.|-+.
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHcc
Confidence            2222  23468888888887665

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.

>PHA02875 ankyrin repeat protein; Provisional

Probab=89.54  E-value=12  Score=31.79  Aligned_cols=207  Identities=8%  Similarity=0.005  Sum_probs=104.5

Q ss_pred             cccchhhHHHHHHHHHhhccCcchhh--hhhhhhhhhccCCCChHHHHHHhccCCCCChh--hHHHHHHHHhcCCChhhH
Q 038429           32 FLTNQKQLKRIHAQMLSTDFFFDPYS--ASKLFTPCALSTFSSLEYARKMFDQIPQPNLY--TWNTLIRAYSSSDEPIQS  107 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~~~~~~~~~--~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~li~~~~~~g~~~~a  107 (258)
                      +.|+.+.+.    .+.+.|..|+...  ..+.+...+..|  +.+-+..+++....++..  ...+.+...+..|+.+.+
T Consensus        11 ~~g~~~iv~----~Ll~~g~~~n~~~~~g~tpL~~A~~~~--~~~~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v   84 (413)
T PHA02875         11 LFGELDIAR----RLLDIGINPNFEIYDGISPIKLAMKFR--DSEAIKLLMKHGAIPDVKYPDIESELHDAVEEGDVKAV   84 (413)
T ss_pred             HhCCHHHHH----HHHHCCCCCCccCCCCCCHHHHHHHcC--CHHHHHHHHhCCCCccccCCCcccHHHHHHHCCCHHHH
Confidence            345554443    4445676666543  344556666777  888777777665433321  122345566677877665


Q ss_pred             HHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-cCchh--HHHHHHHHHHhcCCHHHHHHHHHhcCCC-
Q 038429          108 FMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLV--ISNSLIHFYAVCGDLAMAYCVFVMIGKK-  183 (258)
Q Consensus       108 ~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~-  183 (258)
                      ..+++.- ....-..+..- .+.+...+..|+.+-++.+++.- .++..  .-.+.++..+..|+.+-+.-+++.-..+ 
T Consensus        85 ~~Ll~~~-~~~~~~~~~~g-~tpL~~A~~~~~~~iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~~Ll~~g~~~~  162 (413)
T PHA02875         85 EELLDLG-KFADDVFYKDG-MTPLHLATILKKLDIMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIELLIDHKACLD  162 (413)
T ss_pred             HHHHHcC-CcccccccCCC-CCHHHHHHHhCCHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHhcCCCCC
Confidence            5555432 11100111111 12334445566666666655544 22211  1234556666788887777776654332 


Q ss_pred             --ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhh---HHHHHHHHhccCChhHHHHHHHHHHHcCCcccc
Q 038429          184 --DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVT---MVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDL  255 (258)
Q Consensus       184 --~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t---~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  255 (258)
                        |...++.|..+ +..|+.+    +.+.+.+.|..|+...   ..+++...+..|+.+    +.+.+.+.|..+++
T Consensus       163 ~~d~~g~TpL~~A-~~~g~~e----iv~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~----iv~~Ll~~gad~n~  230 (413)
T PHA02875        163 IEDCCGCTPLIIA-MAKGDIA----ICKMLLDSGANIDYFGKNGCVAALCYAIENNKID----IVRLFIKRGADCNI  230 (413)
T ss_pred             CCCCCCCCHHHHH-HHcCCHH----HHHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHH----HHHHHHHCCcCcch
Confidence              33344444443 4445544    3444556666665432   124444344556654    44555566766654

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.47  E-value=0.87  Score=36.79  Aligned_cols=97  Identities=11%  Similarity=0.201  Sum_probs=71.8

Q ss_pred             hccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-------CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCC
Q 038429           49 TDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-------PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYF  121 (258)
Q Consensus        49 ~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  121 (258)
                      .|...+..+...++..-....  .++++...+-.+..       ++...| +.++- +-.-++++++.++..= .++|+-
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~--~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irl-llky~pq~~i~~l~np-IqYGiF  132 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSRE--EIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRL-LLKYDPQKAIYTLVNP-IQYGIF  132 (418)
T ss_pred             cCCCcceeehhhhhhcccccc--chhHHHHHHHHHhcCcchhhhccccHH-HHHHH-HHccChHHHHHHHhCc-chhccc
Confidence            455666667777777777666  88888877655542       332222 23333 3344678999988887 789999


Q ss_pred             CCcchHHHHHHHhcCcCCcchhhhhhhcc
Q 038429          122 PNEFTLPFVIKAAARPVQFRVGQAIHGMF  150 (258)
Q Consensus       122 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  150 (258)
                      ||..++..+|+.+.+.+++.+|.++...+
T Consensus       133 ~dqf~~c~l~D~flk~~n~~~aa~vvt~~  161 (418)
T KOG4570|consen  133 PDQFTFCLLMDSFLKKENYKDAASVVTEV  161 (418)
T ss_pred             cchhhHHHHHHHHHhcccHHHHHHHHHHH
Confidence            99999999999999999999988887766

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=89.33  E-value=6.3  Score=28.20  Aligned_cols=83  Identities=7%  Similarity=0.081  Sum_probs=57.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcC---------CCChhhHHHHHHHHHcCCC-hHHHHHHHHHHHHcCCCCChhhHHHH
Q 038429          157 SNSLIHFYAVCGDLAMAYCVFVMIG---------KKDVVSWNSMISGFVEGGF-FEKAIELYREMEVENVKPDEVTMVVV  226 (258)
Q Consensus       157 ~~~li~~~~~~g~~~~a~~~~~~m~---------~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~p~~~t~~~l  226 (258)
                      .|+++.-....+++....++++.+.         ..+-.+|++++.+.+...- ---+..+|.-|++.+.+++..-|..+
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            3444444444455555555554442         1366789999999977666 44567889999998899999999999


Q ss_pred             HHHHhccCChhHH
Q 038429          227 LSACAKKRDLEFG  239 (258)
Q Consensus       227 i~~~~~~g~~~~a  239 (258)
                      +.++.+....+..
T Consensus       122 i~~~l~g~~~~~~  134 (145)
T PF13762_consen  122 IKAALRGYFHDSL  134 (145)
T ss_pred             HHHHHcCCCCcch
Confidence            9999887555444

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.18  E-value=7.6  Score=31.98  Aligned_cols=146  Identities=10%  Similarity=-0.057  Sum_probs=98.8

Q ss_pred             hcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHH----HHHHHhcCCH
Q 038429           99 SSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSL----IHFYAVCGDL  170 (258)
Q Consensus        99 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~l----i~~~~~~g~~  170 (258)
                      .-.|++.+|-..++++.++  .|-|..++.-.=.+|...|+.+.....++.+    .+|...|..+    .-++..+|-+
T Consensus       114 ~~~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  114 WGRGKHHEAAIEWDKLLDD--YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHHh--CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            3457778887788887332  4667778888888888899888888888777    4555444433    2333478999


Q ss_pred             HHHHHHHHhcCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc---CCCCChhhHHHHHHHHhccCChhHHHHHHH
Q 038429          171 AMAYCVFVMIGKK---DVVSWNSMISGFVEGGFFEKAIELYREMEVE---NVKPDEVTMVVVLSACAKKRDLEFGIWVSS  244 (258)
Q Consensus       171 ~~a~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~t~~~li~~~~~~g~~~~a~~~~~  244 (258)
                      ++|++.-++..+-   |.=.-.++-+.+-..|+..++.++..+-...   +--.-.+.|-+..-.+...+.++.|.++|+
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            9999998877663   4445556666677788888888776553221   111123445555556667799999999998


Q ss_pred             HH
Q 038429          245 HI  246 (258)
Q Consensus       245 ~m  246 (258)
                      .-
T Consensus       272 ~e  273 (491)
T KOG2610|consen  272 RE  273 (491)
T ss_pred             HH
Confidence            43

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=88.95  E-value=8.8  Score=31.62  Aligned_cols=65  Identities=12%  Similarity=0.012  Sum_probs=44.2

Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC---ChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          184 DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP---DEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       184 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      ...+|..+...+.+.|+++.|...+.++...+..+   +......-.+..-..|+..+|...+++..+
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55677888888888888888888888777643221   233333445556667888888888877766

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=88.94  E-value=6  Score=28.80  Aligned_cols=49  Identities=14%  Similarity=0.005  Sum_probs=24.1

Q ss_pred             hcCcCCcchhhhhhhcc---cCchhHHHH-HHHHHHhcCCHHHHHHHHHhcCC
Q 038429          134 AARPVQFRVGQAIHGMF---EDDLVISNS-LIHFYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~---~~~~~~~~~-li~~~~~~g~~~~a~~~~~~m~~  182 (258)
                      -.+.++.+.++.++..+   .|....... -.-.+.+.|++.+|.++|+++..
T Consensus        20 al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   20 ALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             HHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            34555666666666655   232221111 12223455666666666666544

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=88.78  E-value=1  Score=24.58  Aligned_cols=28  Identities=4%  Similarity=-0.122  Sum_probs=15.5

Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          222 TMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       222 t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ++..+-..|.+.|++++|.+++++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555555566666666666655543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=88.70  E-value=14  Score=31.26  Aligned_cols=122  Identities=13%  Similarity=-0.011  Sum_probs=76.6

Q ss_pred             hhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHH--hcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHH
Q 038429           58 ASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAY--SSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIK  132 (258)
Q Consensus        58 ~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~--~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~  132 (258)
                      |..|-.++...|.||-..|.++-.+-.+   .|....-.++.+-  .-.|+.++|.+-|+.| .... .--..-...|.-
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAM-l~dP-EtRllGLRgLyl  162 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAM-LDDP-ETRLLGLRGLYL  162 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHH-hcCh-HHHHHhHHHHHH
Confidence            6677777777777788888877665432   3333333333322  3458899999999999 3220 001112344444


Q ss_pred             HhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          133 AAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      ..-+.|+.+.|...-+..    +--...+..++...|..|+++.|+++.+.-+
T Consensus       163 eAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~  215 (531)
T COG3898         163 EAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQR  215 (531)
T ss_pred             HHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHH
Confidence            556667766666655555    3344577888888999999999998887554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=88.51  E-value=4.7  Score=34.48  Aligned_cols=121  Identities=17%  Similarity=0.245  Sum_probs=92.0

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC-----CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchH-H
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTL-P  128 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-~  128 (258)
                      +.+|..++++-.+..  -++.|..+|-+..+     +++..++++|..++. |+..-|.++|+.=.+.   -||...| .
T Consensus       397 t~v~C~~~N~v~r~~--Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~---f~d~~~y~~  470 (660)
T COG5107         397 TFVFCVHLNYVLRKR--GLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK---FPDSTLYKE  470 (660)
T ss_pred             hhHHHHHHHHHHHHh--hHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh---CCCchHHHH
Confidence            345666777777777  89999999987754     788899999998886 5678899999763232   3565555 5


Q ss_pred             HHHHHhcCcCCcchhhhhhhcc----cCc--hhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          129 FVIKAAARPVQFRVGQAIHGMF----EDD--LVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       129 ~ll~~~~~~~~~~~a~~~~~~~----~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      ..+.-+.+.++-..|..+|+.-    +.+  ...|..+|+-=..-|++..+..+=+.|.
T Consensus       471 kyl~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~  529 (660)
T COG5107         471 KYLLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFR  529 (660)
T ss_pred             HHHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHH
Confidence            6777788889999999999955    444  4688899988888899887777666654

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=88.44  E-value=2.3  Score=27.95  Aligned_cols=43  Identities=14%  Similarity=0.262  Sum_probs=22.7

Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          205 IELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       205 ~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .+-+..+....+.|+.....+.+++|.|.+|+..|.++++-++
T Consensus        27 rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          27 RRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3333333344455555555555556555555555555555443

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=88.02  E-value=4.6  Score=28.41  Aligned_cols=45  Identities=13%  Similarity=0.007  Sum_probs=21.3

Q ss_pred             hcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHH
Q 038429          134 AARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFV  178 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~  178 (258)
                      ++..|+++.|.+.|...    +-....||.-..++--.|+.++|.+=++
T Consensus        53 laE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn  101 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLN  101 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHH
Confidence            34444555554444444    3344445555555555555444444443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.91  E-value=1.5  Score=34.68  Aligned_cols=92  Identities=10%  Similarity=-0.014  Sum_probs=55.9

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCC-CCCcchHHHHHHHhcCcCCcchhhhhhhcc-------cCchhHHHHHH
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPY-FPNEFTLPFVIKAAARPVQFRVGQAIHGMF-------EDDLVISNSLI  161 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-------~~~~~~~~~li  161 (258)
                      .|+.-+.. .++|++.+|...|...++...- .-...++-.|..++...|++++|..+|..+       +.-....--|-
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            55555543 3456677777777776333211 112234556777777777777777777666       12223445556


Q ss_pred             HHHHhcCCHHHHHHHHHhcCC
Q 038429          162 HFYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~  182 (258)
                      .+..+.|+.++|...|++..+
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHH
Confidence            667777888888888877765

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=87.71  E-value=2.3  Score=28.31  Aligned_cols=30  Identities=7%  Similarity=0.075  Sum_probs=13.4

Q ss_pred             CChhhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          183 KDVVSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      |.+....+.+.+|.+-+++.-|.++|+..+
T Consensus        43 P~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   43 PEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             --HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444444555555555555555555554443

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=87.62  E-value=1.3  Score=23.44  Aligned_cols=27  Identities=7%  Similarity=-0.047  Sum_probs=18.2

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          221 VTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       221 ~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .+++.|-..|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            456677777777777777777777654

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=87.50  E-value=11  Score=28.67  Aligned_cols=150  Identities=10%  Similarity=0.045  Sum_probs=88.4

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc---cCch--hHHHHHHHHH
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF---EDDL--VISNSLIHFY  164 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~--~~~~~li~~~  164 (258)
                      .-.....+.+.|++.+|...|+.+.....-.|- ..+.-.+..++-+.|+++.|...++.+   -|+.  .-+...+.+.
T Consensus         8 lY~~a~~~~~~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    8 LYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGL   87 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHH
Confidence            334555677889999999999999544332222 244567788888999999999988887   2221  2233334444


Q ss_pred             HhcCCHHHHHHHHHhcCCCC-------hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChh
Q 038429          165 AVCGDLAMAYCVFVMIGKKD-------VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLE  237 (258)
Q Consensus       165 ~~~g~~~~a~~~~~~m~~~~-------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~  237 (258)
                      +.........     ...+|       ...|..+|.-|-......+|...+..+...   . ...--.+.+-|.+.|.+.
T Consensus        88 ~~~~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---l-a~~e~~ia~~Y~~~~~y~  158 (203)
T PF13525_consen   88 SYYKQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---L-AEHELYIARFYYKRGKYK  158 (203)
T ss_dssp             HHHHHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---H-HHHHHHHHHHHHCTT-HH
T ss_pred             HHHHhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---H-HHHHHHHHHHHHHcccHH
Confidence            3222222211     11111       236778888888888888887776666542   1 111223556678888888


Q ss_pred             HHHHHHHHHHHc
Q 038429          238 FGIWVSSHIEKN  249 (258)
Q Consensus       238 ~a~~~~~~m~~~  249 (258)
                      .|..-++.+.+.
T Consensus       159 aA~~r~~~v~~~  170 (203)
T PF13525_consen  159 AAIIRFQYVIEN  170 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            888888887764

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=87.23  E-value=1.6  Score=23.08  Aligned_cols=28  Identities=25%  Similarity=0.409  Sum_probs=18.4

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          186 VSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      .+++.|-..|...|++++|..++++...
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            4566677777777777777777766543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=87.01  E-value=3.1  Score=22.60  Aligned_cols=28  Identities=18%  Similarity=0.262  Sum_probs=18.1

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          187 SWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      +|..+-..|.+.|++++|+++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4555666666667777777777666654

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

Probab=87.01  E-value=16  Score=30.27  Aligned_cols=149  Identities=13%  Similarity=0.070  Sum_probs=100.0

Q ss_pred             HHHhcCCChhhHHHHHHHhHhcCCCCCCcc----------------hHHHHHHHhcCcCCcchhhhhhhcc----cCchh
Q 038429           96 RAYSSSDEPIQSFMIFLQLVYNSPYFPNEF----------------TLPFVIKAAARPVQFRVGQAIHGMF----EDDLV  155 (258)
Q Consensus        96 ~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~----------------~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~  155 (258)
                      ..+.+.|.++.|..=|+.. .+..  |+..                .....+..+...|+...|......+    +.|..
T Consensus       114 ~vllK~Gele~A~~DF~~v-l~~~--~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~  190 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQV-LQHE--PSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDAS  190 (504)
T ss_pred             hhhhhcccHHHHHHHHHHH-HhcC--CCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhH
Confidence            4567889999999999888 3332  2111                1223455566778888887777766    77888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHh---cCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHH----
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVM---IGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLS----  228 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~---m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~----  228 (258)
                      .|..-..+|...|++.+|+.=++.   +.+.++.++--+-..+...|+.+.++...++..+  +.||-..+-..-.    
T Consensus       191 l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf~~YKklkK  268 (504)
T KOG0624|consen  191 LRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHKLCFPFYKKLKK  268 (504)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchhhHHHHHHHHHH
Confidence            899999999999999999865544   3445777777777777888999999888888776  3466543222111    


Q ss_pred             ---------HHhccCChhHHHHHHHHHHHc
Q 038429          229 ---------ACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       229 ---------~~~~~g~~~~a~~~~~~m~~~  249 (258)
                               ...+.+++-++.+-.+...+.
T Consensus       269 v~K~les~e~~ie~~~~t~cle~ge~vlk~  298 (504)
T KOG0624|consen  269 VVKSLESAEQAIEEKHWTECLEAGEKVLKN  298 (504)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhc
Confidence                     223445666666665555443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=86.58  E-value=9.4  Score=32.31  Aligned_cols=151  Identities=11%  Similarity=-0.063  Sum_probs=98.0

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChh---------------hHHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLY---------------TWNT   93 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~---------------~~~~   93 (258)
                      .+.-.++.++|.++--..++..   ....+...++..+---..+.+.+..-|++....++.               .|..
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~  254 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHh
Confidence            4455677888887777776654   223344445444433223888898888877652222               2333


Q ss_pred             HHHHHhcCCChhhHHHHHHHhHh--cCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-cCch-hHHHHHHHH--HHhc
Q 038429           94 LIRAYSSSDEPIQSFMIFLQLVY--NSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDL-VISNSLIHF--YAVC  167 (258)
Q Consensus        94 li~~~~~~g~~~~a~~~~~~m~~--~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~-~~~~~li~~--~~~~  167 (258)
                      --+-..+.|++..|.+.|.+-+.  -.++.|+...|.....+..+.|+.++|..--+.. ..|. ++...+..+  +...
T Consensus       255 ~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~l  334 (486)
T KOG0550|consen  255 RGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLAL  334 (486)
T ss_pred             hhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHH
Confidence            44456788999999999988732  1345566667888888889999999998877766 4443 444444433  4456


Q ss_pred             CCHHHHHHHHHhcCC
Q 038429          168 GDLAMAYCVFVMIGK  182 (258)
Q Consensus       168 g~~~~a~~~~~~m~~  182 (258)
                      +++++|.+-|+...+
T Consensus       335 e~~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  335 EKWEEAVEDYEKAMQ  349 (486)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            888999888876543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=86.42  E-value=3  Score=34.86  Aligned_cols=27  Identities=15%  Similarity=0.042  Sum_probs=17.5

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHh
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQL  114 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m  114 (258)
                      ..+++++.-++.+.+++..|+...+..
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kv  283 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKV  283 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHH
Confidence            345666666677777777776666655

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=86.30  E-value=5  Score=28.24  Aligned_cols=48  Identities=8%  Similarity=-0.146  Sum_probs=24.7

Q ss_pred             HHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhh
Q 038429           97 AYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAI  146 (258)
Q Consensus        97 ~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  146 (258)
                      +++..|++++|++.|.+... - .+-...+||.-..++--.|+.++|..=
T Consensus        52 alaE~g~Ld~AlE~F~qal~-l-~P~raSayNNRAQa~RLq~~~e~ALdD   99 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALC-L-APERASAYNNRAQALRLQGDDEEALDD   99 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH-h-cccchHhhccHHHHHHHcCChHHHHHH
Confidence            44555666666666655411 1 123344566655665555555555443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=85.48  E-value=4.5  Score=35.09  Aligned_cols=97  Identities=18%  Similarity=0.115  Sum_probs=67.6

Q ss_pred             HHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CCh-hhHHHHHHHHHcCCChHHH
Q 038429          132 KAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KDV-VSWNSMISGFVEGGFFEKA  204 (258)
Q Consensus       132 ~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~-~~~~~li~~~~~~g~~~~a  204 (258)
                      ++....|+++.|...|...    +++-..|..-..+|.+.|++++|.+=-..-++  |+- ..|.-.-.++...|++++|
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA   89 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEEA   89 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHHH
Confidence            4566778888888877766    66777788888888888888888766554443  443 4677777777788888888


Q ss_pred             HHHHHHHHHcCCCC-ChhhHHHHHHHH
Q 038429          205 IELYREMEVENVKP-DEVTMVVVLSAC  230 (258)
Q Consensus       205 ~~~~~~m~~~~~~p-~~~t~~~li~~~  230 (258)
                      ..-|.+-.+.  .| |...+.-+..++
T Consensus        90 ~~ay~~GL~~--d~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   90 ILAYSEGLEK--DPSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHhhc--CCchHHHHHhHHHhh
Confidence            8888775553  23 344566666665

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=85.23  E-value=12  Score=35.94  Aligned_cols=168  Identities=8%  Similarity=0.072  Sum_probs=99.6

Q ss_pred             CcccccchhhHHHHHHHHHhh-----ccCcch--hhhhhhhhhhhccCCCChHHHHHHhccCC---------CCChhhHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLST-----DFFFDP--YSASKLFTPCALSTFSSLEYARKMFDQIP---------QPNLYTWN   92 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~-----~~~~~~--~~~~~li~~~~~~~~~~~~~a~~~~~~m~---------~~~~~~~~   92 (258)
                      +-.+..|+++-+-+++++.+.     .+.-|.  .-|...+..++.+|.+-++++..+.++=.         +++...+.
T Consensus       860 Aq~SqkDPkEyLP~L~el~~m~~~~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k  939 (1265)
T KOG1920|consen  860 AQKSQKDPKEYLPFLNELKKMETLLRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALALYKPDSEKQK  939 (1265)
T ss_pred             HHHhccChHHHHHHHHHHhhchhhhhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhheeccCHHHHH
Confidence            455567777777777776632     112221  22455555556665445666666554321         26666666


Q ss_pred             HHHHHHh----cCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCch--h--HHHHHHHHH
Q 038429           93 TLIRAYS----SSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDL--V--ISNSLIHFY  164 (258)
Q Consensus        93 ~li~~~~----~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~--~~~~li~~~  164 (258)
                      .+..+|+    +.+.+++|.-.|+..    |      -..-.+.+|..+|+|++|..+...+.++.  .  +--.|..-+
T Consensus       940 ~i~~~ya~hL~~~~~~~~Aal~Ye~~----G------klekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L 1009 (1265)
T KOG1920|consen  940 VIYEAYADHLREELMSDEAALMYERC----G------KLEKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRL 1009 (1265)
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHh----c------cHHHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHH
Confidence            6665554    446677776666544    1      23445778888888999988888882222  2  225677777


Q ss_pred             HhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHH
Q 038429          165 AVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       165 ~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      ...++.-+|-++..+-.+.....    +..|+++..|++|.++-..
T Consensus      1010 ~e~~kh~eAa~il~e~~sd~~~a----v~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1010 VEQRKHYEAAKILLEYLSDPEEA----VALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             HHcccchhHHHHHHHHhcCHHHH----HHHHhhHhHHHHHHHHHHh
Confidence            78888888887777655433232    3344555567777766544

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=84.95  E-value=6.1  Score=34.32  Aligned_cols=98  Identities=11%  Similarity=-0.095  Sum_probs=74.9

Q ss_pred             HHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCch-hHHHHHHHHHHhcCCHH
Q 038429           96 RAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDDL-VISNSLIHFYAVCGDLA  171 (258)
Q Consensus        96 ~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~-~~~~~li~~~~~~g~~~  171 (258)
                      ++.+..|+++.|+..|-+. ..-. ++|..-|+.-..+|+..|++++|.+=-..-   .|+. --|.-.-.+..-.|+++
T Consensus        10 naa~s~~d~~~ai~~~t~a-i~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEA-IMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             HhhcccccHHHHHHHHHHH-HccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHH
Confidence            4667889999999999877 3332 347778999999999999998876544333   5554 47888888888899999


Q ss_pred             HHHHHHHhcCC--C-ChhhHHHHHHHH
Q 038429          172 MAYCVFVMIGK--K-DVVSWNSMISGF  195 (258)
Q Consensus       172 ~a~~~~~~m~~--~-~~~~~~~li~~~  195 (258)
                      +|..-|.+-.+  | |...++-+..++
T Consensus        88 eA~~ay~~GL~~d~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   88 EAILAYSEGLEKDPSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHHhhcCCchHHHHHhHHHhh
Confidence            99999987654  3 556677777766

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.67  E-value=20  Score=29.07  Aligned_cols=197  Identities=13%  Similarity=-0.007  Sum_probs=109.8

Q ss_pred             hhhHHHHHHHHHhhccCcchhhhhhhhhhhhccC----CC-----ChHHHHHHhccCCC--CChhhHHHHHHHHhcCCCh
Q 038429           36 QKQLKRIHAQMLSTDFFFDPYSASKLFTPCALST----FS-----SLEYARKMFDQIPQ--PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        36 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~----~~-----~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~g~~  104 (258)
                      .+...+..+...+.........+...+.+|+..-    +|     --.+|+++|.-+.+  .-..+-+.++.++....+.
T Consensus       103 ~ekLnraIdr~~k~ve~~~eee~~~~iscfgg~ev~~rqg~~vkWis~KA~ELFayLv~hkgk~v~~~~~ie~lwpe~D~  182 (361)
T COG3947         103 PEKLNRAIDRRLKRVELTAEEESGTQISCFGGTEVVLRQGQQVKWISRKALELFAYLVEHKGKEVTSWEAIEALWPEKDE  182 (361)
T ss_pred             HHHHHHHHHHHhccccccchhccCeeeEeccceeeeccCCceeeehhhHHHHHHHHHHHhcCCcccHhHHHHHHccccch
Confidence            3444445555555544555667888888887221    00     13577888876643  3355556788888888888


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhc--------ccCchhHHHHHHHHHHhc-CCHHHHHH
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM--------FEDDLVISNSLIHFYAVC-GDLAMAYC  175 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~--------~~~~~~~~~~li~~~~~~-g~~~~a~~  175 (258)
                      .+|...+...+-+            +=.++.+.+ ..++....+.        ...|..-|-..+...-+- -.++++.+
T Consensus       183 kka~s~lhTtvyq------------lRKaLs~L~-~ne~vts~d~~Ykld~~~~k~Dv~e~es~~rqi~~inltide~ke  249 (361)
T COG3947         183 KKASSLLHTTVYQ------------LRKALSRLN-ANEAVTSQDRKYKLDAGLPKYDVQEYESLARQIEAINLTIDELKE  249 (361)
T ss_pred             hhHHHHHHHHHHH------------HHHHhchhc-cCceEEEcCCceEEecCCccccHHHHHHHhhhhhccccCHHHHHH
Confidence            8887776654110            001111100 0000000000        033444444444333221 23455555


Q ss_pred             HHHhcCC--------------------CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 038429          176 VFVMIGK--------------------KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRD  235 (258)
Q Consensus       176 ~~~~m~~--------------------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  235 (258)
                      +....+.                    --..+++..-..|..+|.+.+|.++.++..... +.+...+..++..+...||
T Consensus       250 lv~~ykgdyl~e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD  328 (361)
T COG3947         250 LVGQYKGDYLPEADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGD  328 (361)
T ss_pred             HHHHhcCCcCCccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhcc
Confidence            5444421                    012355666678888999999998888877653 3467778888888888888


Q ss_pred             hhHHHHHHHHH
Q 038429          236 LEFGIWVSSHI  246 (258)
Q Consensus       236 ~~~a~~~~~~m  246 (258)
                      --.|..-++.+
T Consensus       329 ~is~~khyery  339 (361)
T COG3947         329 EISAIKHYERY  339 (361)
T ss_pred             chhhhhHHHHH
Confidence            66666666655

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=84.60  E-value=6.7  Score=37.52  Aligned_cols=88  Identities=14%  Similarity=0.138  Sum_probs=53.6

Q ss_pred             CCCcchHHHHHH----HhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC-Chhh--HHHHHH
Q 038429          121 FPNEFTLPFVIK----AAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK-DVVS--WNSMIS  193 (258)
Q Consensus       121 ~p~~~~~~~ll~----~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~--~~~li~  193 (258)
                      .|+...+.....    -+.....+++|.-+|+..-.    ..--+.+|..+|++.+|..+..++..+ |...  =..|+.
T Consensus       932 ~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk----lekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s 1007 (1265)
T KOG1920|consen  932 KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK----LEKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVS 1007 (1265)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc----HHHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHH
Confidence            455555444443    34455666666666655511    112456677778888888877777654 3322  257778


Q ss_pred             HHHcCCChHHHHHHHHHHH
Q 038429          194 GFVEGGFFEKAIELYREME  212 (258)
Q Consensus       194 ~~~~~g~~~~a~~~~~~m~  212 (258)
                      -+...++.-+|-++..+-.
T Consensus      1008 ~L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen 1008 RLVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHHHcccchhHHHHHHHHh
Confidence            8888888878777776643

>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=84.06  E-value=14  Score=26.91  Aligned_cols=47  Identities=6%  Similarity=-0.107  Sum_probs=22.9

Q ss_pred             hcCCChhhHHHHHHHhHhcCCCCCCcc---hHHHHHHHhcCcCCcchhhhhhhcc
Q 038429           99 SSSDEPIQSFMIFLQLVYNSPYFPNEF---TLPFVIKAAARPVQFRVGQAIHGMF  150 (258)
Q Consensus        99 ~~~g~~~~a~~~~~~m~~~~~~~p~~~---~~~~ll~~~~~~~~~~~a~~~~~~~  150 (258)
                      .+.++.+++..++..+ +-  ..|...   ++..++  +...|+|.+|.++++.+
T Consensus        21 l~~~~~~D~e~lL~AL-rv--LRP~~~e~~~~~~~l--~i~r~~w~dA~rlLr~l   70 (160)
T PF09613_consen   21 LRLGDPDDAEALLDAL-RV--LRPEFPELDLFDGWL--HIVRGDWDDALRLLREL   70 (160)
T ss_pred             HccCChHHHHHHHHHH-HH--hCCCchHHHHHHHHH--HHHhCCHHHHHHHHHHH
Confidence            3455566666666555 21  223322   222222  34555666666666666

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=84.02  E-value=1.9  Score=34.69  Aligned_cols=30  Identities=30%  Similarity=0.341  Sum_probs=16.7

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHcCCC
Q 038429          188 WNSMISGFVEGGFFEKAIELYREMEVENVK  217 (258)
Q Consensus       188 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  217 (258)
                      ||..|+...+.|++++|+.++++.++.|+.
T Consensus       260 y~~aI~~AVk~gDi~KAL~LldEAe~LG~~  289 (303)
T PRK10564        260 FNQAIKQAVKKGDVDKALKLLDEAERLGST  289 (303)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCc
Confidence            445555555555555555555555555544

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=83.78  E-value=7.5  Score=25.85  Aligned_cols=82  Identities=11%  Similarity=0.062  Sum_probs=57.7

Q ss_pred             Ccchhhhhhhcc--cCc--hhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          139 QFRVGQAIHGMF--EDD--LVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       139 ~~~~a~~~~~~~--~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ..++|..|-+.+  .++  ..+--+-+..+...|++++|..+.+...-||...|-+|-.  .+.|..+++..-+-+|...
T Consensus        20 cHqEA~tIAdwL~~~~~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        20 CHQEANTIADWLHLKGESEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            356677776666  332  2233333567788999999999999998899999988865  4667777777777788776


Q ss_pred             CCCCChhhH
Q 038429          215 NVKPDEVTM  223 (258)
Q Consensus       215 ~~~p~~~t~  223 (258)
                      |- |....|
T Consensus        98 g~-p~lq~F  105 (115)
T TIGR02508        98 GD-PRLQTF  105 (115)
T ss_pred             CC-HHHHHH
Confidence            63 544444

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=83.61  E-value=5.2  Score=30.31  Aligned_cols=22  Identities=18%  Similarity=0.066  Sum_probs=13.0

Q ss_pred             CChhhHHHHHHHHHcCCChHHH
Q 038429          183 KDVVSWNSMISGFVEGGFFEKA  204 (258)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a  204 (258)
                      +|+..+..|.+.+.+.|+.+.|
T Consensus       176 ~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  176 FNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             CCHHHHHHHHHHHHHhcchhhh
Confidence            3555566666666666665555

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=83.59  E-value=15  Score=32.00  Aligned_cols=78  Identities=14%  Similarity=0.116  Sum_probs=55.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCC--C---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHh
Q 038429          158 NSLIHFYAVCGDLAMAYCVFVMIGK--K---DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE-VTMVVVLSACA  231 (258)
Q Consensus       158 ~~li~~~~~~g~~~~a~~~~~~m~~--~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~t~~~li~~~~  231 (258)
                      -.|-.+.-+.|+.++|.+.|.+|.+  |   +......||+++...+...++..++.+-.+...+.+. ..|+..+-.+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            4566667789999999999998854  4   3346778999999999999999999887554432222 34766654444


Q ss_pred             ccCC
Q 038429          232 KKRD  235 (258)
Q Consensus       232 ~~g~  235 (258)
                      ..|+
T Consensus       343 av~d  346 (539)
T PF04184_consen  343 AVGD  346 (539)
T ss_pred             hhcc
Confidence            4443

The molecular function of this protein is uncertain.

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=83.49  E-value=5  Score=22.56  Aligned_cols=35  Identities=9%  Similarity=0.132  Sum_probs=28.4

Q ss_pred             HHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 038429          195 FVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSA  229 (258)
Q Consensus       195 ~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  229 (258)
                      ..+.|-..++..++++|.+.|+..+...|..+++.
T Consensus        12 Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen   12 AKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            35667788899999999999998888888877754

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=83.20  E-value=13  Score=33.59  Aligned_cols=50  Identities=14%  Similarity=0.095  Sum_probs=25.6

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF  150 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  150 (258)
                      .-.+..-+-+...+--|-++|..| -         -...++......++|++|..+-+..
T Consensus       750 l~~~a~ylk~l~~~gLAaeIF~k~-g---------D~ksiVqlHve~~~W~eAFalAe~h  799 (1081)
T KOG1538|consen  750 LLLCATYLKKLDSPGLAAEIFLKM-G---------DLKSLVQLHVETQRWDEAFALAEKH  799 (1081)
T ss_pred             HHHHHHHHhhccccchHHHHHHHh-c---------cHHHHhhheeecccchHhHhhhhhC
Confidence            333333334444455555555555 1         1234555566666666666665555

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=83.13  E-value=7.4  Score=32.40  Aligned_cols=212  Identities=14%  Similarity=0.012  Sum_probs=130.1

Q ss_pred             ccchhhHHHHHHHHHhh--ccCcchhhhhhhhhhhhccCCCChHHHHHHh-ccC------CC--CChhhHHHHHHHHhcC
Q 038429           33 LTNQKQLKRIHAQMLST--DFFFDPYSASKLFTPCALSTFSSLEYARKMF-DQI------PQ--PNLYTWNTLIRAYSSS  101 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~--~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~-~~m------~~--~~~~~~~~li~~~~~~  101 (258)
                      .++.+++...+......  +..---.++..+..+.++.|  .+++++..- .+|      ..  .-..+|-.+-+++-+.
T Consensus        19 s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g--~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l   96 (518)
T KOG1941|consen   19 SNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMG--RYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKL   96 (518)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666655432  22223446777888888888  776664431 111      11  2345677777777777


Q ss_pred             CChhhHHHHHHHhHhcCCCCCCc---chHHHHHHHhcCcCCcchhhhhhhcc----------cCchhHHHHHHHHHHhcC
Q 038429          102 DEPIQSFMIFLQLVYNSPYFPNE---FTLPFVIKAAARPVQFRVGQAIHGMF----------EDDLVISNSLIHFYAVCG  168 (258)
Q Consensus       102 g~~~~a~~~~~~m~~~~~~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~----------~~~~~~~~~li~~~~~~g  168 (258)
                      -++.+++.+-+.-..-.|..|..   ....++-+++...+.++.+.+-|+..          .....+|..|-..|.+..
T Consensus        97 ~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   97 CEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            77777777665542333443421   23345666667777788777777766          334568889999999999


Q ss_pred             CHHHHHHHHHhcC-------CCChh-hHH-----HHHHHHHcCCChHHHHHHHHHHHH----cCCCC-ChhhHHHHHHHH
Q 038429          169 DLAMAYCVFVMIG-------KKDVV-SWN-----SMISGFVEGGFFEKAIELYREMEV----ENVKP-DEVTMVVVLSAC  230 (258)
Q Consensus       169 ~~~~a~~~~~~m~-------~~~~~-~~~-----~li~~~~~~g~~~~a~~~~~~m~~----~~~~p-~~~t~~~li~~~  230 (258)
                      ++++|.-+....-       -.|.. -|.     .|--++...|...+|.+.-++..+    .|-+| -......+-+.|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            9998876554322       12322 222     233466777888888887776543    34333 233456778889


Q ss_pred             hccCChhHHHHHHHHH
Q 038429          231 AKKRDLEFGIWVSSHI  246 (258)
Q Consensus       231 ~~~g~~~~a~~~~~~m  246 (258)
                      ...|+.+.|..=+++.
T Consensus       257 R~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQA  272 (518)
T ss_pred             HhcccHhHHHHHHHHH
Confidence            9999999988777754

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=83.07  E-value=1.5  Score=22.57  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=15.7

Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHH
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAY  174 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~  174 (258)
                      +.+...|+.+-..|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            445566777777777777776664

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=82.85  E-value=5.9  Score=32.21  Aligned_cols=84  Identities=13%  Similarity=0.175  Sum_probs=58.9

Q ss_pred             CHHHHHHHHHhcCC-------CChhhHHHHHHHHHcCCC----hHHHHHHHHHHHHcCCCCChh--hHHHHHHHHhccCC
Q 038429          169 DLAMAYCVFVMIGK-------KDVVSWNSMISGFVEGGF----FEKAIELYREMEVENVKPDEV--TMVVVLSACAKKRD  235 (258)
Q Consensus       169 ~~~~a~~~~~~m~~-------~~~~~~~~li~~~~~~g~----~~~a~~~~~~m~~~~~~p~~~--t~~~li~~~~~~g~  235 (258)
                      ...+|..+|+.|++       ++-.++..|+..  ..++    .+.++.+|+.+...|+..+..  ...+++..+....+
T Consensus       118 ~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~  195 (297)
T PF13170_consen  118 IIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQ  195 (297)
T ss_pred             HHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccch
Confidence            36789999999986       366677777665  3333    467788889999988876543  44555554443333


Q ss_pred             --hhHHHHHHHHHHHcCCccc
Q 038429          236 --LEFGIWVSSHIEKNGIKMD  254 (258)
Q Consensus       236 --~~~a~~~~~~m~~~g~~p~  254 (258)
                        +.++.++++.+.+.|+++.
T Consensus       196 ~~v~r~~~l~~~l~~~~~kik  216 (297)
T PF13170_consen  196 EKVARVIELYNALKKNGVKIK  216 (297)
T ss_pred             HHHHHHHHHHHHHHHcCCccc
Confidence              4478899999999998754

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=82.82  E-value=3.4  Score=27.21  Aligned_cols=32  Identities=16%  Similarity=0.199  Sum_probs=14.3

Q ss_pred             CCCCCCcchHHHHHHHhcCcCCcchhhhhhhc
Q 038429          118 SPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM  149 (258)
Q Consensus       118 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  149 (258)
                      ..+.|++....+.+++|-+.+++..|.++++.
T Consensus        36 ~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~   67 (103)
T cd00923          36 YDLVPEPKVIEAALRACRRVNDFALAVRILEA   67 (103)
T ss_pred             cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            34444444444444444444444444444443

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.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=82.28  E-value=2.5  Score=23.29  Aligned_cols=26  Identities=19%  Similarity=0.101  Sum_probs=19.2

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          225 VVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      .|-.+|...|+.+.|.++++++...|
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            35667788888888888888877544

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=82.11  E-value=8.1  Score=24.88  Aligned_cols=65  Identities=8%  Similarity=0.117  Sum_probs=42.6

Q ss_pred             HHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhH
Q 038429           39 LKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQS  107 (258)
Q Consensus        39 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a  107 (258)
                      +.++++.+...|+. +......+-.+-...|  +.+.|.+++..++ +....|..++.++...|+-+-|
T Consensus        21 ~~~v~d~ll~~~il-T~~d~e~I~aa~~~~g--~~~~ar~LL~~L~-rg~~aF~~Fl~aLreT~~~~LA   85 (88)
T cd08819          21 TRDVCDKCLEQGLL-TEEDRNRIEAATENHG--NESGARELLKRIV-QKEGWFSKFLQALRETEHHELA   85 (88)
T ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHhccccC--cHHHHHHHHHHhc-cCCcHHHHHHHHHHHcCchhhh
Confidence            35566667777743 4444444444334455  7888888888887 7777788888888777765444

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>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=81.27  E-value=3.8  Score=19.41  Aligned_cols=20  Identities=20%  Similarity=0.087  Sum_probs=10.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHH
Q 038429          159 SLIHFYAVCGDLAMAYCVFV  178 (258)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~  178 (258)
                      .+-..+...|++++|..+++
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

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=80.48  E-value=2.8  Score=27.90  Aligned_cols=27  Identities=11%  Similarity=0.060  Sum_probs=9.8

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHh
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQL  114 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m  114 (258)
                      +....+.+++|.+-+++.-|.++|+..
T Consensus        45 P~ii~aALrAcRRvND~a~AVR~lE~i   71 (108)
T PF02284_consen   45 PKIIEAALRACRRVNDFALAVRILEGI   71 (108)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            333333333333333333333333333

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 ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=80.45  E-value=4.5  Score=20.24  Aligned_cols=29  Identities=10%  Similarity=-0.143  Sum_probs=19.1

Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          221 VTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       221 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .+|..+...+...|++++|...|++..+.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            35666667777777777777777776553

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 ....

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=80.42  E-value=12  Score=28.93  Aligned_cols=69  Identities=14%  Similarity=0.090  Sum_probs=48.5

Q ss_pred             hHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC------CChhhHHHHHHH
Q 038429          126 TLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK------KDVVSWNSMISG  194 (258)
Q Consensus       126 ~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~------~~~~~~~~li~~  194 (258)
                      |.+.-++.+.+.+.+.++....+.-    +.|...-..+++.||-.|++++|..=++..-+      +...+|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            4556667777778888877766555    66677788889999999999998866554332      244567777754

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=80.28  E-value=19  Score=25.89  Aligned_cols=14  Identities=21%  Similarity=0.347  Sum_probs=7.3

Q ss_pred             CCChhhHHHHHHHh
Q 038429          101 SDEPIQSFMIFLQL  114 (258)
Q Consensus       101 ~g~~~~a~~~~~~m  114 (258)
                      .++++++..+++.|
T Consensus        23 ~~d~~D~e~lLdAL   36 (153)
T TIGR02561        23 SADPYDAQAMLDAL   36 (153)
T ss_pred             cCCHHHHHHHHHHH
Confidence            44555555555555

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

---

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	258
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-11

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 62.5 bits (150), Expect = 2e-11
 Identities = 20/136 (14%), Positives = 49/136 (36%), Gaps = 12/136 (8%)

Query: 118 SPYFPNEFTLPFVIKAAARPVQFRVGQAIHGM-----FEDDLVISNSLIHFYAVCGDLAM 172
           +P  P E  L  +++ A   +   V QA  G               +      +   L +
Sbjct: 86  APESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPL 145

Query: 173 AYCVFVMIGKK-------DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVV 225
           A+ + V+   +        +  +N+++ G+   G F++ + +   ++   + PD ++   
Sbjct: 146 AHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA 205

Query: 226 VLSACAKKRDLEFGIW 241
            L    ++      I 
Sbjct: 206 ALQCMGRQDQDAGTIE 221

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	258
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	99.86
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.86
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.81
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.7
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.67
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.64
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.64
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.62
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.61
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.6
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.57
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.57
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.56
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.56
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.52
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.5
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.49
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.49
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.48
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.46
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.45
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.45
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.45
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.45
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.44
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.44
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.44
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.43
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.42
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.4
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.39
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.39
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.38
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.38
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.36
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.36
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.36
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.3
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.28
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.26
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.26
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.26
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.25
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.22
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.21
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.19
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.18
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.18
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.14
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.12
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.1
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.1
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.09
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.08
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.08
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.04
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.04
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.02
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.02
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.99
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.99
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.97
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.97
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.97
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.97
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.95
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.94
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.9
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.88
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	98.85
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.83
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.82
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.8
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.79
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.77
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.72
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.71
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.7
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.69
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.69
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.69
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.67
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.65
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.65
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.65
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.65
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.64
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.63
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.62
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.61
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.61
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.6
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.6
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.6
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.59
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.59
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.58
4g1t_A	472	Interferon-induced protein with tetratricopeptide	98.57
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.55
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.53
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.52
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.51
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.49
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.47
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.45
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.43
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.41
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.39
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.37
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.36
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.35
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.34
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.31
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.3
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.29
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.28
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.26
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.24
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.24
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.24
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.24
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.24
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.23
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.2
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.19
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.18
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.17
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.15
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.15
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.14
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.13
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.13
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.12
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.11
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.08
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.07
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.05
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.04
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.03
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.02
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.01
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.01
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.0
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.0
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.99
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.99
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.99
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.96
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.94
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.92
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.92
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.92
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.88
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.85
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.85
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.85
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.84
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.84
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.82
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.81
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.8
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.79
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.79
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.77
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.75
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.74
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.72
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.72
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	97.65
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.61
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.61
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.6
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.58
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.55
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.54
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.53
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.41
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.38
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.38
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.34
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.32
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.2
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.19
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.09
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.07
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.07
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.03
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.99
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	96.93
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.89
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.82
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.8
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.77
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.76
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.75
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.74
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.73
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.67
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.66
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	96.61
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.56
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	96.52
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.5
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.47
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	96.42
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.42
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	96.05
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	95.87
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	95.83
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	95.82
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.75
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	95.41
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.21
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	94.89
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	94.72
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.7
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	94.5
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	93.54
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	93.51
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.35
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	92.9
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	92.78
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.6
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	92.44
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	92.02
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	90.87
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.31
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	90.24
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	90.12
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	89.97
1pc2_A	152	Mitochondria fission protein; unknown function; NM	89.52
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.1
2p58_C	116	Putative type III secretion protein YSCG; type III	88.37
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	88.17
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.68
1pc2_A	152	Mitochondria fission protein; unknown function; NM	87.53
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	87.37
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	85.65
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	85.31
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	84.57
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	84.06
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	83.55
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	82.89
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	82.03
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	81.65
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	81.62
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	81.6

>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=7.2e-35  Score=249.36  Aligned_cols=195  Identities=13%  Similarity=0.112  Sum_probs=166.4

Q ss_pred             hhhHHHHHHHHHhhccCcchh-hhhhhhhhhhccCCCChHHHHHHhccCC----CCChhhHHHHHHHHhcCCC-------
Q 038429           36 QKQLKRIHAQMLSTDFFFDPY-SASKLFTPCALSTFSSLEYARKMFDQIP----QPNLYTWNTLIRAYSSSDE-------  103 (258)
Q Consensus        36 ~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~~~~~~~~a~~~~~~m~----~~~~~~~~~li~~~~~~g~-------  103 (258)
                      ...++.+...+.+.+..+++. +++.+|++|++.|  ++++|.++|++|.    +||..+||+||.+|++.+.       
T Consensus         6 ~s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G--~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~   83 (501)
T 4g26_A            6 ASPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKG--DVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPN   83 (501)
T ss_dssp             ------------------CHHHHHHHHHHHTTTSC--CHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCC
T ss_pred             cchHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhc
Confidence            355677778888888777665 5889999999999  9999999999996    4899999999999998765       


Q ss_pred             --hhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-----cCchhHHHHHHHHHHhcCCHHHHHHH
Q 038429          104 --PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-----EDDLVISNSLIHFYAVCGDLAMAYCV  176 (258)
Q Consensus       104 --~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~  176 (258)
                        +++|.++|++| ...|+.||..||++||++|++.|++++|..+|+.|     .||..+||+||.+|++.|++++|.++
T Consensus        84 ~~l~~A~~lf~~M-~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l  162 (501)
T 4g26_A           84 PGLSRGFDIFKQM-IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEV  162 (501)
T ss_dssp             HHHHHHHHHHHHH-HHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             chHHHHHHHHHHH-HHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHH
Confidence              67899999999 99999999999999999999999999999999999     89999999999999999999999999


Q ss_pred             HHhcC----CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhcc
Q 038429          177 FVMIG----KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKK  233 (258)
Q Consensus       177 ~~~m~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~  233 (258)
                      |++|.    .||..||++||.+|++.|++++|.+++++|++.|+.|+..||+.++..|+..
T Consensus       163 ~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          163 DAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99996    4899999999999999999999999999999999999999999999999864

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=4.4e-34  Score=244.49  Aligned_cols=181  Identities=10%  Similarity=0.104  Sum_probs=160.2

Q ss_pred             HHHHHhccCCC-----CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCC---------c
Q 038429           75 YARKMFDQIPQ-----PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQ---------F  140 (258)
Q Consensus        75 ~a~~~~~~m~~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~---------~  140 (258)
                      .+..+.+++.+     .....++.+|++|++.|++++|+++|++| ++.|++||..|||+||++|++.+.         +
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M-~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEA-RRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHH-HHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            34555555543     23346899999999999999999999999 899999999999999999998765         4


Q ss_pred             chhhhhhhcc-----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC----CChhhHHHHHHHHHcCCChHHHHHHHHHH
Q 038429          141 RVGQAIHGMF-----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK----KDVVSWNSMISGFVEGGFFEKAIELYREM  211 (258)
Q Consensus       141 ~~a~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m  211 (258)
                      +.|.++|+.|     .||..|||+||++|++.|++++|.++|++|++    ||..|||+||.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            6788999999     89999999999999999999999999999964    89999999999999999999999999999


Q ss_pred             HHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCccccc
Q 038429          212 EVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMDLT  256 (258)
Q Consensus       212 ~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  256 (258)
                      .+.|+.||..||++||++|++.|++++|.+++++|.+.|+.|+..
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~  211 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKS  211 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHH
Confidence            999999999999999999999999999999999999999999864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.86  E-value=2.6e-21  Score=168.96  Aligned_cols=221  Identities=9%  Similarity=-0.064  Sum_probs=197.8

Q ss_pred             ccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCC
Q 038429           27 QRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDE  103 (258)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~  103 (258)
                      ...+.+.|++++|.++|+.+.+.  .++..+++.++.+|.+.|  ++++|..+|+++.+   .+..+|+.++.++.+.|+
T Consensus       279 ~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  354 (597)
T 2xpi_A          279 LNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRS--RFIDVLAITTKILEIDPYNLDVYPLHLASLHESGE  354 (597)
T ss_dssp             SCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTC
T ss_pred             HHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhc--CHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCC
Confidence            34788899999999999999876  588999999999999999  99999999998853   578899999999999999


Q ss_pred             hhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 038429          104 PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVM  179 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~  179 (258)
                      +++|..+|+++ .+. .+.+..+++.+...|.+.|++++|..+|+.+    +.+..+|+.++.+|.+.|++++|.++|++
T Consensus       355 ~~~A~~~~~~~-~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  432 (597)
T 2xpi_A          355 KNKLYLISNDL-VDR-HPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTT  432 (597)
T ss_dssp             HHHHHHHHHHH-HHH-CTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-Hhh-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999999 432 3456789999999999999999999999988    55678999999999999999999999998


Q ss_pred             cCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc----CCc
Q 038429          180 IGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN----GIK  252 (258)
Q Consensus       180 m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~  252 (258)
                      +.+   ++..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.+...|.+.|++++|.++|+++.+.    +..
T Consensus       433 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  511 (597)
T 2xpi_A          433 AARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSN  511 (597)
T ss_dssp             HHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCC
T ss_pred             HHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccc
Confidence            753   378899999999999999999999999998763 346889999999999999999999999999876    666


Q ss_pred             cc
Q 038429          253 MD  254 (258)
Q Consensus       253 p~  254 (258)
                      |+
T Consensus       512 p~  513 (597)
T 2xpi_A          512 EK  513 (597)
T ss_dssp             SG
T ss_pred             hh
Confidence            76

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.86  E-value=6.7e-21  Score=166.36  Aligned_cols=215  Identities=9%  Similarity=-0.082  Sum_probs=106.9

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+.+.|++++|.++|+.+.+.+ +.+..+++.++.++.+.|  +.++|..+|+++.+   .+..+|+.++..|.+.|+++
T Consensus       314 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  390 (597)
T 2xpi_A          314 TLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESG--EKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKIS  390 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHT--CHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhC--CHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHH
Confidence            5566667777777777776554 224444555555555555  55555555544421   33444555555555555555


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +|.++|+++ .+. .+.+..+|+.++.++.+.|++++|..+++.+    +.+..+|+.+..+|.+.|++++|.++|+.+.
T Consensus       391 ~A~~~~~~~-~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  468 (597)
T 2xpi_A          391 EARRYFSKS-STM-DPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSY  468 (597)
T ss_dssp             HHHHHHHHH-HHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-HHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555554 221 1122334555555555555555555555444    3344455555555555555555555554443


Q ss_pred             C---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHc----CCCCC--hhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          182 K---KDVVSWNSMISGFVEGGFFEKAIELYREMEVE----NVKPD--EVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       182 ~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      +   .+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|.+.|++++|.++++++.+
T Consensus       469 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  544 (597)
T 2xpi_A          469 ALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLL  544 (597)
T ss_dssp             HHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            2   23444555555555555555555555554443    33444  34455555555555555555555554443

>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=1.3e-21  Score=174.15  Aligned_cols=103  Identities=12%  Similarity=0.181  Sum_probs=70.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcC-------CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIG-------KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVV  226 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~-------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  226 (258)
                      ..|||+||++||+.|++++|.++|.+|.       .||++|||+||.+||+.|++++|.++|++|.+.|+.||..||++|
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            3467777777777777777777775542       367777777777777777777777777777777777777777777


Q ss_pred             HHHHhccCCh-hHHHHHHHHHHHcCCccccc
Q 038429          227 LSACAKKRDL-EFGIWVSSHIEKNGIKMDLT  256 (258)
Q Consensus       227 i~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~  256 (258)
                      |+++++.|+. ++|.++|++|.+.|+.||.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~v  237 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQAL  237 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChh
Confidence            7777776663 56667777777777777654

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.81  E-value=4.4e-21  Score=170.75  Aligned_cols=124  Identities=15%  Similarity=0.114  Sum_probs=90.2

Q ss_pred             hHHHHHHHhcCcCCcchhhhhhhcc--------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC----CCChhhHHHHHH
Q 038429          126 TLPFVIKAAARPVQFRVGQAIHGMF--------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG----KKDVVSWNSMIS  193 (258)
Q Consensus       126 ~~~~ll~~~~~~~~~~~a~~~~~~~--------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~----~~~~~~~~~li~  193 (258)
                      ||++||++||+.|++++|..+|..|        .||+.|||+||++||+.|++++|.++|++|.    .||++|||+||.
T Consensus       129 TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~  208 (1134)
T 3spa_A          129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ  208 (1134)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            3444444444444444444444332        4677888888889999999999999999996    489999999999


Q ss_pred             HHHcCCCh-HHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCccc
Q 038429          194 GFVEGGFF-EKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMD  254 (258)
Q Consensus       194 ~~~~~g~~-~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  254 (258)
                      ++|+.|+. ++|.++|++|.+.|+.||..||++++.++.+.    ...+.++++ ..++.|+
T Consensus       209 glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~  265 (1134)
T 3spa_A          209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLP  265 (1134)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCC
T ss_pred             HHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCC
Confidence            99999874 78899999999999999999999988766553    333344444 4455554

>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=99.70  E-value=8e-16  Score=127.42  Aligned_cols=212  Identities=12%  Similarity=-0.040  Sum_probs=135.7

Q ss_pred             ccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhH
Q 038429           31 HFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQS  107 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a  107 (258)
                      ...|++++|.+++..+.+.. +.+..+|..+...+.+.|  ++++|...|+++.+   .+...|..+...+...|++++|
T Consensus       146 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A  222 (388)
T 1w3b_A          146 KALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQG--EIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRA  222 (388)
T ss_dssp             HTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHH
T ss_pred             HHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHH
Confidence            33455555555555555443 223445555555555555  55555555554432   2344555555556666666666


Q ss_pred             HHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-
Q 038429          108 FMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-  182 (258)
Q Consensus       108 ~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-  182 (258)
                      +..|++.....  +.+..++..+..++.+.|++++|...++.+    +.+..+|+.+...|.+.|++++|.+.|+++.+ 
T Consensus       223 ~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  300 (388)
T 1w3b_A          223 VAAYLRALSLS--PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL  300 (388)
T ss_dssp             HHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            66655552211  123456677777777777777777777776    34456777777778888888888877776643 


Q ss_pred             --CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          183 --KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       183 --~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                        .+..+|+.+...+...|++++|...++++.+.. +.+..++..+...+.+.|++++|.+.++++.+
T Consensus       301 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          301 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence              366778888888888888888888888776542 23456788888888888888888888888765

>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=99.67  E-value=3.1e-15  Score=123.86  Aligned_cols=215  Identities=11%  Similarity=-0.029  Sum_probs=150.6

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|++++|.+.+..+.+.. +.+...+..+...+...|  ++++|...|+++.+   .+..+|+.+...+.+.|+++
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~  186 (388)
T 1w3b_A          110 ALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALG--RLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIW  186 (388)
T ss_dssp             HHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTS--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcc--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            3444455555555555555443 122334444555555555  66666666655432   34566777777777777777


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +|+..|+++. +.+ +.+...|..+...+...|++++|...++..    +.+..++..+...|.+.|++++|.+.|+++.
T Consensus       187 ~A~~~~~~al-~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  264 (388)
T 1w3b_A          187 LAIHHFEKAV-TLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAI  264 (388)
T ss_dssp             HHHHHHHHHH-HHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-hcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7777777763 221 223456677777777777888777777766    4456788888999999999999999998775


Q ss_pred             C--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          182 K--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       182 ~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +  | +..+|..+...+.+.|++++|...|+++.+.. +.+..++..+...+.+.|++++|...++++.+.
T Consensus       265 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  334 (388)
T 1w3b_A          265 ELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             HTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS
T ss_pred             hhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3  4 56788889999999999999999999888763 456778889999999999999999999988653

>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=99.64  E-value=1.1e-14  Score=122.62  Aligned_cols=214  Identities=9%  Similarity=-0.050  Sum_probs=107.1

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+.+.|++++|..+|+.+.+.. +.+...+..+..++...|  ++++|...|+++.+   .+..+|..+...|.+.|+++
T Consensus        35 ~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~  111 (450)
T 2y4t_A           35 KLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMG--KSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLD  111 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCC--CHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHH
Confidence            4444555555555555555442 223444555555555555  55555555544322   23344444444444445555


Q ss_pred             hHHHHHHHhHhcCC------------------------------------------------CCCCcchHHHHHHHhcCc
Q 038429          106 QSFMIFLQLVYNSP------------------------------------------------YFPNEFTLPFVIKAAARP  137 (258)
Q Consensus       106 ~a~~~~~~m~~~~~------------------------------------------------~~p~~~~~~~ll~~~~~~  137 (258)
                      +|...|+++ .+..                                                .+.+..++..+..++.+.
T Consensus       112 ~A~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  190 (450)
T 2y4t_A          112 EAEDDFKKV-LKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELRELRAECFIKE  190 (450)
T ss_dssp             HHHHHHHHH-HTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHH-HhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHC
Confidence            544444444 2111                                                112334455555556666


Q ss_pred             CCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHH------------HHHHHcC
Q 038429          138 VQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSM------------ISGFVEG  198 (258)
Q Consensus       138 ~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~l------------i~~~~~~  198 (258)
                      |++++|...++.+    +.+..+|+.+...|.+.|++++|.+.|+.+.+  | +...+..+            ...+...
T Consensus       191 g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~  270 (450)
T 2y4t_A          191 GEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRD  270 (450)
T ss_dssp             TCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            6666666666555    44455666666666666666666666655432  2 22223222            4555555


Q ss_pred             CChHHHHHHHHHHHHcCCCCC-----hhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          199 GFFEKAIELYREMEVENVKPD-----EVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       199 g~~~~a~~~~~~m~~~~~~p~-----~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      |++++|..+|+++.+.  .|+     ...|..+...+.+.|++++|...++++.+
T Consensus       271 g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  323 (450)
T 2y4t_A          271 GRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQ  323 (450)
T ss_dssp             TCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5555555555555542  233     22455555555555555555555555543

>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=99.64  E-value=1.5e-15  Score=127.88  Aligned_cols=205  Identities=10%  Similarity=-0.023  Sum_probs=153.3

Q ss_pred             HHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhH
Q 038429           39 LKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLV  115 (258)
Q Consensus        39 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  115 (258)
                      +...+....... +.+...+..+...+.+.|  ++++|..+|+++.+   .+..+|..+..++.+.|++++|+..|+.+ 
T Consensus        11 ~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g--~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a-   86 (450)
T 2y4t_A           11 VDLGTENLYFQS-MADVEKHLELGKKLLAAG--QLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKV-   86 (450)
T ss_dssp             -------------CHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH-
T ss_pred             cccccccccccc-HHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHH-
Confidence            334444444443 456778999999999999  99999999998753   57889999999999999999999999998 


Q ss_pred             hcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCch---hHHHHHHH------------HHHhcCCHHHHHHH
Q 038429          116 YNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDL---VISNSLIH------------FYAVCGDLAMAYCV  176 (258)
Q Consensus       116 ~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~---~~~~~li~------------~~~~~g~~~~a~~~  176 (258)
                      .+.+ +.+..++..+..++.+.|++++|...++.+    +.+.   ..+..+..            .|.+.|++++|.+.
T Consensus        87 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~  165 (450)
T 2y4t_A           87 IQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAF  165 (450)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            4332 345678899999999999999999999988    3333   55555544            48888999999999


Q ss_pred             HHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          177 FVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       177 ~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      |+.+.+   .+...+..+...|...|++++|..+|+++.+.. +.+..++..+...+...|++++|...++++.+.
T Consensus       166 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  240 (450)
T 2y4t_A          166 LDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL  240 (450)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            987653   366677778888888888888888888776642 235667777777888888888888888777643

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.62  E-value=6.4e-15  Score=120.93  Aligned_cols=218  Identities=11%  Similarity=-0.002  Sum_probs=176.9

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      ..+.+.|++++|..+++.+.+.. +.+..++..+..++...|  ++++|...|++..+   .+..+|..+...|...|++
T Consensus        73 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  149 (365)
T 4eqf_A           73 LKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENE--NEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQ  149 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccH
Confidence            36677899999999999999876 457889999999999999  99999999997753   5688999999999999999


Q ss_pred             hhHHHHHHHhHhcCCCCC--------CcchHHHHHHHhcCcCCcchhhhhhhcc---cC---chhHHHHHHHHHHhcCCH
Q 038429          105 IQSFMIFLQLVYNSPYFP--------NEFTLPFVIKAAARPVQFRVGQAIHGMF---ED---DLVISNSLIHFYAVCGDL  170 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p--------~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~---~~~~~~~li~~~~~~g~~  170 (258)
                      ++|+..|+++.....-.+        ....+..+...+.+.|++++|...++..   .|   +..++..+...|.+.|++
T Consensus       150 ~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~  229 (365)
T 4eqf_A          150 QDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEF  229 (365)
T ss_dssp             HHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCH
Confidence            999999999843211000        1223445688899999999999999999   33   678999999999999999


Q ss_pred             HHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          171 AMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       171 ~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      ++|.+.|++..+  | +..+|+.+...|...|++++|...|++..+.. +.+..++..+...|.+.|++++|...+++..
T Consensus       230 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  308 (365)
T 4eqf_A          230 NRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTAL  308 (365)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999998753  3 67899999999999999999999999988753 2346789999999999999999999999886


Q ss_pred             Hc
Q 038429          248 KN  249 (258)
Q Consensus       248 ~~  249 (258)
                      +.
T Consensus       309 ~~  310 (365)
T 4eqf_A          309 SL  310 (365)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.61  E-value=3.2e-14  Score=113.64  Aligned_cols=212  Identities=9%  Similarity=-0.034  Sum_probs=143.9

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHH
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFL  112 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~  112 (258)
                      .|+...|....+..............-.+.++|...|  +++.|...++....|+..++..+...+...|+.++|++.++
T Consensus        12 ~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g--~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~l~   89 (291)
T 3mkr_A           12 IGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQR--KYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELD   89 (291)
T ss_dssp             TTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTT--CHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCC--CHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHHHHH
Confidence            4667777766655443321222234455667777778  88888887776655677777788888888888888888888


Q ss_pred             HhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CChhhH-
Q 038429          113 QLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KDVVSW-  188 (258)
Q Consensus       113 ~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~~~~-  188 (258)
                      ++ ...+..|+ ...+..+-..+...|++++|...++. +.+...+..+...|.+.|++++|.+.|+.+.+  |+.... 
T Consensus        90 ~l-l~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~  167 (291)
T 3mkr_A           90 RE-MSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-GDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQ  167 (291)
T ss_dssp             HH-HHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HH-HhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCcHHHH
Confidence            87 44444454 34455555777788888888888777 66667777788888888888888888877753  443211 


Q ss_pred             --HHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          189 --NSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       189 --~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                        ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...+++..+.
T Consensus       168 l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~  229 (291)
T 3mkr_A          168 LATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK  229 (291)
T ss_dssp             HHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence              12233344557788888888887765 3446667777777788888888888888876654

>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=99.60  E-value=9.4e-16  Score=127.05  Aligned_cols=182  Identities=11%  Similarity=0.046  Sum_probs=32.5

Q ss_pred             cccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHH
Q 038429           32 FLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIF  111 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~  111 (258)
                      +.|++++|.++++.+      +++.+|..|..++.+.|  ++++|.+.|.+.  +|..+|..++.++...|++++|+..+
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g--~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl   84 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKG--MVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYL   84 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcC--CHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            344555555555555      22235555555555555  555555555432  34445555555555555555555544


Q ss_pred             HHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHH
Q 038429          112 LQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSM  191 (258)
Q Consensus       112 ~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~l  191 (258)
                      +.. ++.  .+++.+.+.++.+|.+.|++++++++++.  |+..+|+.+...|...|++++|...|..+     ..|..+
T Consensus        85 ~~a-rk~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~--pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----~n~~~L  154 (449)
T 1b89_A           85 QMA-RKK--ARESYVETELIFALAKTNRLAELEEFING--PNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRL  154 (449)
T ss_dssp             ---------------------------CHHHHTTTTTC--C----------------CTTTHHHHHHHT-----TCHHHH
T ss_pred             HHH-HHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC--CcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----hhHHHH
Confidence            433 221  23344555555555555555555544442  33345555555555555555555555443     244444


Q ss_pred             HHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHH
Q 038429          192 ISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFG  239 (258)
Q Consensus       192 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a  239 (258)
                      ..++.+.|++++|.+.++++      .+..+|..++.+|...|+++.|
T Consensus       155 A~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA  196 (449)
T 1b89_A          155 ASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLA  196 (449)
T ss_dssp             HHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHH
Confidence            44444444444444444443      1334444444444444433333

>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=99.57  E-value=1.6e-13  Score=110.38  Aligned_cols=216  Identities=8%  Similarity=-0.067  Sum_probs=174.7

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCC-Ch
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSD-EP  104 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g-~~  104 (258)
                      .+...|++++|.++++.+.+.. +.+...+..++.++...|  ++++|..+++++.+   .+...|..+...+...| ++
T Consensus        31 ~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  107 (330)
T 3hym_B           31 RHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELN--KANELFYLSHKLVDLYPSNPVSWFAVGCYYLMVGHKN  107 (330)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHT--CHHHHHHHHHHHHHHCTTSTHHHHHHHHHHHHSCSCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhh--hHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhhhhH
Confidence            5556699999999999998876 445667777888888889  99999999987653   46778999999999999 89


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMI  180 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (258)
                      ++|...|++. .+.. +.+..+|..+...+...|++++|...++..    +.+...+..+...|...|++++|.+.|+..
T Consensus       108 ~~A~~~~~~a-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  185 (330)
T 3hym_B          108 EHARRYLSKA-TTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQA  185 (330)
T ss_dssp             HHHHHHHHHH-HTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-HHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            9999999988 4332 334667888999999999999999998888    445677888889999999999999999876


Q ss_pred             CC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC--------CCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          181 GK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVEN--------VKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       181 ~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--------~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .+  | +...+..+...+...|++++|...+++..+..        ...+..++..+...+.+.|++++|...+++..+.
T Consensus       186 l~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  265 (330)
T 3hym_B          186 LSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVL  265 (330)
T ss_dssp             HTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Confidence            54  3 66788888888999999999999998876631        1233567888888888999999999999888764

>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=99.57  E-value=9.4e-14  Score=113.73  Aligned_cols=217  Identities=11%  Similarity=-0.006  Sum_probs=178.9

Q ss_pred             ccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCC
Q 038429           27 QRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDE  103 (258)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~  103 (258)
                      ...+...|++++|...++.+.+.. +.+...+..+..++.+.|  ++++|...|++..+   .+..+|..+...+...|+
T Consensus        71 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~  147 (368)
T 1fch_A           71 GLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE--QELLAISALRRCLELKPDNQTALMALAVSFTNESL  147 (368)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc--CHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCC
Confidence            346677899999999999999876 457788999999999999  99999999987643   578899999999999999


Q ss_pred             hhhHHHHHHHhHhcCCCCCCcchHHH---------------HHHHhcCcCCcchhhhhhhcc---cC---chhHHHHHHH
Q 038429          104 PIQSFMIFLQLVYNSPYFPNEFTLPF---------------VIKAAARPVQFRVGQAIHGMF---ED---DLVISNSLIH  162 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~~~~~~---------------ll~~~~~~~~~~~a~~~~~~~---~~---~~~~~~~li~  162 (258)
                      +++|+..|+++ .... +.+...+..               .+..+...|++++|...++..   .|   +..++..+..
T Consensus       148 ~~~A~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~  225 (368)
T 1fch_A          148 QRQACEILRDW-LRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  225 (368)
T ss_dssp             HHHHHHHHHHH-HHTS-TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHH-HHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHH
Confidence            99999999998 4332 112222211               133333889999999999988   33   4789999999


Q ss_pred             HHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHH
Q 038429          163 FYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFG  239 (258)
Q Consensus       163 ~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a  239 (258)
                      .|.+.|++++|.+.|+...+  | +...|..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|
T Consensus       226 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A  304 (368)
T 1fch_A          226 LFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREA  304 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999987753  4 67789999999999999999999999988753 23567899999999999999999


Q ss_pred             HHHHHHHHHc
Q 038429          240 IWVSSHIEKN  249 (258)
Q Consensus       240 ~~~~~~m~~~  249 (258)
                      ...+++..+.
T Consensus       305 ~~~~~~al~~  314 (368)
T 1fch_A          305 VEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999988653

>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=99.56  E-value=2e-13  Score=109.70  Aligned_cols=216  Identities=11%  Similarity=-0.006  Sum_probs=178.4

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      ..+...|++++|..+++.+.+.. +.+...+..+..++...|  ++++|...|++..+   .+..+|..+...+...|++
T Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~  105 (327)
T 3cv0_A           29 LSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENE--KDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNA  105 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCH
Confidence            36667899999999999999876 447788889999999999  99999999987653   5678899999999999999


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHH--------------HH-HhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHH
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFV--------------IK-AAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYA  165 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~  165 (258)
                      ++|+..++.. .+.. +.+...+..+              .. .+...|++++|...++..    +.+...+..+...|.
T Consensus       106 ~~A~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~  183 (327)
T 3cv0_A          106 NAALASLRAW-LLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYN  183 (327)
T ss_dssp             HHHHHHHHHH-HHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-HHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHH
Confidence            9999999998 4332 2223333333              22 478889999999999888    557789999999999


Q ss_pred             hcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHH
Q 038429          166 VCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWV  242 (258)
Q Consensus       166 ~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~  242 (258)
                      +.|++++|.+.|+...+  | +..+|..+...+...|++++|...+++..+.. +.+...+..+...+.+.|++++|.+.
T Consensus       184 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  262 (327)
T 3cv0_A          184 LSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQ  262 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHH
Confidence            99999999999987753  3 67789999999999999999999999988753 23567899999999999999999999


Q ss_pred             HHHHHHc
Q 038429          243 SSHIEKN  249 (258)
Q Consensus       243 ~~~m~~~  249 (258)
                      +++..+.
T Consensus       263 ~~~a~~~  269 (327)
T 3cv0_A          263 LVRAIYM  269 (327)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9988754

>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=1.1e-14  Score=120.59  Aligned_cols=203  Identities=12%  Similarity=0.002  Sum_probs=90.9

Q ss_pred             CCCceeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHH
Q 038429           15 PNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWN   92 (258)
Q Consensus        15 p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~   92 (258)
                      +++..+..+..   +..+.|++++|.+.|..      .+|+..|..++.++...|  ++++|...++...+  +++.+.+
T Consensus        30 ~~~~vWs~La~---A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g--~~EeAi~yl~~ark~~~~~~i~~   98 (449)
T 1b89_A           30 NEPAVWSQLAK---AQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSG--NWEELVKYLQMARKKARESYVET   98 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHH---HHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHHhCccchhHH
Confidence            44445554444   88889999999999864      357789999999999999  99999998776654  5668889


Q ss_pred             HHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHH
Q 038429           93 TLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAM  172 (258)
Q Consensus        93 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~  172 (258)
                      .++.+|.+.|+++++.++++        .|+..+|..+...|...|.+++|...|..+    ..|..+..++.+.|++++
T Consensus        99 ~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----~n~~~LA~~L~~Lg~yq~  166 (449)
T 1b89_A           99 ELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----SNFGRLASTLVHLGEYQA  166 (449)
T ss_dssp             ----------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT----TCHHHHHHHHHTTTCHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh----hhHHHHHHHHHHhccHHH
Confidence            99999999999999877663        377789999999999999999999999976    589999999999999999


Q ss_pred             HHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          173 AYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       173 a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      |.+.+..+.  ++.+|..++.+|+..|+++.|......     +..+..-...++..|.+.|.+++|..+++...
T Consensus       167 AVea~~KA~--~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL  234 (449)
T 1b89_A          167 AVDGARKAN--STRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHHHHHHHT--CHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHcC--CchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            999999884  889999999999999999999554433     22344445578899999999999998888764

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.52  E-value=3.6e-14  Score=116.41  Aligned_cols=215  Identities=8%  Similarity=-0.108  Sum_probs=171.7

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-C----------hhhHHHH
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-N----------LYTWNTL   94 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~----------~~~~~~l   94 (258)
                      ..+...|++++|...+..+.+.. +.+..++..+..+|...|  ++++|...|++..+  | +          ...+..+
T Consensus       107 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l  183 (365)
T 4eqf_A          107 ITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTS--HQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRM  183 (365)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCHHHHCC--------------
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccc--cHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHH
Confidence            36677899999999999999876 456889999999999999  99999999988754  2 1          2334456


Q ss_pred             HHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCH
Q 038429           95 IRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDL  170 (258)
Q Consensus        95 i~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~  170 (258)
                      ...+.+.|++++|+..|+++.....-.++..++..+...+...|++++|...++..    +.+..+|+.+...|.+.|++
T Consensus       184 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  263 (365)
T 4eqf_A          184 SKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRS  263 (365)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            88999999999999999999544333336788999999999999999999999998    66788999999999999999


Q ss_pred             HHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC---CC--------CChhhHHHHHHHHhccCCh
Q 038429          171 AMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVEN---VK--------PDEVTMVVVLSACAKKRDL  236 (258)
Q Consensus       171 ~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~--------p~~~t~~~li~~~~~~g~~  236 (258)
                      ++|.+.|+...+  | +..+|..+...|...|++++|...|++..+..   ..        .+...|..+..++...|+.
T Consensus       264 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  343 (365)
T 4eqf_A          264 EEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQP  343 (365)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcH
Confidence            999999998754  4 57889999999999999999999999987642   11        1367899999999999999


Q ss_pred             hHHHHHHHH
Q 038429          237 EFGIWVSSH  245 (258)
Q Consensus       237 ~~a~~~~~~  245 (258)
                      +.+..+...
T Consensus       344 ~~a~~~~~~  352 (365)
T 4eqf_A          344 ELFQAANLG  352 (365)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHHh
Confidence            988877654

>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=99.50  E-value=1.2e-12  Score=105.32  Aligned_cols=216  Identities=9%  Similarity=-0.028  Sum_probs=180.9

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|++++|..++..+.+.. +.+...+..+...+...| .++++|...|++..+   .+..+|..+...+...|+++
T Consensus        65 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~-~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~  142 (330)
T 3hym_B           65 TLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVG-HKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHD  142 (330)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSC-SCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHH
T ss_pred             HHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhh-hhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHH
Confidence            5567789999999999999875 446777888888887765 268889999987643   46778999999999999999


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +|+..|++. .+.. +.+...+..+...+...|++++|...++..    +.+...+..+...|.+.|++++|.+.|+...
T Consensus       143 ~A~~~~~~a-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  220 (330)
T 3hym_B          143 QAMAAYFTA-AQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDAL  220 (330)
T ss_dssp             HHHHHHHHH-HHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-HHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            999999998 3332 334567888999999999999999999988    6677899999999999999999999998764


Q ss_pred             C-----------C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          182 K-----------K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       182 ~-----------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +           | +..+|..+...+...|++++|...+++..+.. +.+...+..+...+.+.|++++|.+.+++..+.
T Consensus       221 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          221 EKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             HHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             HHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence            2           2 45689999999999999999999999988753 235678999999999999999999999987653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.49  E-value=5e-13  Score=103.69  Aligned_cols=206  Identities=7%  Similarity=-0.070  Sum_probs=175.0

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CC--------hhhHHHHHHHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PN--------LYTWNTLIRAY   98 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~--------~~~~~~li~~~   98 (258)
                      .+...|++++|..++..+.+..  .+...+..+..++...|  ++++|...+++..+  |+        ..+|..+...+
T Consensus        14 ~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~--~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~   89 (258)
T 3uq3_A           14 KFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKG--EYETAISTLNDAVEQGREMRADYKVISKSFARIGNAY   89 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcc--cHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHH
Confidence            4456789999999999999988  78899999999999999  99999999987754  21        57899999999


Q ss_pred             hcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHH
Q 038429           99 SSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAY  174 (258)
Q Consensus        99 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~  174 (258)
                      .+.|++++|+..|++... .  .|+.       ..+.+.|++++|...++..    +.+...+..+...|...|++++|.
T Consensus        90 ~~~~~~~~A~~~~~~a~~-~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~  159 (258)
T 3uq3_A           90 HKLGDLKKTIEYYQKSLT-E--HRTA-------DILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAV  159 (258)
T ss_dssp             HHTTCHHHHHHHHHHHHH-H--CCCH-------HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcccHHHHHHHHHHHHh-c--Cchh-------HHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHH
Confidence            999999999999999843 2  2442       3455668899999998887    455678899999999999999999


Q ss_pred             HHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          175 CVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       175 ~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +.|+...+   .+...|..+...|...|++++|...+++..+.. +.+...|..+...+.+.|++++|.+.+++..+.
T Consensus       160 ~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          160 KAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            99988753   367889999999999999999999999998753 234678999999999999999999999988654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.49  E-value=8.8e-13  Score=112.55  Aligned_cols=215  Identities=10%  Similarity=-0.064  Sum_probs=184.5

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|+++.|..++..+.+....  ...+..+..++...|  ++++|...+++..+   .+..+|..+...+...|+++
T Consensus       246 ~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          246 FKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRN--DSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSS--CCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCC--CHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHH
Confidence            566779999999999999987644  888999999999999  99999999987643   46778999999999999999


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +|+..|++. .+.. +.+..++..+...+...|++++|...++..    +.+...+..+...|.+.|++++|.+.|+.+.
T Consensus       322 ~A~~~~~~~-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          322 QAGKDFDKA-KELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             HHHHHHHHH-HHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-HHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999998 4432 335678999999999999999999999988    5567899999999999999999999998875


Q ss_pred             C--C-C------hhhHHHHHHHHHc---CCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          182 K--K-D------VVSWNSMISGFVE---GGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       182 ~--~-~------~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +  | +      ...|..+...+..   .|++++|...+++..... +.+..++..+...+.+.|++++|...+++..+.
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            4  2 2      3389999999999   999999999999988753 235678899999999999999999999998765


Q ss_pred             C
Q 038429          250 G  250 (258)
Q Consensus       250 g  250 (258)
                      .
T Consensus       479 ~  479 (514)
T 2gw1_A          479 A  479 (514)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.48  E-value=1.8e-13  Score=112.00  Aligned_cols=215  Identities=11%  Similarity=-0.059  Sum_probs=175.0

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-ChhhHHH-----------
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-NLYTWNT-----------   93 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~-----------   93 (258)
                      ..+...|+++.|...+..+.+.. +.+..++..+..++...|  ++++|...|+++.+  | +...+..           
T Consensus       106 ~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (368)
T 1fch_A          106 TTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES--LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLG  182 (368)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSTTTGGGCC------------
T ss_pred             HHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhccc
Confidence            46677899999999999999886 457889999999999999  99999999987643  2 2222221           


Q ss_pred             ----HHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHH
Q 038429           94 ----LIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYA  165 (258)
Q Consensus        94 ----li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~  165 (258)
                          .+..+...|++++|+..|+++.....-.++..++..+...+.+.|++++|...++..    +.+...|..+...|.
T Consensus       183 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~  262 (368)
T 1fch_A          183 PSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLA  262 (368)
T ss_dssp             ---CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Confidence                233344889999999999999444332235778999999999999999999999988    556789999999999


Q ss_pred             hcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCC---C-------ChhhHHHHHHHHhc
Q 038429          166 VCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVK---P-------DEVTMVVVLSACAK  232 (258)
Q Consensus       166 ~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~---p-------~~~t~~~li~~~~~  232 (258)
                      +.|++++|.+.|+...+  | +...|..+...|...|++++|...|++..+..-.   |       ...+|..+..++.+
T Consensus       263 ~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  342 (368)
T 1fch_A          263 NGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSM  342 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHH
Confidence            99999999999998753  4 6778999999999999999999999998764211   1       15789999999999


Q ss_pred             cCChhHHHHHHHH
Q 038429          233 KRDLEFGIWVSSH  245 (258)
Q Consensus       233 ~g~~~~a~~~~~~  245 (258)
                      .|+.++|..+++.
T Consensus       343 ~g~~~~A~~~~~~  355 (368)
T 1fch_A          343 LGQSDAYGAADAR  355 (368)
T ss_dssp             HTCGGGHHHHHTT
T ss_pred             hCChHhHHHhHHH
Confidence            9999999998873

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.46  E-value=8.3e-13  Score=100.80  Aligned_cols=190  Identities=12%  Similarity=-0.063  Sum_probs=147.7

Q ss_pred             CcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHH
Q 038429           52 FFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLP  128 (258)
Q Consensus        52 ~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~  128 (258)
                      +++...+..+-..+.+.|  ++++|...|++..+   .+...|..+...+.+.|++++|+..|++.....  +.+..++.
T Consensus         2 p~~~~~~~~lg~~~~~~g--~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~   77 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALG--RYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART--PRYLGGYM   77 (217)
T ss_dssp             --CCHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHH
Confidence            567778888888999999  99999999987643   567889999999999999999999999984322  33456788


Q ss_pred             HHHHHhcCc-----------CCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CChhhHHHH
Q 038429          129 FVIKAAARP-----------VQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KDVVSWNSM  191 (258)
Q Consensus       129 ~ll~~~~~~-----------~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~~~~~~l  191 (258)
                      .+-.++...           |++++|...++..    +.+...|..+-..|...|++++|...|++..+  .+...+..+
T Consensus        78 ~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~l  157 (217)
T 2pl2_A           78 VLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHH
T ss_pred             HHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHH
Confidence            888889999           9999999999888    55677899999999999999999999986533  677788999


Q ss_pred             HHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          192 ISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       192 i~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      -..|...|++++|...|++..+.  .| +...+..+...+.+.|++++|...+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQ--APKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            99999999999999999998875  35 56778889999999999999999988754

>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=99.45  E-value=2.9e-13  Score=108.75  Aligned_cols=214  Identities=7%  Similarity=-0.158  Sum_probs=173.6

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHH----------
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTL----------   94 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~l----------   94 (258)
                      ..+...|++++|...+..+.+.. +.+..++..+...+...|  ++++|...+++..+   .+...+..+          
T Consensus        63 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (327)
T 3cv0_A           63 LTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH--NANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDL  139 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSTTTTTC--------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHH
Confidence            35667899999999999999875 456788999999999999  99999999987643   233333333          


Q ss_pred             ----HH-HHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHH
Q 038429           95 ----IR-AYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYA  165 (258)
Q Consensus        95 ----i~-~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~  165 (258)
                          .. .+...|++++|...+++. .+.. +.+..++..+...+...|++++|...++..    +.+...+..+...|.
T Consensus       140 ~~~~~~~~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  217 (327)
T 3cv0_A          140 NVQSEDFFFAAPNEYRECRTLLHAA-LEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLA  217 (327)
T ss_dssp             ------CCTTSHHHHHHHHHHHHHH-HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHcccHHHHHHHHHHH-HhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence                22 377788999999999998 4332 336778899999999999999999999988    556789999999999


Q ss_pred             hcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-----------ChhhHHHHHHHHh
Q 038429          166 VCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-----------DEVTMVVVLSACA  231 (258)
Q Consensus       166 ~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-----------~~~t~~~li~~~~  231 (258)
                      +.|++++|.+.|+...+  | +...|..+...|...|++++|...+++..+..-..           +...+..+..++.
T Consensus       218 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  297 (327)
T 3cv0_A          218 NGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLN  297 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHH
Confidence            99999999999988653  3 67789999999999999999999999987653211           3678899999999


Q ss_pred             ccCChhHHHHHHHHH
Q 038429          232 KKRDLEFGIWVSSHI  246 (258)
Q Consensus       232 ~~g~~~~a~~~~~~m  246 (258)
                      +.|+.++|..++++.
T Consensus       298 ~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          298 VMNRPDLVELTYAQN  312 (327)
T ss_dssp             HTTCHHHHHHHTTCC
T ss_pred             hcCCHHHHHHHHHHH
Confidence            999999999998753

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.45  E-value=1e-12  Score=103.12  Aligned_cols=218  Identities=11%  Similarity=-0.090  Sum_probs=174.2

Q ss_pred             cCcccccchhhHHHHHHHHHhhcc---CcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcC
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDF---FFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSS  101 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~---~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~  101 (258)
                      ......+++++|...++.+.+...   +.+..++..+...+...|  ++++|...|++..+   .+..+|..+...+...
T Consensus        13 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~   90 (275)
T 1xnf_A           13 VPLQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLG--LRALARNDFSQALAIRPDMPEVFNYLGIYLTQA   90 (275)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHT
T ss_pred             eccCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcc--cHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHc
Confidence            356667999999999999998642   224667889999999999  99999999987653   5688999999999999


Q ss_pred             CChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHHHHHHHH
Q 038429          102 DEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAMAYCVFV  178 (258)
Q Consensus       102 g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~  178 (258)
                      |++++|+..|++.....  +.+..++..+...+.+.|++++|...++..   .|+.......+..+...|++++|...+.
T Consensus        91 ~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  168 (275)
T 1xnf_A           91 GNFDAAYEAFDSVLELD--PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLK  168 (275)
T ss_dssp             TCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC--ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHH
Confidence            99999999999984322  335678999999999999999999999998   5555555566666678899999999996


Q ss_pred             hcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCC--C-ChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          179 MIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVK--P-DEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       179 ~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      ....  | +...+ .+...+...++.++|...+++.......  | +...+..+...+.+.|++++|...+++..+..
T Consensus       169 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          169 QHFEKSDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHHHSCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHhcCCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            5532  3 43444 4777788888889999999887654211  1 14678889999999999999999999987653

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.45  E-value=4.2e-12  Score=101.35  Aligned_cols=207  Identities=9%  Similarity=0.006  Sum_probs=126.3

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCC----CC-ChhhHHHHHHHHhcCCC
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIP----QP-NLYTWNTLIRAYSSSDE  103 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~----~~-~~~~~~~li~~~~~~g~  103 (258)
                      ++...|+++.|...++.    .-.|+..++..+...+...+  +.++|.+.++++.    .| +...+..+...+.+.|+
T Consensus        43 ~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~--~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~  116 (291)
T 3mkr_A           43 AYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS--RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQN  116 (291)
T ss_dssp             HHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST--THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC--cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCC
Confidence            44555666666654332    12455566666777777766  7777777776542    13 44455566677777777


Q ss_pred             hhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCchhHH---HHHHHHHHhcCCHHHHHHHH
Q 038429          104 PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDDLVIS---NSLIHFYAVCGDLAMAYCVF  177 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~---~~li~~~~~~g~~~~a~~~~  177 (258)
                      +++|+..+++       +.+..++..+...+.+.|++++|...++.+   .|+....   ..++..+...|++++|..+|
T Consensus       117 ~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~  189 (291)
T 3mkr_A          117 PDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIF  189 (291)
T ss_dssp             HHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHH
T ss_pred             HHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHH
Confidence            7777776653       345566677777777777777777777776   3432211   12223333446777777777


Q ss_pred             HhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhH-HHHHHHHHHHc
Q 038429          178 VMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEF-GIWVSSHIEKN  249 (258)
Q Consensus       178 ~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~-a~~~~~~m~~~  249 (258)
                      +++.+   .+...|+.+..++.+.|++++|+..|++..+.. +-+..++..++..+...|+.++ +.++++++.+.
T Consensus       190 ~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          190 QEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            76643   255667777777777777777777777766542 1245566667777777777654 45666666543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.45  E-value=4.3e-12  Score=103.00  Aligned_cols=214  Identities=8%  Similarity=-0.084  Sum_probs=177.1

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|++++|...+..+.+.. +.+...+..+...+...|  ++++|...|++..+   .+...|..+...+...|+++
T Consensus        12 ~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   88 (359)
T 3ieg_A           12 KLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMG--KSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLD   88 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcc--CHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChH
Confidence            4556789999999999999876 456788999999999999  99999999987653   46788999999999999999


Q ss_pred             hHHHHHHHhHhcCCCCC----CcchHHHH------------HHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHH
Q 038429          106 QSFMIFLQLVYNSPYFP----NEFTLPFV------------IKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYA  165 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p----~~~~~~~l------------l~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~  165 (258)
                      +|...|++. .+.  .|    +...+..+            ...+...|++++|...++..    +.+...+..+...|.
T Consensus        89 ~A~~~~~~~-~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (359)
T 3ieg_A           89 EAEDDFKKV-LKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRELRAECFI  165 (359)
T ss_dssp             HHHHHHHHH-HTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-Hhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHH
Confidence            999999998 433  34    33444444            57888999999999999998    667789999999999


Q ss_pred             hcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh-hhHH------------HHHHH
Q 038429          166 VCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE-VTMV------------VVLSA  229 (258)
Q Consensus       166 ~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~t~~------------~li~~  229 (258)
                      ..|++++|.+.++...+  | +..+|..+...+...|++++|...|++..+..  |+. ..+.            .+...
T Consensus       166 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~  243 (359)
T 3ieg_A          166 KEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESAEE  243 (359)
T ss_dssp             HTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--ccchHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999998754  3 67889999999999999999999999988753  433 3332            23566


Q ss_pred             HhccCChhHHHHHHHHHHHcC
Q 038429          230 CAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       230 ~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      +.+.|++++|...+++..+..
T Consensus       244 ~~~~~~~~~A~~~~~~~~~~~  264 (359)
T 3ieg_A          244 LIRDGRYTDATSKYESVMKTE  264 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHhcC
Confidence            888999999999999987643

>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=99.44  E-value=3e-12  Score=99.30  Aligned_cols=191  Identities=8%  Similarity=-0.075  Sum_probs=152.8

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHH
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVI  131 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll  131 (258)
                      ...+..+...+...|  ++++|...|++..+   .+..+|..+...+.+.|++++|...|++.....  +.+...+..+.
T Consensus        37 ~~~~~~~a~~~~~~~--~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la  112 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRG--NTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD--SRNARVLNNYG  112 (252)
T ss_dssp             HHHHHHHHHHHHHTT--CTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC--ChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCcHHHHHHHH
Confidence            456777778888888  89988888887643   467788888889999999999999998873322  23566788888


Q ss_pred             HHhcCcCCcchhhhhhhcc-c-----CchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChH
Q 038429          132 KAAARPVQFRVGQAIHGMF-E-----DDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFE  202 (258)
Q Consensus       132 ~~~~~~~~~~~a~~~~~~~-~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~  202 (258)
                      ..+...|++++|...++.. .     .+...+..+...|.+.|++++|.+.|+...+  | +...+..+...+...|+++
T Consensus       113 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          113 GFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHH
Confidence            8888899999988888776 2     2456788888999999999999999987653  3 5778888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          203 KAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       203 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      +|..++++..+.. +.+...+..+...+.+.|+.++|.++++++.+..
T Consensus       193 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          193 PARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            9999999887642 3456678888888999999999999999887653

>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=99.44  E-value=4.7e-12  Score=98.19  Aligned_cols=192  Identities=8%  Similarity=-0.056  Sum_probs=161.6

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|++++|...+..+.+.. +.+...+..+...+...|  ++++|...|++..+   .+...|..+...+...|+++
T Consensus        46 ~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~--~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~  122 (252)
T 2ho1_A           46 GYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEM--EPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYE  122 (252)
T ss_dssp             HHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHH
Confidence            5567789999999999998875 446788999999999999  99999999987643   47788999999999999999


Q ss_pred             hHHHHHHHhHhcCCCCC-CcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Q 038429          106 QSFMIFLQLVYNSPYFP-NEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMI  180 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  180 (258)
                      +|...|++. .+.+..| +...+..+...+...|++++|...++..    +.+...+..+...|.+.|++++|.+.|+..
T Consensus       123 ~A~~~~~~~-~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  201 (252)
T 2ho1_A          123 EAYQRLLEA-SQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPARQYYDLF  201 (252)
T ss_dssp             HHHHHHHHH-TTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHH-HhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999999 4433444 4567888889999999999999999988    556788999999999999999999999987


Q ss_pred             CC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 038429          181 GK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVV  226 (258)
Q Consensus       181 ~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  226 (258)
                      .+   .+...+..+...+...|+.++|.++++++.+.  .|+...+..+
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~  248 (252)
T 2ho1_A          202 AQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQEF  248 (252)
T ss_dssp             HTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHHHH
T ss_pred             HHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHHHH
Confidence            54   36677888889999999999999999999875  3555544433

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.44  E-value=8.7e-13  Score=101.55  Aligned_cols=184  Identities=8%  Similarity=0.009  Sum_probs=91.9

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|+++.|..++..+.+.. +.+...+..+...+...|  ++++|...|++..+   .+..+|..+...+...|+++
T Consensus        32 ~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  108 (243)
T 2q7f_A           32 RGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVN--ELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYK  108 (243)
T ss_dssp             ----------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHH
Confidence            4444555555555555555433 223444444555555555  55555555544321   23444555555555555555


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---  182 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---  182 (258)
                      +|...|++. .+..                               +.+...+..+...|.+.|++++|.+.++...+   
T Consensus       109 ~A~~~~~~~-~~~~-------------------------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~  156 (243)
T 2q7f_A          109 EAKDMFEKA-LRAG-------------------------------MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE  156 (243)
T ss_dssp             HHHHHHHHH-HHHT-------------------------------CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHH-HHhC-------------------------------CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            555555544 2111                               23344555556666666666666666655432   


Q ss_pred             CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          183 KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      .+...+..+...+...|++++|...+++..+.. +.+..++..+...+.+.|++++|.+.+++..+
T Consensus       157 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          157 NDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             TCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            244555566666666666666666666655442 12345566666666666666666666666554

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.43  E-value=3.8e-12  Score=96.60  Aligned_cols=192  Identities=7%  Similarity=-0.076  Sum_probs=139.0

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHH
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFV  130 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l  130 (258)
                      +...+..+...+...|  ++++|...|++..+   .+...|..+...+...|++++|...|++.....  +.+..++..+
T Consensus         7 ~~~~~~~~~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l   82 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQ--DYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK--PDSAEINNNY   82 (225)
T ss_dssp             HHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHh--hHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CCChHHHHHH
Confidence            4556667777777777  88888777776532   456677777777888888888888887773321  2345567777


Q ss_pred             HHHhcCc-CCcchhhhhhhcc-c-----CchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCC
Q 038429          131 IKAAARP-VQFRVGQAIHGMF-E-----DDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGF  200 (258)
Q Consensus       131 l~~~~~~-~~~~~a~~~~~~~-~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~  200 (258)
                      ...+... |++++|...++.. .     .+...+..+...|.+.|++++|.+.|+.+.+  | +...+..+...+...|+
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           83 GWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCC
Confidence            7777777 8888877777766 2     2246777888888888888888888877643  3 56778888888888888


Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          201 FEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       201 ~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +++|..++++..+..-..+...+..+...+...|+.+.|..+++.+.+.
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            8888888888776531135566777777778888888888888887654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.42  E-value=2.5e-12  Score=109.74  Aligned_cols=214  Identities=7%  Similarity=-0.080  Sum_probs=180.4

Q ss_pred             cccchhhHHHHHHHHHh-----hcc--------CcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHHHHHH
Q 038429           32 FLTNQKQLKRIHAQMLS-----TDF--------FFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWNTLIR   96 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~-----~~~--------~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~   96 (258)
                      +.|+++.|..+++.+.+     ..-        +.+..++..+...+...|  ++++|...|++..+  |+..+|..+..
T Consensus       201 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~A~~~~~~~l~~~~~~~~~~~l~~  278 (514)
T 2gw1_A          201 SPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKN--DPLGAHEDIKKAIELFPRVNSYIYMAL  278 (514)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSS--CHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHhhCccHHHHHHHHH
Confidence            57999999999999988     311        334567888999999999  99999999987643  44888999999


Q ss_pred             HHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHH
Q 038429           97 AYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAM  172 (258)
Q Consensus        97 ~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~  172 (258)
                      .+...|++++|+..++.. .+.. +.+..++..+...+...|++++|...++..    +.+...+..+...|.+.|++++
T Consensus       279 ~~~~~~~~~~A~~~~~~~-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  356 (514)
T 2gw1_A          279 IMADRNDSTEYYNYFDKA-LKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDD  356 (514)
T ss_dssp             HHHTSSCCTTGGGHHHHH-HTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHH-hhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998 4432 345678899999999999999999999988    5567899999999999999999


Q ss_pred             HHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCC-CCC----hhhHHHHHHHHhc---cCChhHHHH
Q 038429          173 AYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENV-KPD----EVTMVVVLSACAK---KRDLEFGIW  241 (258)
Q Consensus       173 a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~----~~t~~~li~~~~~---~g~~~~a~~  241 (258)
                      |.+.|+.+.+  | +...|..+...+...|++++|...++++....- .++    ...+..+...+..   .|++++|..
T Consensus       357 A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~  436 (514)
T 2gw1_A          357 CETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATN  436 (514)
T ss_dssp             HHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHH
T ss_pred             HHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHH
Confidence            9999988754  3 677899999999999999999999999876421 122    3388999999999   999999999


Q ss_pred             HHHHHHHc
Q 038429          242 VSSHIEKN  249 (258)
Q Consensus       242 ~~~~m~~~  249 (258)
                      .+++..+.
T Consensus       437 ~~~~a~~~  444 (514)
T 2gw1_A          437 LLEKASKL  444 (514)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.40  E-value=1.4e-11  Score=100.04  Aligned_cols=217  Identities=10%  Similarity=-0.064  Sum_probs=172.6

Q ss_pred             cCcccccchhhHHHHHHHHHhhccC--cchhhhhhh------------hhhhhccCCCChHHHHHHhccCCC---CChhh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFF--FDPYSASKL------------FTPCALSTFSSLEYARKMFDQIPQ---PNLYT   90 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~l------------i~~~~~~~~~~~~~a~~~~~~m~~---~~~~~   90 (258)
                      ..+...|++++|...+..+.+....  .+...+..+            ...+...|  ++++|...+++..+   .+...
T Consensus        79 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~  156 (359)
T 3ieg_A           79 HLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGA--DYTAAITFLDKILEVCVWDAEL  156 (359)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHcc--CHHHHHHHHHHHHHhCCCchHH
Confidence            3566778999999999988876420  244455444            57788888  99999999987643   57788


Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHH--------
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISN--------  158 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~--------  158 (258)
                      +..+...+...|++++|+..++.. .+. .+.+..++..+...+...|++++|...++..    +.+...+.        
T Consensus       157 ~~~~~~~~~~~~~~~~A~~~~~~~-~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~  234 (359)
T 3ieg_A          157 RELRAECFIKEGEPRKAISDLKAA-SKL-KSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKL  234 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-HTT-CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHH-HHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHHHHH
Confidence            999999999999999999999998 443 2456778899999999999999999999888    33334433        


Q ss_pred             ----HHHHHHHhcCCHHHHHHHHHhcCC--CCh-----hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 038429          159 ----SLIHFYAVCGDLAMAYCVFVMIGK--KDV-----VSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVL  227 (258)
Q Consensus       159 ----~li~~~~~~g~~~~a~~~~~~m~~--~~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li  227 (258)
                          .+...+.+.|++++|.+.|+...+  |+.     ..+..+...+...|++++|...+++..+.. +.+..++..+.
T Consensus       235 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~  313 (359)
T 3ieg_A          235 NKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRA  313 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence                236678899999999999987754  432     235557788999999999999999988752 23677899999


Q ss_pred             HHHhccCChhHHHHHHHHHHHc
Q 038429          228 SACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ..+.+.|++++|.+.+++..+.
T Consensus       314 ~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          314 EAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc
Confidence            9999999999999999998765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.39  E-value=1.1e-11  Score=94.05  Aligned_cols=193  Identities=14%  Similarity=-0.009  Sum_probs=160.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcC-CCh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSS-DEP  104 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~-g~~  104 (258)
                      .+...|++++|...+..+.+.. +.+...+..+...+...|  ++++|...+++..+   .+..+|..+...+... |++
T Consensus        17 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~   93 (225)
T 2vq2_A           17 EYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLK--VNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRP   93 (225)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCH
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcC--ChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcH
Confidence            5567899999999999998875 446788999999999999  99999999987643   5678899999999999 999


Q ss_pred             hhHHHHHHHhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 038429          105 IQSFMIFLQLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVM  179 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~  179 (258)
                      ++|+..++++ .+.+..|+ ...+..+..++...|++++|...++..    +.+...+..+...|.+.|++++|.+.|+.
T Consensus        94 ~~A~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  172 (225)
T 2vq2_A           94 AESMAYFDKA-LADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGDADYYFKK  172 (225)
T ss_dssp             HHHHHHHHHH-HTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHH-HcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999999 44333333 567888999999999999999999888    55678899999999999999999999987


Q ss_pred             cCC----CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 038429          180 IGK----KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVL  227 (258)
Q Consensus       180 m~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li  227 (258)
                      ..+    .+...+..+...+...|+.++|..+++.+.+.  .|+......++
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l  222 (225)
T 2vq2_A          173 YQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQTVL  222 (225)
T ss_dssp             HHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHh
Confidence            653    46667888888889999999999999998764  36655544443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.39  E-value=1.5e-11  Score=96.36  Aligned_cols=216  Identities=8%  Similarity=-0.079  Sum_probs=172.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CCh----hhHHHHHHHHhcCC
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNL----YTWNTLIRAYSSSD  102 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~~g  102 (258)
                      .+...|+++.|...+..+.+.. +.+...+..+..++...|  ++++|...+++..+  ++.    .+|..+...+...|
T Consensus        12 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~--~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~   88 (272)
T 3u4t_A           12 FLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELA--KYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG   88 (272)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTT--CHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHh--hHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc
Confidence            4556789999999999999875 345668888999999999  99999999986643  222    34899999999999


Q ss_pred             ChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHH
Q 038429          103 EPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFV  178 (258)
Q Consensus       103 ~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~  178 (258)
                      ++++|+..|+......  +.+..++..+...+...|++++|...++..    +.+...|..+...+...+++++|.+.|+
T Consensus        89 ~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  166 (272)
T 3u4t_A           89 QDSLAIQQYQAAVDRD--TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFV  166 (272)
T ss_dssp             CHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999984322  335578999999999999999999999988    5566677777734444569999999998


Q ss_pred             hcCC--C-ChhhHHHHHHHHHcCCC---hHHHHHHHHHHHHcC-CCCCh------hhHHHHHHHHhccCChhHHHHHHHH
Q 038429          179 MIGK--K-DVVSWNSMISGFVEGGF---FEKAIELYREMEVEN-VKPDE------VTMVVVLSACAKKRDLEFGIWVSSH  245 (258)
Q Consensus       179 ~m~~--~-~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~-~~p~~------~t~~~li~~~~~~g~~~~a~~~~~~  245 (258)
                      ...+  | +...+..+...+...|+   +++|...+++..+.. -.|+.      ..|..+...|.+.|++++|.+.+++
T Consensus       167 ~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  246 (272)
T 3u4t_A          167 KVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKN  246 (272)
T ss_dssp             HHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8764  4 46677777788887787   888999998877642 22442      5788888999999999999999999


Q ss_pred             HHHc
Q 038429          246 IEKN  249 (258)
Q Consensus       246 m~~~  249 (258)
                      ..+.
T Consensus       247 al~~  250 (272)
T 3u4t_A          247 ILAL  250 (272)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8765

>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=99.38  E-value=1.3e-11  Score=106.11  Aligned_cols=215  Identities=10%  Similarity=-0.019  Sum_probs=178.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|+++.|...+..+.+..  |+...+..+...+...|  ++++|...|++..+   .+..+|..+...+...|+++
T Consensus       252 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  327 (537)
T 3fp2_A          252 FHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKE--NSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYK  327 (537)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSS--CCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhc--CHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHH
Confidence            4556688999999999999865  55788999999999999  99999999987643   56788999999999999999


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +|+..|++.....  +.+..++..+...+...|++++|...++..    +.+...+..+...|.+.|++++|.+.|+...
T Consensus       328 ~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  405 (537)
T 3fp2_A          328 NAKEDFQKAQSLN--PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAK  405 (537)
T ss_dssp             HHHHHHHHHHHHC--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            9999999984332  334678899999999999999999999988    5667799999999999999999999998875


Q ss_pred             C--C-------ChhhHHHHHHHHHcC----------CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHH
Q 038429          182 K--K-------DVVSWNSMISGFVEG----------GFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWV  242 (258)
Q Consensus       182 ~--~-------~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~  242 (258)
                      +  |       ....+..+...+...          |++++|...|++..+.. +.+...+..+...+.+.|++++|.+.
T Consensus       406 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  484 (537)
T 3fp2_A          406 RLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIEL  484 (537)
T ss_dssp             HHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHH
Confidence            3  1       222244445566666          99999999999988753 23567899999999999999999999


Q ss_pred             HHHHHHcC
Q 038429          243 SSHIEKNG  250 (258)
Q Consensus       243 ~~~m~~~g  250 (258)
                      +++..+..
T Consensus       485 ~~~al~~~  492 (537)
T 3fp2_A          485 FEDSAILA  492 (537)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhC
Confidence            99987653

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.38  E-value=3.2e-12  Score=98.34  Aligned_cols=152  Identities=13%  Similarity=0.018  Sum_probs=116.0

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      ..+...|++++|...+..+.+.. +.+...+..+...+...|  ++++|...+++..+   .+...|..+...+.+.|++
T Consensus        65 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  141 (243)
T 2q7f_A           65 NLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKE--MYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQP  141 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhc--cHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccH
Confidence            36677899999999999998876 446788999999999999  99999999987643   5778899999999999999


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--  182 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--  182 (258)
                      ++|...+++.....   |+                             +...+..+...|.+.|++++|.+.|+...+  
T Consensus       142 ~~A~~~~~~~~~~~---~~-----------------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  189 (243)
T 2q7f_A          142 KLALPYLQRAVELN---EN-----------------------------DTEARFQFGMCLANEGMLDEALSQFAAVTEQD  189 (243)
T ss_dssp             HHHHHHHHHHHHHC---TT-----------------------------CHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhC---Cc-----------------------------cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999883321   11                             233455566666677777777777765532  


Q ss_pred             -CChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          183 -KDVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       183 -~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                       .+..+|..+...|...|++++|...+++..+.
T Consensus       190 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          190 PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence             24566777777777777777777777777664

>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=99.36  E-value=2.1e-11  Score=104.73  Aligned_cols=156  Identities=9%  Similarity=-0.013  Sum_probs=130.5

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHH
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYA  165 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~  165 (258)
                      +|..+...+...|++++|...|+.. .+.  .|+..++..+...+...|++++|...++..    +.+..+|..+...|.
T Consensus       245 ~~~~~g~~~~~~~~~~~A~~~~~~~-~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  321 (537)
T 3fp2_A          245 ALCYTGIFHFLKNNLLDAQVLLQES-INL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYF  321 (537)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-HHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHH-Hhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            3555667777888999999999888 332  355778888999999999999999999888    566788999999999


Q ss_pred             hcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHH
Q 038429          166 VCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWV  242 (258)
Q Consensus       166 ~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~  242 (258)
                      ..|++++|.+.|+...+  | +...|..+...+...|++++|..++++..+.. +.+...+..+...+...|++++|...
T Consensus       322 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  400 (537)
T 3fp2_A          322 ILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQ  400 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            99999999999987753  3 56788999999999999999999999988763 23456888899999999999999999


Q ss_pred             HHHHHHc
Q 038429          243 SSHIEKN  249 (258)
Q Consensus       243 ~~~m~~~  249 (258)
                      +++..+.
T Consensus       401 ~~~a~~~  407 (537)
T 3fp2_A          401 YDIAKRL  407 (537)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHc
Confidence            9988654

>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=9.7e-11  Score=92.11  Aligned_cols=210  Identities=12%  Similarity=-0.024  Sum_probs=177.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhc----cCCCChHHHHHHhccCCC-CChhhHHHHHHHHhc---
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCAL----STFSSLEYARKMFDQIPQ-PNLYTWNTLIRAYSS---  100 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~---  100 (258)
                      .+...+++++|...|....+.+   +...+..+-..|..    .+  ++++|...|++..+ .+..++..+...|..   
T Consensus        15 ~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~--~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~   89 (273)
T 1ouv_A           15 KSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEK--NLKKAASFYAKACDLNYSNGCHLLGNLYYSGQG   89 (273)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSS
T ss_pred             HHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCC
Confidence            4456689999999999998843   45677778888888    88  99999999987643 578889999999999   


Q ss_pred             -CCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcC----cCCcchhhhhhhcc--cCchhHHHHHHHHHHh----cCC
Q 038429          101 -SDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAAR----PVQFRVGQAIHGMF--EDDLVISNSLIHFYAV----CGD  169 (258)
Q Consensus       101 -~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~--~~~~~~~~~li~~~~~----~g~  169 (258)
                       .+++++|+..|++. .+.+   +..++..+-..+..    .+++++|...++..  ..+...+..+-..|..    .++
T Consensus        90 ~~~~~~~A~~~~~~a-~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~  165 (273)
T 1ouv_A           90 VSQNTNKALQYYSKA-CDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDAGRGTPKD  165 (273)
T ss_dssp             SCCCHHHHHHHHHHH-HHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCC
T ss_pred             cccCHHHHHHHHHHH-HHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCCCCCCC
Confidence             99999999999998 5544   66788888888888    89999999999988  4567788888888988    999


Q ss_pred             HHHHHHHHHhcCC-CChhhHHHHHHHHHc----CCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCChhHHH
Q 038429          170 LAMAYCVFVMIGK-KDVVSWNSMISGFVE----GGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK----KRDLEFGI  240 (258)
Q Consensus       170 ~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~g~~~~a~  240 (258)
                      +++|.+.|+...+ .+...+..+-..|..    .+++++|+..|++..+.+   +...+..+-..|.+    .+++++|.
T Consensus       166 ~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~  242 (273)
T 1ouv_A          166 LKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAI  242 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHH
Confidence            9999999987654 366778888888888    999999999999988864   26678888888888    99999999


Q ss_pred             HHHHHHHHcC
Q 038429          241 WVSSHIEKNG  250 (258)
Q Consensus       241 ~~~~~m~~~g  250 (258)
                      +.+++..+.|
T Consensus       243 ~~~~~a~~~~  252 (273)
T 1ouv_A          243 ENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHcC
Confidence            9999988776

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.36  E-value=1.3e-10  Score=93.25  Aligned_cols=207  Identities=12%  Similarity=-0.011  Sum_probs=166.5

Q ss_pred             hhHHHHHHHHHhhccCcchhhhhhhhhhhhc-------cCCCCh-------HHHHHHhccCCC----CChhhHHHHHHHH
Q 038429           37 KQLKRIHAQMLSTDFFFDPYSASKLFTPCAL-------STFSSL-------EYARKMFDQIPQ----PNLYTWNTLIRAY   98 (258)
Q Consensus        37 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-------~~~~~~-------~~a~~~~~~m~~----~~~~~~~~li~~~   98 (258)
                      ++|..+|+.++... +.++..|..+...+..       .|  ++       ++|..+|++..+    .+...|..+...+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g--~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~  109 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKG--DMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTS--CCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhcc--chhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            68888999998875 5577788887777653       47  76       899999986533    3566899999999


Q ss_pred             hcCCChhhHHHHHHHhHhcCCCCCCc-c-hHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHH-hcCCHH
Q 038429           99 SSSDEPIQSFMIFLQLVYNSPYFPNE-F-TLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYA-VCGDLA  171 (258)
Q Consensus        99 ~~~g~~~~a~~~~~~m~~~~~~~p~~-~-~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~-~~g~~~  171 (258)
                      .+.|++++|..+|++. .+  +.|+. . +|..+...+.+.|++++|..+|+..    +.+...|........ ..|+.+
T Consensus       110 ~~~~~~~~A~~~~~~a-l~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~a~~~~~~~~~~~  186 (308)
T 2ond_A          110 ESRMKYEKVHSIYNRL-LA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKS  186 (308)
T ss_dssp             HHTTCHHHHHHHHHHH-HT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHH
T ss_pred             HhcCCHHHHHHHHHHH-Hh--ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCHH
Confidence            9999999999999998 43  44553 3 7999999999999999999999998    344445544433322 369999


Q ss_pred             HHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC-CCCC--hhhHHHHHHHHhccCChhHHHHHHHH
Q 038429          172 MAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVEN-VKPD--EVTMVVVLSACAKKRDLEFGIWVSSH  245 (258)
Q Consensus       172 ~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~  245 (258)
                      +|.++|+...+  | +...|..++..+.+.|+.++|..+|++..... +.|+  ...|..++....+.|+.+.|..++++
T Consensus       187 ~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          187 VAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999998754  4 67889999999999999999999999999863 5664  45788889999999999999999999


Q ss_pred             HHHc
Q 038429          246 IEKN  249 (258)
Q Consensus       246 m~~~  249 (258)
                      +.+.
T Consensus       267 a~~~  270 (308)
T 2ond_A          267 RFTA  270 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.30  E-value=6.4e-11  Score=90.26  Aligned_cols=160  Identities=9%  Similarity=-0.107  Sum_probs=140.4

Q ss_pred             CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHH
Q 038429           86 PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLI  161 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li  161 (258)
                      ++...+..+...+.+.|++++|+..|++. .+.. +.+...+..+-.++.+.|++++|...++..    +.+...+..+-
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERA-LKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHH-HTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            46678889999999999999999999998 4332 345678889999999999999999999988    55677899999


Q ss_pred             HHHHhc-----------CCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 038429          162 HFYAVC-----------GDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVL  227 (258)
Q Consensus       162 ~~~~~~-----------g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li  227 (258)
                      ..|.+.           |++++|...|+...+  | +...|..+-..+...|++++|+..|++..+..  .+...+..+.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la  158 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHH
Confidence            999999           999999999988754  5 66788899999999999999999999999887  6788899999


Q ss_pred             HHHhccCChhHHHHHHHHHHHc
Q 038429          228 SACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ..+...|++++|...+++..+.
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~  180 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQ  180 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999998764

>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=99.28  E-value=4.4e-11  Score=98.96  Aligned_cols=213  Identities=7%  Similarity=-0.010  Sum_probs=173.9

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCC-hHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSS-LEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~-~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      .+...|+.++|...++.+++.. +-+...|+.+-.++...|  + +++|...|++..+   .+...|+.+-..+.+.|++
T Consensus       106 ~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g--~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~~  182 (382)
T 2h6f_A          106 VLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQ--KDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDP  182 (382)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcc--cCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccCH
Confidence            3445688999999999999876 446788999999999998  8 9999999998754   5778999999999999999


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHh-cCCHHHH-----H
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAV-CGDLAMA-----Y  174 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~-~g~~~~a-----~  174 (258)
                      ++|+..|++.....  +-+..+|..+-.++.+.|++++|...++..    +.+...|+.+..+|.+ .|..++|     .
T Consensus       183 ~eAl~~~~kal~ld--P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~~~~eA~~~~el  260 (382)
T 2h6f_A          183 SQELEFIADILNQD--AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLEREV  260 (382)
T ss_dssp             TTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCcchHHHHHHHH
Confidence            99999999984322  345678999999999999999999999998    6677899999999999 6665777     4


Q ss_pred             HHHHhcCC--C-ChhhHHHHHHHHHcCC--ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccC---------ChhHHH
Q 038429          175 CVFVMIGK--K-DVVSWNSMISGFVEGG--FFEKAIELYREMEVENVKPDEVTMVVVLSACAKKR---------DLEFGI  240 (258)
Q Consensus       175 ~~~~~m~~--~-~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g---------~~~~a~  240 (258)
                      +.|+...+  | +...|+.+...+...|  +.++|++.++++  ..-..+...+..+...|.+.|         .+++|.
T Consensus       261 ~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~--~~~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~  338 (382)
T 2h6f_A          261 QYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL--QPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKAL  338 (382)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH--TTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh--ccCCCCHHHHHHHHHHHHHHhcccccchHHHHHHHH
Confidence            66765543  4 6778999998898888  689999999887  222334567888999998864         358999


Q ss_pred             HHHHHH-HH
Q 038429          241 WVSSHI-EK  248 (258)
Q Consensus       241 ~~~~~m-~~  248 (258)
                      ++++++ .+
T Consensus       339 ~~~~~l~~~  347 (382)
T 2h6f_A          339 ELCEILAKE  347 (382)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            999998 44

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.26  E-value=3.6e-11  Score=94.13  Aligned_cols=207  Identities=11%  Similarity=-0.062  Sum_probs=162.6

Q ss_pred             CccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCC
Q 038429           26 HQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSD  102 (258)
Q Consensus        26 ~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g  102 (258)
                      +...+...|++++|...+..+.+.. +.+..++..+...+...|  ++++|...|++..+   .+..+|..+...+.+.|
T Consensus        49 l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~--~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g  125 (275)
T 1xnf_A           49 RGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAG--NFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGG  125 (275)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHcc--CHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhc
Confidence            3346677899999999999999876 446889999999999999  99999999987753   46788999999999999


Q ss_pred             ChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHH
Q 038429          103 EPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFV  178 (258)
Q Consensus       103 ~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~  178 (258)
                      ++++|...|+++..   ..|+.......+..+...|++++|...+...    +++...+ .+...+...++.++|.+.+.
T Consensus       126 ~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~  201 (275)
T 1xnf_A          126 RDKLAQDDLLAFYQ---DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGW-NIVEFYLGNISEQTLMERLK  201 (275)
T ss_dssp             CHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHH-HHHHHHTTSSCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCcchHHH-HHHHHHHHhcCHHHHHHHHH
Confidence            99999999999843   2355555555666667779999999999766    4444444 47778888899999999999


Q ss_pred             hcCCCC-------hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHH
Q 038429          179 MIGKKD-------VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVS  243 (258)
Q Consensus       179 ~m~~~~-------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~  243 (258)
                      ...+.+       ...|..+...|...|++++|...|++....  .|+.  +.....++...|++++|.+-+
T Consensus       202 ~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          202 ADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            887632       478889999999999999999999998875  3533  223355667778888887665

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.26  E-value=3e-11  Score=102.91  Aligned_cols=202  Identities=9%  Similarity=-0.041  Sum_probs=167.3

Q ss_pred             hhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCCh-HHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHH
Q 038429           36 QKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSL-EYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIF  111 (258)
Q Consensus        36 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~-~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~  111 (258)
                      ++.+.+.+....... ..+...+..+-..+...|  ++ ++|...|++..+   .+..+|..+...|.+.|++++|+..|
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g--~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTP--DYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSS--SCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhcc--ccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            445555555544433 346778888889999999  99 999999987643   46789999999999999999999999


Q ss_pred             HHhHhcCCCCCCcchHHHHHHHhcCc---------CCcchhhhhhhcc----cCchhHHHHHHHHHHhc--------CCH
Q 038429          112 LQLVYNSPYFPNEFTLPFVIKAAARP---------VQFRVGQAIHGMF----EDDLVISNSLIHFYAVC--------GDL  170 (258)
Q Consensus       112 ~~m~~~~~~~p~~~~~~~ll~~~~~~---------~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~--------g~~  170 (258)
                      ++. .+.  .|+..++..+...+...         |++++|...++..    +.+...|..+..+|...        |++
T Consensus       161 ~~a-l~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          161 SGA-LTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHH-HTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHH-Hhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            998 443  37778889999999999         9999999999988    66678999999999999        999


Q ss_pred             HHHHHHHHhcCC--C----ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHHHHH
Q 038429          171 AMAYCVFVMIGK--K----DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGIWVS  243 (258)
Q Consensus       171 ~~a~~~~~~m~~--~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~~~  243 (258)
                      ++|.+.|+...+  |    +...|..+-..|...|++++|...|++..+.  .| +...+..+...+...|++++|.+.+
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL--DPAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999987753  4    6778999999999999999999999998875  34 4556888888899999999988755


Q ss_pred             HH
Q 038429          244 SH  245 (258)
Q Consensus       244 ~~  245 (258)
                      ..
T Consensus       316 ~~  317 (474)
T 4abn_A          316 GK  317 (474)
T ss_dssp             TT
T ss_pred             cc
Confidence            43

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.26  E-value=3.4e-10  Score=83.53  Aligned_cols=160  Identities=9%  Similarity=-0.133  Sum_probs=101.3

Q ss_pred             ChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHH
Q 038429           87 NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIH  162 (258)
Q Consensus        87 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~  162 (258)
                      ++..|..+-..|.+.|++++|+..|++..+..  +-+..++..+..++.+.|+++.|...+...    +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD--PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHH
Confidence            34456666666666666666666666552221  123445555566666666666666555555    344556666667


Q ss_pred             HHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHH
Q 038429          163 FYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFG  239 (258)
Q Consensus       163 ~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a  239 (258)
                      .+...++++.|.+.+....+  | +...+..+-..|...|++++|+..|++..+.. +-+...|..+...+.+.|++++|
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHH
Confidence            77777777777777765542  2 55667777777777777888877777776642 22455677777777777888888


Q ss_pred             HHHHHHHHHc
Q 038429          240 IWVSSHIEKN  249 (258)
Q Consensus       240 ~~~~~~m~~~  249 (258)
                      .+.|++..+.
T Consensus       161 ~~~~~~al~~  170 (184)
T 3vtx_A          161 VKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhC
Confidence            8777776653

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.25  E-value=3.8e-10  Score=88.24  Aligned_cols=190  Identities=9%  Similarity=-0.007  Sum_probs=150.9

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCc--chHHH
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNE--FTLPF  129 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~--~~~~~  129 (258)
                      +..+-.....+...|  ++++|...|++..+   .+...|..+...+.+.|++++|+..|++. .+.+-.|+.  .+|..
T Consensus         3 ~~~~~~~a~~~~~~~--~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a-~~~~~~~~~~~~~~~~   79 (272)
T 3u4t_A            3 DDVEFRYADFLFKNN--NYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETY-FSKVNATKAKSADFEY   79 (272)
T ss_dssp             --CHHHHHHHHHTTT--CHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHH-HTTSCTTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhc--CHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHH-HhccCchhHHHHHHHH
Confidence            344556667788888  99999999987643   45668999999999999999999999999 443322222  23889


Q ss_pred             HHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChH
Q 038429          130 VIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFE  202 (258)
Q Consensus       130 ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~  202 (258)
                      +...+...|++++|...++..    +.+...|..+...|...|++++|.+.|++..+  | +...|..+...+...++++
T Consensus        80 lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           80 YGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999988    56678999999999999999999999998875  4 5566766662444456999


Q ss_pred             HHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccCC---hhHHHHHHHHHHHc
Q 038429          203 KAIELYREMEVENVKPD-EVTMVVVLSACAKKRD---LEFGIWVSSHIEKN  249 (258)
Q Consensus       203 ~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g~---~~~a~~~~~~m~~~  249 (258)
                      +|...|++..+.  .|+ ...+..+...+...|+   .++|...+++..+.
T Consensus       160 ~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          160 KADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             HHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence            999999998875  344 5677778888888888   88899888887643

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.22  E-value=4e-11  Score=95.48  Aligned_cols=219  Identities=11%  Similarity=-0.021  Sum_probs=114.3

Q ss_pred             ccCcccccchhhHHHHHHHHHhh-------ccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-----------CCh
Q 038429           27 QRHPHFLTNQKQLKRIHAQMLST-------DFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----------PNL   88 (258)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----------~~~   88 (258)
                      ...+...|++++|..++..+.+.       .......++..+...+...|  ++++|...+++..+           ...
T Consensus        34 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~  111 (311)
T 3nf1_A           34 VIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQN--KYKDAANLLNDALAIREKTLGKDHPAVA  111 (311)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHHhCCCChHHH
Confidence            33555566666666666666653       22233445566666666666  66666666654421           123


Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcC-----CCCC-CcchHHHHHHHhcCcCCcchhhhhhhcc------------
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNS-----PYFP-NEFTLPFVIKAAARPVQFRVGQAIHGMF------------  150 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~------------  150 (258)
                      .+|..+...+...|++++|...|++.....     +-.| ...++..+...+...|++++|...++..            
T Consensus       112 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~  191 (311)
T 3nf1_A          112 ATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDD  191 (311)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTC
T ss_pred             HHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            456666666666666666666666652211     1111 2334555556666666666666555555            


Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----------C-------ChhhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-----------K-------DVVSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----------~-------~~~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      +....++..+...|.+.|++++|.+.|++..+           +       ....+..+...+...+.+.++...++...
T Consensus       192 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  271 (311)
T 3nf1_A          192 PNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACK  271 (311)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-------
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcC
Confidence            00123455556666666666666666655432           0       01112222222233333444444444333


Q ss_pred             HcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          213 VENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       213 ~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      .. -..+..++..+...|.+.|++++|.+++++..+
T Consensus       272 ~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          272 VD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            22 112346788999999999999999999998765

>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=99.21  E-value=4.1e-10  Score=82.40  Aligned_cols=159  Identities=9%  Similarity=0.001  Sum_probs=110.9

Q ss_pred             hhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHH
Q 038429           56 YSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIK  132 (258)
Q Consensus        56 ~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~  132 (258)
                      ..+..+...+...|  ++++|...|++..+   .+..++..+...+...|++++|...++......              
T Consensus         9 ~~~~~~~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--------------   72 (186)
T 3as5_A            9 VYYRDKGISHAKAG--RYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA--------------   72 (186)
T ss_dssp             HHHHHHHHHHHHHT--CHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHhc--CHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--------------
Confidence            34555666666667  77777777776654   345666677777777777777777777662211              


Q ss_pred             HhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHH
Q 038429          133 AAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYR  209 (258)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~  209 (258)
                                        +.+...+..+...|...|++++|.+.|+...+   .+...+..+...+...|++++|..+++
T Consensus        73 ------------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~  134 (186)
T 3as5_A           73 ------------------PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFK  134 (186)
T ss_dssp             ------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ------------------CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence                              22345566677777778888888888876543   356677777788888888888888888


Q ss_pred             HHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          210 EMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       210 ~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +..+.. +.+...+..+...+...|++++|...+++..+.
T Consensus       135 ~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          135 IALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            877653 234567788888888888888888888877653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.19  E-value=2.8e-10  Score=83.96  Aligned_cols=162  Identities=9%  Similarity=-0.017  Sum_probs=135.7

Q ss_pred             cchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHH
Q 038429           53 FDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPF  129 (258)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~  129 (258)
                      -++.+|..+-..+.+.|  ++++|...|++..+   .+..+|..+...|.+.|++++|+..+... .... +-+...+..
T Consensus         3 e~~~iy~~lG~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~-~~~~-~~~~~~~~~   78 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKG--DFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKF-VVLD-TTSAEAYYI   78 (184)
T ss_dssp             -CHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHHC-CCCHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH-HhcC-chhHHHHHH
Confidence            36778999999999999  99999999987643   57788999999999999999999999888 3322 234556777


Q ss_pred             HHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChH
Q 038429          130 VIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFE  202 (258)
Q Consensus       130 ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~  202 (258)
                      +...+...++++.+...+...    +.+...+..+-..|.+.|++++|.+.|++..+  | +...|..+-..|.+.|+++
T Consensus        79 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           79 LGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHH
Confidence            778888899999999888887    66678899999999999999999999987754  4 6778999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCh
Q 038429          203 KAIELYREMEVENVKPDE  220 (258)
Q Consensus       203 ~a~~~~~~m~~~~~~p~~  220 (258)
                      +|+..|++..+.  .|+.
T Consensus       159 ~A~~~~~~al~~--~p~~  174 (184)
T 3vtx_A          159 EAVKYFKKALEK--EEKK  174 (184)
T ss_dssp             HHHHHHHHHHHT--THHH
T ss_pred             HHHHHHHHHHhC--CccC
Confidence            999999998764  3543

>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=99.18  E-value=1e-09  Score=80.26  Aligned_cols=151  Identities=12%  Similarity=0.073  Sum_probs=112.9

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|++++|...++.+.+.. +.+...+..+...+...|  ++++|...+++..+   .+...|..+...+...|+++
T Consensus        17 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~   93 (186)
T 3as5_A           17 SHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTG--AVDRGTELLERSLADAPDNVKVATVLGLTYVQVQKYD   93 (186)
T ss_dssp             HHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcC--CHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHH
Confidence            4566789999999999888765 446788899999999999  99999999987643   56788999999999999999


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---  182 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---  182 (258)
                      +|...+++.....   |                             .+...+..+...|.+.|++++|.+.|+...+   
T Consensus        94 ~A~~~~~~~~~~~---~-----------------------------~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~  141 (186)
T 3as5_A           94 LAVPLLIKVAEAN---P-----------------------------INFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP  141 (186)
T ss_dssp             HHHHHHHHHHHHC---T-----------------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHhcC---c-----------------------------HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc
Confidence            9999999883321   1                             1233455566666677777777777765532   


Q ss_pred             CChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          183 KDVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      .+...+..+...+...|++++|...+++..+.
T Consensus       142 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          142 NEGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            24566777777777777777777777776543

>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=99.18  E-value=1.8e-09  Score=84.76  Aligned_cols=188  Identities=11%  Similarity=-0.052  Sum_probs=159.7

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCCC-CChhhHHHHHHHHhc----CCChhhHHHHHHHhHhcCCCCCCcchHH
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-PNLYTWNTLIRAYSS----SDEPIQSFMIFLQLVYNSPYFPNEFTLP  128 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~p~~~~~~  128 (258)
                      ++..+..+-..+...+  ++++|...|++..+ .+..++..+...|..    .+++++|+..|++. .+.+   +..++.
T Consensus         5 ~~~a~~~lg~~~~~~~--~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a-~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEK--DFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKA-CDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH-HHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHH-HHCC---CHHHHH
Confidence            4566777888888889  99999999987654 466788899999999    99999999999998 5554   667888


Q ss_pred             HHHHHhcC----cCCcchhhhhhhcc--cCchhHHHHHHHHHHh----cCCHHHHHHHHHhcCCC-ChhhHHHHHHHHHc
Q 038429          129 FVIKAAAR----PVQFRVGQAIHGMF--EDDLVISNSLIHFYAV----CGDLAMAYCVFVMIGKK-DVVSWNSMISGFVE  197 (258)
Q Consensus       129 ~ll~~~~~----~~~~~~a~~~~~~~--~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~-~~~~~~~li~~~~~  197 (258)
                      .+-..+..    .+++++|...++..  ..+...+..+-..|.+    .|++++|.+.|++..+. +...+..+-..|..
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~  158 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDA  158 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcCcHHHHHHHHHHHHc
Confidence            88888888    99999999999988  5577889999999999    99999999999876543 66677788788887


Q ss_pred             ----CCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCChhHHHHHHHHHHHcC
Q 038429          198 ----GGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK----KRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       198 ----~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g  250 (258)
                          .+++++|...|++..+.+   +...+..+-..|..    .+++++|...+++..+.+
T Consensus       159 ~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~  216 (273)
T 1ouv_A          159 GRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE  216 (273)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT
T ss_pred             CCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC
Confidence                899999999999988764   46778888888888    999999999999988765

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.14  E-value=9.7e-10  Score=84.93  Aligned_cols=186  Identities=8%  Similarity=-0.075  Sum_probs=151.4

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcC-CCCCC----cchH
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNS-PYFPN----EFTL  127 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~p~----~~~~  127 (258)
                      ...+..+...+...|  ++++|...|++..+  .+..+|..+...+...|++++|+..|+...... ...|+    ..++
T Consensus         5 a~~~~~~g~~~~~~~--~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKAR--QFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc--cHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            456778888889999  99999999876532  678889999999999999999999998873321 11122    4678


Q ss_pred             HHHHHHhcCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCCh
Q 038429          128 PFVIKAAARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFF  201 (258)
Q Consensus       128 ~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~  201 (258)
                      ..+...+...|++++|...++..   .|+.       ..+.+.|++++|.+.++...+  | +...|..+...+...|++
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEHRTA-------DILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDW  155 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCchh-------HHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCH
Confidence            88899999999999999999888   4542       456777889999999988754  2 556788899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          202 EKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       202 ~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      ++|...+++..+.. +.+...+..+...+.+.|++++|...+++..+..
T Consensus       156 ~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  203 (258)
T 3uq3_A          156 PNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD  203 (258)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            99999999998753 2357789999999999999999999999987653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.12  E-value=2e-10  Score=92.07  Aligned_cols=218  Identities=9%  Similarity=-0.101  Sum_probs=160.3

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcc---hhhhhhhhhhhhccCCCChHHHHHHhccCCC---------CChhhHHHHHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFD---PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---------PNLYTWNTLIR   96 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~li~   96 (258)
                      .+...|++++|..+++.+.+......   ...+..+...+...|  ++++|...+++..+         ....++..+..
T Consensus        14 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~   91 (338)
T 3ro2_A           14 RLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLH--DYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   91 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHH
Confidence            44567899999999999988742211   356788888899999  99999998876532         23567888899


Q ss_pred             HHhcCCChhhHHHHHHHhHhcCCCCCC----cchHHHHHHHhcCcCC--------------------cchhhhhhhcc--
Q 038429           97 AYSSSDEPIQSFMIFLQLVYNSPYFPN----EFTLPFVIKAAARPVQ--------------------FRVGQAIHGMF--  150 (258)
Q Consensus        97 ~~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~--  150 (258)
                      .+...|++++|...+++......-.++    ..++..+...+...|+                    ++.|...++..  
T Consensus        92 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~  171 (338)
T 3ro2_A           92 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLS  171 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            999999999999999886322111122    3367788888888888                    88887777665  


Q ss_pred             --------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          151 --------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-----KD----VVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       151 --------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                              ......+..+...|...|++++|.+.+++..+     ++    ..++..+...+...|++++|...+++...
T Consensus       172 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  251 (338)
T 3ro2_A          172 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  251 (338)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                    11234778888888999999999999887653     11    23777888888899999999998887754


Q ss_pred             cCC-CCC----hhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          214 ENV-KPD----EVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       214 ~~~-~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      ..- .++    ..++..+...+...|++++|...+++..+
T Consensus       252 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  291 (338)
T 3ro2_A          252 LARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  291 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            310 011    45677788888889999999998887653

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.10  E-value=2.9e-10  Score=93.86  Aligned_cols=218  Identities=9%  Similarity=-0.106  Sum_probs=163.9

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcc---hhhhhhhhhhhhccCCCChHHHHHHhccCCC---------CChhhHHHHHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFD---PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---------PNLYTWNTLIR   96 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~li~   96 (258)
                      .+...|++++|...++.+.+.+....   ..++..+...+...|  ++++|...+++...         ....++..+..
T Consensus        18 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~   95 (406)
T 3sf4_A           18 RLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLH--DYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   95 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhc--CHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            55667899999999999988743211   356888888999999  99999998876532         23567888999


Q ss_pred             HHhcCCChhhHHHHHHHhHhcCCCCCC----cchHHHHHHHhcCcCC--------------------cchhhhhhhcc--
Q 038429           97 AYSSSDEPIQSFMIFLQLVYNSPYFPN----EFTLPFVIKAAARPVQ--------------------FRVGQAIHGMF--  150 (258)
Q Consensus        97 ~~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~--  150 (258)
                      .+...|++++|+..+++......-.++    ..++..+...+...|+                    ++.|...+...  
T Consensus        96 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  175 (406)
T 3sf4_A           96 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLS  175 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            999999999999999876322111112    3467888888888999                    88888777765  


Q ss_pred             --------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          151 --------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-----KD----VVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       151 --------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                              +....++..+...|...|++++|.+.|++..+     ++    ..+|..+...|...|++++|...+++...
T Consensus       176 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  255 (406)
T 3sf4_A          176 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  255 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence                    11234788888999999999999999887653     22    23788888899999999999999988764


Q ss_pred             c----CCCCC-hhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          214 E----NVKPD-EVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       214 ~----~~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      .    +-.+. ..++..+...+...|++++|...+++..+
T Consensus       256 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  295 (406)
T 3sf4_A          256 LARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  295 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            3    11111 45678888889999999999999987754

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.10  E-value=6.8e-11  Score=94.12  Aligned_cols=158  Identities=13%  Similarity=0.056  Sum_probs=112.6

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCCC-----------CChhhHHHHHHHHhcCCChhhHHHHHHHhHhc-----
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----------PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYN-----  117 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----  117 (258)
                      +..++..+...+...|  ++++|..+|++..+           ....++..+...|...|++++|...+++....     
T Consensus        26 ~~~~~~~l~~~~~~~g--~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQG--RYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             HHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            4556777777888888  88888888876543           23456778888888888888888888777332     


Q ss_pred             -CCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---c--------C-chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--
Q 038429          118 -SPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---E--------D-DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--  182 (258)
Q Consensus       118 -~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~--------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--  182 (258)
                       ...+....++..+...+...|++++|...++..   .        | ....+..+...|.+.|++++|.+.|+...+  
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             112223456778888888888888888877776   0        2 234677778888888888888888876532  


Q ss_pred             --------C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          183 --------K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       183 --------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                              | ...++..+...|...|++++|...+++..+
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                    1 234677778888888888888888887764

>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=99.09  E-value=2e-09  Score=95.99  Aligned_cols=155  Identities=9%  Similarity=-0.085  Sum_probs=95.3

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHH
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFY  164 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~  164 (258)
                      .+|+.|-..|.+.|++++|+..|++..+..  +-+..+|..+-.+|.+.|++++|...++..    +.+...|+.+-.+|
T Consensus        10 ~al~nLG~~~~~~G~~~eAi~~~~kAl~l~--P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~~l   87 (723)
T 4gyw_A           10 DSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTL   87 (723)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            445555555555555555555555542211  112345555555555555555555555554    33455677777777


Q ss_pred             HhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccCChhHHH
Q 038429          165 AVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-EVTMVVVLSACAKKRDLEFGI  240 (258)
Q Consensus       165 ~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g~~~~a~  240 (258)
                      .+.|++++|.+.|++..+  | +...|+.+-..|...|++++|+..|++..+.  .|+ ...+..+...+...|++++|.
T Consensus        88 ~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           88 KEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHHH
Confidence            777777777777765532  3 5566777777777777777777777776653  343 456677777777777777777


Q ss_pred             HHHHHHH
Q 038429          241 WVSSHIE  247 (258)
Q Consensus       241 ~~~~~m~  247 (258)
                      +.+++..
T Consensus       166 ~~~~kal  172 (723)
T 4gyw_A          166 ERMKKLV  172 (723)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7766654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.08  E-value=1.7e-10  Score=95.79  Aligned_cols=217  Identities=9%  Similarity=-0.091  Sum_probs=167.6

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcch----hhhhhhhhhhhccCCCChHHHHHHhccCCC---------CChhhHHHHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDP----YSASKLFTPCALSTFSSLEYARKMFDQIPQ---------PNLYTWNTLI   95 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~li   95 (258)
                      .+...|++++|...++.+.+.+.. +.    ..+..+...+...|  ++++|...+++..+         ....++..+.
T Consensus        57 ~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  133 (411)
T 4a1s_A           57 RLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLG--DYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLG  133 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHccCchHHHHHHHHHH
Confidence            556778999999999999987533 33    47888889999999  99999998876542         3456788999


Q ss_pred             HHHhcCCChhhHHHHHHHhHhc---CCC-CCCcchHHHHHHHhcCcCC-----------------cchhhhhhhcc----
Q 038429           96 RAYSSSDEPIQSFMIFLQLVYN---SPY-FPNEFTLPFVIKAAARPVQ-----------------FRVGQAIHGMF----  150 (258)
Q Consensus        96 ~~~~~~g~~~~a~~~~~~m~~~---~~~-~p~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~~----  150 (258)
                      ..|...|++++|+..|++....   .+- +....++..+...+...|+                 ++.|...++..    
T Consensus       134 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~  213 (411)
T 4a1s_A          134 NTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLM  213 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            9999999999999999886322   111 1224467888888999999                 88888877765    


Q ss_pred             ------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHcC
Q 038429          151 ------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-----KD----VVSWNSMISGFVEGGFFEKAIELYREMEVEN  215 (258)
Q Consensus       151 ------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  215 (258)
                            .....++..+...|...|++++|.+.|++..+     ++    ...+..+...|...|++++|...+++.....
T Consensus       214 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  293 (411)
T 4a1s_A          214 RDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALA  293 (411)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence                  12234788888999999999999999987654     12    2378888899999999999999998876531


Q ss_pred             --CC---CChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          216 --VK---PDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       216 --~~---p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                        ..   ....++..+...+...|++++|...+++..+
T Consensus       294 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  331 (411)
T 4a1s_A          294 VELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLA  331 (411)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              11   1145678888899999999999999987754

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.08  E-value=6.9e-10  Score=86.81  Aligned_cols=215  Identities=10%  Similarity=-0.068  Sum_probs=146.5

Q ss_pred             cccchhhHHHHHHHHHhh-------ccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-----------CChhhHHH
Q 038429           32 FLTNQKQLKRIHAQMLST-------DFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----------PNLYTWNT   93 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~-------~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----------~~~~~~~~   93 (258)
                      ..|+++.|..++++..+.       ..+....++..+...+...|  ++++|...+++..+           ....+|..
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQN--KYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcc--cHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            356777777777766653       22334667889999999999  99999999876542           24567999


Q ss_pred             HHHHHhcCCChhhHHHHHHHhHhcC-----C-CCCCcchHHHHHHHhcCcCCcchhhhhhhcc------------cCchh
Q 038429           94 LIRAYSSSDEPIQSFMIFLQLVYNS-----P-YFPNEFTLPFVIKAAARPVQFRVGQAIHGMF------------EDDLV  155 (258)
Q Consensus        94 li~~~~~~g~~~~a~~~~~~m~~~~-----~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~------------~~~~~  155 (258)
                      +...|...|++++|+..|++.....     . .+....++..+...+...|++++|...++..            +....
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            9999999999999999999873321     1 1223567888888999999999998888777            11245


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC-----------C-ChhhHHHHHHHHHcCCChHHHHHHHHHHH---HcC-CCC-
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK-----------K-DVVSWNSMISGFVEGGFFEKAIELYREME---VEN-VKP-  218 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~-----------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~---~~~-~~p-  218 (258)
                      ++..+...|.+.|++++|.+.|++..+           + ....|..+...+...+....+..+.....   ..+ ..| 
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPT  250 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHH
Confidence            788888999999999999999976642           2 22334333333333333332222211111   111 112 


Q ss_pred             ChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          219 DEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       219 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      ...++..+...|...|++++|..++++..+
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            235688899999999999999999998765

>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=99.04  E-value=2.8e-09  Score=88.12  Aligned_cols=186  Identities=9%  Similarity=-0.073  Sum_probs=155.5

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCC-hhhHHHHHHHhHhcCCCCCCcchHHHH
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDE-PIQSFMIFLQLVYNSPYFPNEFTLPFV  130 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~p~~~~~~~l  130 (258)
                      ...|..+-.++.+.|  ++++|...+++..+   .+..+|+.+...+...|+ +++|+..|++... .+ +-+...|..+
T Consensus        97 ~~a~~~lg~~~~~~g--~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~-l~-P~~~~a~~~~  172 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDE--RSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIE-EQ-PKNYQVWHHR  172 (382)
T ss_dssp             HHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH-HC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHCC--ChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHH-HC-CCCHHHHHHH
Confidence            346777888888888  99999999997753   567889999999999997 9999999999843 22 2356789999


Q ss_pred             HHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHc-CCChH
Q 038429          131 IKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVE-GGFFE  202 (258)
Q Consensus       131 l~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~-~g~~~  202 (258)
                      -.++...|++++|...++..    +.+...|..+-.++.+.|++++|+..|+++.+  | +...|+.+-..+.. .|..+
T Consensus       173 g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          173 RVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCcch
Confidence            99999999999999999998    66788999999999999999999999998864  4 77899999999998 66657


Q ss_pred             HH-----HHHHHHHHHcCCCCC-hhhHHHHHHHHhccC--ChhHHHHHHHHH
Q 038429          203 KA-----IELYREMEVENVKPD-EVTMVVVLSACAKKR--DLEFGIWVSSHI  246 (258)
Q Consensus       203 ~a-----~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g--~~~~a~~~~~~m  246 (258)
                      +|     +..|++....  .|+ ...|..+...+.+.|  ++++|.+.+.++
T Consensus       253 eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~  302 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL  302 (382)
T ss_dssp             HHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh
Confidence            77     4778877764  454 567888888888888  689999988877

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.04  E-value=4.1e-09  Score=84.46  Aligned_cols=174  Identities=8%  Similarity=-0.021  Sum_probs=140.4

Q ss_pred             hhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-Chh-hHHHHHHHHhcCCChhhHHHHHH
Q 038429           37 KQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-NLY-TWNTLIRAYSSSDEPIQSFMIFL  112 (258)
Q Consensus        37 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~~~-~~~~li~~~~~~g~~~~a~~~~~  112 (258)
                      ++|..+|+..++.-.+-+...|..+...+.+.|  ++++|..+|++..+  | +.. .|..+...+.+.|++++|..+|+
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~--~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  158 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRM--KYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            899999999988422445678999999999999  99999999997754  4 343 89999999999999999999999


Q ss_pred             HhHhcCCCCCCcchHHHHHHH-hcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----
Q 038429          113 QLVYNSPYFPNEFTLPFVIKA-AARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-----  182 (258)
Q Consensus       113 ~m~~~~~~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----  182 (258)
                      +. .+.+ +++...|...... +...|+++.|..+|+..    +.+...|..++..+.+.|++++|..+|++..+     
T Consensus       159 ~a-~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~  236 (308)
T 2ond_A          159 KA-REDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HH-HTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HH-HhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCC
Confidence            98 4432 2334444433322 22369999999999988    66778999999999999999999999987754     


Q ss_pred             C--ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          183 K--DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       183 ~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      |  ....|..++..+...|+.++|..+++++.+.
T Consensus       237 p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            2  3457889999999999999999999998875

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.02  E-value=1.6e-08  Score=87.11  Aligned_cols=207  Identities=13%  Similarity=0.001  Sum_probs=161.3

Q ss_pred             hhHHHHHHHHHhhccCcchhhhhhhhhhhhc-------cCCCChH-------HHHHHhccCCC---C-ChhhHHHHHHHH
Q 038429           37 KQLKRIHAQMLSTDFFFDPYSASKLFTPCAL-------STFSSLE-------YARKMFDQIPQ---P-NLYTWNTLIRAY   98 (258)
Q Consensus        37 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-------~~~~~~~-------~a~~~~~~m~~---~-~~~~~~~li~~~   98 (258)
                      +++..+|+..+... +.++..|......+.+       .|  +++       +|..+|++..+   | +...|..++..+
T Consensus       255 ~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g--~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~  331 (530)
T 2ooe_A          255 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKG--DMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  331 (530)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTT--CCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhcc--chhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            36677888888764 4567788888887775       67  877       89999987653   3 578899999999


Q ss_pred             hcCCChhhHHHHHHHhHhcCCCCCCc--chHHHHHHHhcCcCCcchhhhhhhcc---cCc-hhHHHHHHH-HHHhcCCHH
Q 038429           99 SSSDEPIQSFMIFLQLVYNSPYFPNE--FTLPFVIKAAARPVQFRVGQAIHGMF---EDD-LVISNSLIH-FYAVCGDLA  171 (258)
Q Consensus        99 ~~~g~~~~a~~~~~~m~~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~-~~~~~~li~-~~~~~g~~~  171 (258)
                      .+.|++++|..+|++. .+  +.|+.  ..|......+.+.|+++.|..+|+..   +|+ ...|..... .+...|+.+
T Consensus       332 ~~~g~~~~A~~~~~~a-l~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~  408 (530)
T 2ooe_A          332 ESRMKYEKVHSIYNRL-LA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKS  408 (530)
T ss_dssp             HHTTCHHHHHHHHHHH-HH--SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHHTCCHH
T ss_pred             HhcCCHHHHHHHHHHH-hC--ccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHcCChh
Confidence            9999999999999998 44  34543  47888888888999999999999988   332 233322222 234689999


Q ss_pred             HHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC-CCCC--hhhHHHHHHHHhccCChhHHHHHHHH
Q 038429          172 MAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVEN-VKPD--EVTMVVVLSACAKKRDLEFGIWVSSH  245 (258)
Q Consensus       172 ~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~  245 (258)
                      +|..+|+...+  | +...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+....+.|+.+.+..+.++
T Consensus       409 ~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r  488 (530)
T 2ooe_A          409 VAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  488 (530)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999997654  4 67889999999999999999999999998863 2332  33687888888889999999999998


Q ss_pred             HHHc
Q 038429          246 IEKN  249 (258)
Q Consensus       246 m~~~  249 (258)
                      +.+.
T Consensus       489 ~~~~  492 (530)
T 2ooe_A          489 RFTA  492 (530)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8653

>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=99.02  E-value=1.4e-09  Score=96.84  Aligned_cols=156  Identities=8%  Similarity=-0.059  Sum_probs=134.8

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHH
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFV  130 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l  130 (258)
                      +...++.|-.++.+.|  ++++|...|++..+   .+..+|+.+...|.+.|++++|+..|++..+..  +-+..+|..+
T Consensus         8 ~a~al~nLG~~~~~~G--~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~--P~~~~a~~nL   83 (723)
T 4gyw_A            8 HADSLNNLANIKREQG--NIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS--PTFADAYSNM   83 (723)
T ss_dssp             HHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            4668999999999999  99999999987653   467889999999999999999999999884322  2246789999


Q ss_pred             HHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHH
Q 038429          131 IKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEK  203 (258)
Q Consensus       131 l~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~  203 (258)
                      -.++.+.|++++|...++..    +.+...|+.+-..|.+.|++++|++.|++..+  | +...|..+...+...|++++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHH
Confidence            99999999999999999988    55678999999999999999999999987654  4 67789999999999999999


Q ss_pred             HHHHHHHHHH
Q 038429          204 AIELYREMEV  213 (258)
Q Consensus       204 a~~~~~~m~~  213 (258)
                      |.+.+++..+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9998887654

>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=98.99  E-value=1.2e-09  Score=85.40  Aligned_cols=185  Identities=9%  Similarity=-0.084  Sum_probs=129.4

Q ss_pred             ccCcccccchhhHHHHHHHHHhhc------c-CcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-----------CCh
Q 038429           27 QRHPHFLTNQKQLKRIHAQMLSTD------F-FFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----------PNL   88 (258)
Q Consensus        27 ~~~~~~~~~~~~a~~~~~~m~~~~------~-~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----------~~~   88 (258)
                      ...+...|++++|...+..+.+..      - .....++..+...|...|  ++++|...|++..+           ...
T Consensus        50 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~  127 (283)
T 3edt_B           50 ALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRG--KYKEAEPLCKRALEIREKVLGKFHPDVA  127 (283)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTT--CHHHHHHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhc--cHHHHHHHHHHHHHHHHHHcCCCChHHH
Confidence            346677899999999999988652      1 234557889999999999  99999999886642           235


Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhc----C-CCCC-CcchHHHHHHHhcCcCCcchhhhhhhcc------------
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYN----S-PYFP-NEFTLPFVIKAAARPVQFRVGQAIHGMF------------  150 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~------------  150 (258)
                      .+|..+...+...|++++|+..|++....    . +-.| ...++..+...+...|++++|...++..            
T Consensus       128 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~  207 (283)
T 3edt_B          128 KQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSV  207 (283)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCc
Confidence            67899999999999999999999988432    0 1122 3457888999999999999999998877            


Q ss_pred             c-CchhHHHHHHHHHHhcC------CHHHHHHHHHhcCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          151 E-DDLVISNSLIHFYAVCG------DLAMAYCVFVMIGKK---DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       151 ~-~~~~~~~~li~~~~~~g------~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      . .....|..+...+...+      .+..+...+......   ...++..+...|...|++++|..+|++..+
T Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          208 NGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             CSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             chhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1 12223333333333322      244444555544432   345788899999999999999999988764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.99  E-value=1.2e-09  Score=90.05  Aligned_cols=219  Identities=11%  Similarity=-0.017  Sum_probs=168.4

Q ss_pred             cCcccccchhhHHHHHHHHHhh----ccC-cchhhhhhhhhhhhccCCCChHHHHHHhccCCC-----CC----hhhHHH
Q 038429           28 RHPHFLTNQKQLKRIHAQMLST----DFF-FDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----PN----LYTWNT   93 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~   93 (258)
                      ..+...|+++.|...+......    +-. ....++..+...+...|  ++++|...+++..+     ++    ..++..
T Consensus        55 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  132 (406)
T 3sf4_A           55 NAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLG--NFDEAIVCCQRHLDISRELNDKVGEARALYN  132 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHhcccccchHHHHHH
Confidence            3566778999999999987654    211 22456788888999999  99999999887653     22    457889


Q ss_pred             HHHHHhcCCC--------------------hhhHHHHHHHhHh---cCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhc
Q 038429           94 LIRAYSSSDE--------------------PIQSFMIFLQLVY---NSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGM  149 (258)
Q Consensus        94 li~~~~~~g~--------------------~~~a~~~~~~m~~---~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~  149 (258)
                      +...+...|+                    +++|+..+++...   ..+-.|. ..++..+...+...|++++|...++.
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                    9999999887622   2221222 34678888899999999999999888


Q ss_pred             c------cCc----hhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----CC----hhhHHHHHHHHHcCCChHHHHHHHHH
Q 038429          150 F------EDD----LVISNSLIHFYAVCGDLAMAYCVFVMIGK-----KD----VVSWNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       150 ~------~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      .      .++    ..++..+...|...|++++|...+++..+     ++    ..++..+...|...|++++|...+++
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            7      122    23788899999999999999999987653     11    45788889999999999999999988


Q ss_pred             HHHc----CCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          211 MEVE----NVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       211 m~~~----~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      ..+.    +-.+ ...++..+...+...|++++|.+.+++..+
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            7653    1111 145788888999999999999999998653

>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=98.97  E-value=1.1e-08  Score=70.50  Aligned_cols=127  Identities=15%  Similarity=0.146  Sum_probs=92.5

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCC
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGD  169 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~  169 (258)
                      +|..+...+...|++++|..+|+++ .+.+                               +.+...+..+...+...|+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~-~~~~-------------------------------~~~~~~~~~~a~~~~~~~~   50 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKA-LELD-------------------------------PRSAEAWYNLGNAYYKQGD   50 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHH-HHHC-------------------------------TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHH-HHcC-------------------------------CcchhHHHHHHHHHHHhcC
Confidence            4666777777777777777777776 2211                               1234456667777778888


Q ss_pred             HHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHH
Q 038429          170 LAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       170 ~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      +++|.+.|+.+.+   .+...+..+...+...|++++|..+++++.... +.+...+..+...+.+.|++++|...++++
T Consensus        51 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  129 (136)
T 2fo7_A           51 YDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKA  129 (136)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHH
Confidence            8888888876643   355677788888888888888888888887653 235667788888888899999999988888


Q ss_pred             HHc
Q 038429          247 EKN  249 (258)
Q Consensus       247 ~~~  249 (258)
                      .+.
T Consensus       130 ~~~  132 (136)
T 2fo7_A          130 LEL  132 (136)
T ss_dssp             HHH
T ss_pred             Hcc
Confidence            764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.97  E-value=9.8e-10  Score=87.93  Aligned_cols=220  Identities=10%  Similarity=-0.018  Sum_probs=168.1

Q ss_pred             cCcccccchhhHHHHHHHHHhh----cc-CcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-----CC----hhhHHH
Q 038429           28 RHPHFLTNQKQLKRIHAQMLST----DF-FFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----PN----LYTWNT   93 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~   93 (258)
                      ..+...|+++.|...+......    +- .....++..+...+...|  ++++|...+++..+     ++    ..++..
T Consensus        51 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  128 (338)
T 3ro2_A           51 NAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLG--NFDEAIVCCQRHLDISRELNDKVGEARALYN  128 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHcc--CHHHHHHHHHHHHHHHHHhcCchHHHHHHHH
Confidence            3566778999999999887654    21 223557888888999999  99999999887543     22    347888


Q ss_pred             HHHHHhcCCC--------------------hhhHHHHHHHhHh---cCCCCC-CcchHHHHHHHhcCcCCcchhhhhhhc
Q 038429           94 LIRAYSSSDE--------------------PIQSFMIFLQLVY---NSPYFP-NEFTLPFVIKAAARPVQFRVGQAIHGM  149 (258)
Q Consensus        94 li~~~~~~g~--------------------~~~a~~~~~~m~~---~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~  149 (258)
                      +...+...|+                    +++|...+++...   ..+..| ...++..+...+...|++++|...++.
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                    9999998877622   111111 234678888889999999999999888


Q ss_pred             c------cC----chhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----CC----hhhHHHHHHHHHcCCChHHHHHHHHH
Q 038429          150 F------ED----DLVISNSLIHFYAVCGDLAMAYCVFVMIGK-----KD----VVSWNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       150 ~------~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      .      .+    ...++..+...|...|++++|.+.+++..+     ++    ..++..+...+...|++++|...+++
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            7      11    133788899999999999999999987643     11    45788888999999999999999988


Q ss_pred             HHHc----CCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          211 MEVE----NVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       211 m~~~----~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ....    +-.+ ...++..+...+.+.|++++|...+++..+.
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            7653    1111 1347788999999999999999999988754

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.97  E-value=5.4e-10  Score=92.76  Aligned_cols=218  Identities=10%  Similarity=-0.041  Sum_probs=169.3

Q ss_pred             CcccccchhhHHHHHHHHHhhc-----cCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---------CChhhHHHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTD-----FFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---------PNLYTWNTL   94 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~-----~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~l   94 (258)
                      .+...|+++.|...+....+..     .......+..+...|...|  ++++|...+++..+         ....++..+
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  172 (411)
T 4a1s_A           95 AYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMG--RFDEAAICCERHLTLARQLGDRLSEGRALYNL  172 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhchHHHHHHHHHH
Confidence            5667789999999999887651     1334567888899999999  99999999887643         234578889


Q ss_pred             HHHHhcCCC-----------------hhhHHHHHHHhHh---cCCCCC-CcchHHHHHHHhcCcCCcchhhhhhhcc---
Q 038429           95 IRAYSSSDE-----------------PIQSFMIFLQLVY---NSPYFP-NEFTLPFVIKAAARPVQFRVGQAIHGMF---  150 (258)
Q Consensus        95 i~~~~~~g~-----------------~~~a~~~~~~m~~---~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~---  150 (258)
                      ...|...|+                 +++|+..+++...   ..+-.+ ...++..+...+...|++++|...++..   
T Consensus       173 ~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  252 (411)
T 4a1s_A          173 GNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRI  252 (411)
T ss_dssp             HHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            999999999                 9999998887522   111111 2347788888999999999999998887   


Q ss_pred             -c--Cc----hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-------ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          151 -E--DD----LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-------DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       151 -~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                       +  .+    ...+..+...|...|++++|.+.|++..+  +       ...++..+...|...|++++|...+++....
T Consensus       253 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  332 (411)
T 4a1s_A          253 AREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAI  332 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             1  11    23788999999999999999999987653  1       2467888899999999999999999987653


Q ss_pred             ----CCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          215 ----NVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       215 ----~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                          +-.+ ...++..+...|.+.|++++|.+.+++..+
T Consensus       333 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          333 AQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence                1111 134788889999999999999999998764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.97  E-value=3.9e-09  Score=87.05  Aligned_cols=215  Identities=7%  Similarity=-0.103  Sum_probs=162.8

Q ss_pred             CcccccchhhHHHHHHHHHhh----ccCc-chhhhhhhhhhhhccCCCChHHHHHHhccCCC-----C-----ChhhHHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLST----DFFF-DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----P-----NLYTWNT   93 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~-----~~~~~~~   93 (258)
                      .+...|+++.|...+....+.    +-.+ ...++..+-..|...|  +++.|...+++..+     +     ...+++.
T Consensus       112 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  189 (383)
T 3ulq_A          112 YELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMK--QTYFSMDYARQAYEIYKEHEAYNIRLLQCHSL  189 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            455678999999999999874    1111 3457888999999999  99999888876532     2     2457889


Q ss_pred             HHHHHhcCCChhhHHHHHHHhHhc---CCCCC-CcchHHHHHHHhcCcCCcchhhhhhhcc--------c-C-chhHHHH
Q 038429           94 LIRAYSSSDEPIQSFMIFLQLVYN---SPYFP-NEFTLPFVIKAAARPVQFRVGQAIHGMF--------E-D-DLVISNS  159 (258)
Q Consensus        94 li~~~~~~g~~~~a~~~~~~m~~~---~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~--------~-~-~~~~~~~  159 (258)
                      +...|...|++++|+..|++...-   .+-.+ ...++..+-..+...|++++|...++..        . | ...++..
T Consensus       190 lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  269 (383)
T 3ulq_A          190 FATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFL  269 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHH
Confidence            999999999999999999887322   11111 1247888999999999999999888877        1 2 2347888


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC-------C-ChhhHHHHHHHHHcCCC---hHHHHHHHHHHHHcCCCCC-hhhHHHHH
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIGK-------K-DVVSWNSMISGFVEGGF---FEKAIELYREMEVENVKPD-EVTMVVVL  227 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~-------~-~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p~-~~t~~~li  227 (258)
                      +...|.+.|++++|.+.+++..+       | ....++.+-..+...|+   +++|+.++++.   +..|+ ...+..+.
T Consensus       270 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la  346 (383)
T 3ulq_A          270 ITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVA  346 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHH
Confidence            99999999999999999987643       2 12336677788888888   77777777665   33333 34678889


Q ss_pred             HHHhccCChhHHHHHHHHHHH
Q 038429          228 SACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      ..|...|++++|.+.+++..+
T Consensus       347 ~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999998754

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.95  E-value=1.3e-09  Score=92.75  Aligned_cols=178  Identities=6%  Similarity=-0.152  Sum_probs=151.4

Q ss_pred             cCcccccch-hhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHHHHHHHHhcC---
Q 038429           28 RHPHFLTNQ-KQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWNTLIRAYSSS---  101 (258)
Q Consensus        28 ~~~~~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~---  101 (258)
                      ..+...|++ ++|...+....+.. +.+...|..+..+|.+.|  ++++|...|++..+  |+..+|..+...+...   
T Consensus       110 ~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~lg~~~~~~~~~  186 (474)
T 4abn_A          110 KALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKG--DVTSAHTCFSGALTHCKNKVSLQNLSMVLRQLQTD  186 (474)
T ss_dssp             HHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT--CHHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCCS
T ss_pred             HHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhccC
Confidence            466678899 99999999999876 446889999999999999  99999999987654  7788999999999999   


Q ss_pred             ------CChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCc--------CCcchhhhhhhcc----c---CchhHHHHH
Q 038429          102 ------DEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARP--------VQFRVGQAIHGMF----E---DDLVISNSL  160 (258)
Q Consensus       102 ------g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~--------~~~~~a~~~~~~~----~---~~~~~~~~l  160 (258)
                            |++++|+..|++.....  +-+...|..+..++...        |++++|...++..    +   .+...|..+
T Consensus       187 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~l  264 (474)
T 4abn_A          187 SGDEHSRHVMDSVRQAKLAVQMD--VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNR  264 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHH
T ss_pred             ChhhhhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHH
Confidence                  99999999999984332  33567888899999888        9999999999998    3   478899999


Q ss_pred             HHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHH
Q 038429          161 IHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      -..|.+.|++++|.+.|++..+  | +...+..+...+...|++++|...+.+
T Consensus       265 g~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          265 ATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999999999999987753  4 566788888888888999888876544

>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=98.94  E-value=1.4e-08  Score=77.39  Aligned_cols=184  Identities=7%  Similarity=-0.109  Sum_probs=113.7

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCCC----CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHH
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ----PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPF  129 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~  129 (258)
                      |+..+...-..+...|  ++++|...|++..+    ++...+..+..++...|++++|+..|++. .+.. +-+..++..
T Consensus         6 ~~~~~~~~g~~~~~~~--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a-l~~~-p~~~~~~~~   81 (228)
T 4i17_A            6 DPNQLKNEGNDALNAK--NYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIA-IKKN-YNLANAYIG   81 (228)
T ss_dssp             CHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHTT-CSHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcc--CHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHH-HHhC-cchHHHHHH
Confidence            4566666777777777  88888877775432    56666666777777888888888888777 3321 123456677


Q ss_pred             HHHHhcCcCCcchhhhhhhcc----cCch-------hHHHHHHHHHHhcCCHHHHHHHHHhcCC--CC---hhhHHHHHH
Q 038429          130 VIKAAARPVQFRVGQAIHGMF----EDDL-------VISNSLIHFYAVCGDLAMAYCVFVMIGK--KD---VVSWNSMIS  193 (258)
Q Consensus       130 ll~~~~~~~~~~~a~~~~~~~----~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~---~~~~~~li~  193 (258)
                      +..++...|++++|...++..    +.+.       ..|..+-..+.+.|++++|.+.|+...+  |+   ...|..+-.
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            777777777777777777766    3333       3466666667777777777777776654  32   234444444


Q ss_pred             HHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          194 GFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       194 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .|..     .+..+++++...+ ..+...|.....  ...+.+++|...+++..+.
T Consensus       162 ~~~~-----~~~~~~~~a~~~~-~~~~~~~~~~~~--~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          162 LFYN-----NGADVLRKATPLA-SSNKEKYASEKA--KADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHH-----HHHHHHHHHGGGT-TTCHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHH-----HHHHHHHHHHhcc-cCCHHHHHHHHH--HHHHHHHHHHHHHHHHhhc
Confidence            4433     2333444444432 123333433332  2345679999999988765

>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=98.90  E-value=1.2e-08  Score=70.28  Aligned_cols=125  Identities=14%  Similarity=0.166  Sum_probs=89.3

Q ss_pred             hhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHH
Q 038429           56 YSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIK  132 (258)
Q Consensus        56 ~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~  132 (258)
                      ..+..+...+...|  ++++|..+|+++.+   .+...|..+...+...|++++|...|+++ ...+  |+         
T Consensus         2 ~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~-~~~~--~~---------   67 (136)
T 2fo7_A            2 EAWYNLGNAYYKQG--DYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKA-LELD--PR---------   67 (136)
T ss_dssp             HHHHHHHHHHHHHT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH-HHHC--TT---------
T ss_pred             cHHHHHHHHHHHcC--cHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHH-HHHC--CC---------
Confidence            35677888899999  99999999987643   56778899999999999999999999998 3321  11         


Q ss_pred             HhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHH
Q 038429          133 AAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYR  209 (258)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~  209 (258)
                                          +...+..+...+.+.|++++|.+.|+.+.+   .+...+..+...+...|++++|...++
T Consensus        68 --------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  127 (136)
T 2fo7_A           68 --------------------SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQ  127 (136)
T ss_dssp             --------------------CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             --------------------chHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHH
Confidence                                223445555666666666777666665532   245566667777777777777777777


Q ss_pred             HHHHc
Q 038429          210 EMEVE  214 (258)
Q Consensus       210 ~m~~~  214 (258)
                      ++...
T Consensus       128 ~~~~~  132 (136)
T 2fo7_A          128 KALEL  132 (136)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            76553

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.88  E-value=2.7e-07  Score=78.70  Aligned_cols=138  Identities=9%  Similarity=-0.068  Sum_probs=67.6

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhc----cCCCChHHHHHHhccCCC-CChhhHHHHHHHHhc----CCC
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCAL----STFSSLEYARKMFDQIPQ-PNLYTWNTLIRAYSS----SDE  103 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~g~  103 (258)
                      .++.+.|...+....+.|   ++..+..|-..|..    .+  +.++|...|++..+ .+..++..|-..|..    .++
T Consensus        56 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~--~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~  130 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQ--DYAQAVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVD  130 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCC
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCC
Confidence            456666666666665543   33444445555554    55  66666666554432 344455555555555    455


Q ss_pred             hhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcC----cCCcchhhhhhhcc--cCchhHHHHHHHHHHh----cCCHHHH
Q 038429          104 PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAAR----PVQFRVGQAIHGMF--EDDLVISNSLIHFYAV----CGDLAMA  173 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~--~~~~~~~~~li~~~~~----~g~~~~a  173 (258)
                      +++|+..|+.. .+.|   +...+..+-..|..    .++.++|...++..  ..+...+..|-..|..    .++.++|
T Consensus       131 ~~~A~~~~~~a-~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A  206 (490)
T 2xm6_A          131 KAESVKWFRLA-AEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAIS  206 (490)
T ss_dssp             HHHHHHHHHHH-HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHHHHHH-HHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHH
Confidence            55555555555 3332   23333333333333    34455555555444  3334444444444444    4444444


Q ss_pred             HHHHHh
Q 038429          174 YCVFVM  179 (258)
Q Consensus       174 ~~~~~~  179 (258)
                      .+.|+.
T Consensus       207 ~~~~~~  212 (490)
T 2xm6_A          207 AQWYRK  212 (490)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=98.85  E-value=2.5e-07  Score=78.86  Aligned_cols=206  Identities=11%  Similarity=-0.005  Sum_probs=121.5

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhc----cCCCChHHHHHHhccCCC-CChhhHHHHHHHHhc----CCC
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCAL----STFSSLEYARKMFDQIPQ-PNLYTWNTLIRAYSS----SDE  103 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~g~  103 (258)
                      .++.++|...|......|   ++..+..|-..|..    .+  +.++|...|++..+ .+..++..+-..|..    .++
T Consensus        92 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~--~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d  166 (490)
T 2xm6_A           92 PQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKV--DKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRD  166 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCC
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCC
Confidence            456666666666666554   34445555555554    44  66777666665432 455566666666665    566


Q ss_pred             hhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcC----cCCcchhhhhhhcc--cCchhHHHHHHHHHHh----cCCHHHH
Q 038429          104 PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAAR----PVQFRVGQAIHGMF--EDDLVISNSLIHFYAV----CGDLAMA  173 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~--~~~~~~~~~li~~~~~----~g~~~~a  173 (258)
                      .++|+..|+.. .+.|   +..++..+-..|..    .++.++|...++..  ..+...+..+-..|..    .+++++|
T Consensus       167 ~~~A~~~~~~a-~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A  242 (490)
T 2xm6_A          167 YVMAREWYSKA-AEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQS  242 (490)
T ss_dssp             HHHHHHHHHHH-HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHHHHHH-HHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHH
Confidence            67777777666 3332   34455555555544    56666666666666  4455556666666664    5667777


Q ss_pred             HHHHHhcCC-CChhhHHHHHHHHHc----CCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhcc-----CChhHHHHHH
Q 038429          174 YCVFVMIGK-KDVVSWNSMISGFVE----GGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKK-----RDLEFGIWVS  243 (258)
Q Consensus       174 ~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~-----g~~~~a~~~~  243 (258)
                      .+.|+...+ .+...+..+-..|..    .++.++|..+|++..+.|   +...+..+-..|...     ++.++|...+
T Consensus       243 ~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~  319 (490)
T 2xm6_A          243 RVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWY  319 (490)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHH
Confidence            777665443 244455555555555    566777777776665543   344555555555555     6677777777


Q ss_pred             HHHHHcC
Q 038429          244 SHIEKNG  250 (258)
Q Consensus       244 ~~m~~~g  250 (258)
                      ++..+.|
T Consensus       320 ~~a~~~~  326 (490)
T 2xm6_A          320 TKSAEQG  326 (490)
T ss_dssp             HHHHHTT
T ss_pred             HHHHhcC
Confidence            6666554

>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=98.83  E-value=2.8e-07  Score=85.81  Aligned_cols=180  Identities=9%  Similarity=0.007  Sum_probs=128.9

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHH
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKA  133 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~  133 (258)
                      ++.+|..+-.++.+.|  ++++|...|.+.  .|...|..++.++.+.|++++|.+.|... ++..  +++...+.+..+
T Consensus      1104 ~p~vWsqLAKAql~~G--~~kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mA-rk~~--~e~~Idt~Lafa 1176 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKG--MVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMA-RKKA--RESYVETELIFA 1176 (1630)
T ss_pred             CHHHHHHHHHHHHhCC--CHHHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHH-Hhhc--ccccccHHHHHH
Confidence            4677888888888888  999998888664  67778888999999999999999999866 4433  343344458888


Q ss_pred             hcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          134 AARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      |++.+++++.+....  .++...|..+-..|...|++++|..+|...     ..|..+...|++.|++++|.+.+++...
T Consensus      1177 YAKl~rleele~fI~--~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA~n 1249 (1630)
T 1xi4_A         1177 LAKTNRLAELEEFIN--GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKANS 1249 (1630)
T ss_pred             HHhhcCHHHHHHHHh--CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHhCC
Confidence            888877775444432  445556666777777777888888777764     4677777777777777777776655321


Q ss_pred             c------------------------CCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          214 E------------------------NVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       214 ~------------------------~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .                        ++..+...+..++..|.+.|.+++|..+++.-.
T Consensus      1250 ~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1250 TRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            1                        122345566778888888888988888886654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.82  E-value=1.8e-08  Score=83.01  Aligned_cols=215  Identities=7%  Similarity=-0.102  Sum_probs=159.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccC-c----chhhhhhhhhhhhccCCCChHHHHHHhccCCC-----C-----ChhhHHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFF-F----DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----P-----NLYTWNT   93 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~-~----~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~-----~~~~~~~   93 (258)
                      .+...|+++.|...+....+..-. +    ...++..+..+|...|  +++.|...+++..+     +     ...+++.
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMK--QTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcC--CcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            345678999999999998765211 2    2456788888999999  99988887765432     1     2457889


Q ss_pred             HHHHHhcCCChhhHHHHHHHhHhc---CCCCC-CcchHHHHHHHhcCcCCcchhhhhhhcc---------cCchhHHHHH
Q 038429           94 LIRAYSSSDEPIQSFMIFLQLVYN---SPYFP-NEFTLPFVIKAAARPVQFRVGQAIHGMF---------EDDLVISNSL  160 (258)
Q Consensus        94 li~~~~~~g~~~~a~~~~~~m~~~---~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~---------~~~~~~~~~l  160 (258)
                      +...|...|++++|+..|++...-   .+-++ ...++..+-.++...|+++.|...++..         +....++..+
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  267 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGL  267 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHH
Confidence            999999999999999999886321   22111 1346778888999999999999888877         2335678888


Q ss_pred             HHHHHhcCCHHHHHHHHHhcCC-------C-ChhhHHHHHHHHHcCCC---hHHHHHHHHHHHHcCCCCC-hhhHHHHHH
Q 038429          161 IHFYAVCGDLAMAYCVFVMIGK-------K-DVVSWNSMISGFVEGGF---FEKAIELYREMEVENVKPD-EVTMVVVLS  228 (258)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~-------~-~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p~-~~t~~~li~  228 (258)
                      ...|.+.|++++|...+++..+       + ....++.+-..+...++   ..+|+.++++   .+..|+ ...+..+..
T Consensus       268 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~  344 (378)
T 3q15_A          268 SWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHH
Confidence            9999999999999999986532       2 12345666667777788   7777777765   333333 345678888


Q ss_pred             HHhccCChhHHHHHHHHHHH
Q 038429          229 ACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       229 ~~~~~g~~~~a~~~~~~m~~  248 (258)
                      .|...|++++|...+++..+
T Consensus       345 ~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          345 VFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999998753

>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=98.80  E-value=2.4e-07  Score=86.29  Aligned_cols=187  Identities=11%  Similarity=0.046  Sum_probs=146.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSF  108 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~  108 (258)
                      .+...|.+++|..+|+...     ......+.++.   ..+  ++++|.++.++.  .+..+|..+..++.+.|++++|+
T Consensus      1058 Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~--nldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAI 1125 (1630)
T 1xi4_A         1058 IAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIG--NLDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAI 1125 (1630)
T ss_pred             HHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHh--hHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHH
Confidence            4555677788888877642     12222333332   566  888888888766  44677889999999999999999


Q ss_pred             HHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh
Q 038429          109 MIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDV  185 (258)
Q Consensus       109 ~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  185 (258)
                      ..|.+-       -|...|..++.++.+.|+++++.+.+...   .++....+.+..+|++.+++++...+.   ..++.
T Consensus      1126 dsYiKA-------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI---~~~n~ 1195 (1630)
T 1xi4_A         1126 DSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFI---NGPNN 1195 (1630)
T ss_pred             HHHHhc-------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHH---hCCCH
Confidence            999654       46778889999999999999999999876   445455556999999999998655553   45677


Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHH
Q 038429          186 VSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      ..|..+-..|-..|++++|..+|...         ..|..+...+++.|+++.|.+.+++.
T Consensus      1196 ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA 1247 (1630)
T 1xi4_A         1196 AHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA 1247 (1630)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh
Confidence            78888889999999999999999884         48999999999999999999988765

>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=98.79  E-value=9.1e-08  Score=72.86  Aligned_cols=183  Identities=11%  Similarity=-0.039  Sum_probs=136.0

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+...|++++|...|....+....++...+..+..++...|  ++++|...|++..+   .+..+|..+...+...|+++
T Consensus        16 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~--~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~   93 (228)
T 4i17_A           16 DALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIK--KYKEAADYFDIAIKKNYNLANAYIGKSAAYRDMKNNQ   93 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhh--cHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHcccHH
Confidence            55678999999999999998875477777777889999999  99999999987643   45678999999999999999


Q ss_pred             hHHHHHHHhHhcCCCCCCc-------chHHHHHHHhcCcCCcchhhhhhhcc---cCc---hhHHHHHHHHHHhcCCH--
Q 038429          106 QSFMIFLQLVYNSPYFPNE-------FTLPFVIKAAARPVQFRVGQAIHGMF---EDD---LVISNSLIHFYAVCGDL--  170 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~---~~~~~~li~~~~~~g~~--  170 (258)
                      +|+..|++.....  +.+.       ..|..+-..+...|++++|...++..   .|+   ...|..+-..|...|+.  
T Consensus        94 ~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~  171 (228)
T 4i17_A           94 EYIATLTEGIKAV--PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLFYNNGADVL  171 (228)
T ss_dssp             HHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHHHHHH
Confidence            9999999984432  1223       45777788888999999999999988   443   56788888888766653  


Q ss_pred             HHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhH
Q 038429          171 AMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTM  223 (258)
Q Consensus       171 ~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~  223 (258)
                      +++.    .+...+...|.....  ...+.+++|...+++..+.  .|+....
T Consensus       172 ~~a~----~~~~~~~~~~~~~~~--~~~~~~~~A~~~~~~a~~l--~p~~~~~  216 (228)
T 4i17_A          172 RKAT----PLASSNKEKYASEKA--KADAAFKKAVDYLGEAVTL--SPNRTEI  216 (228)
T ss_dssp             HHHG----GGTTTCHHHHHHHHH--HHHHHHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHH----hcccCCHHHHHHHHH--HHHHHHHHHHHHHHHHhhc--CCCCHHH
Confidence            2222    222234444544443  2345688999999888774  4655443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.77  E-value=1.9e-07  Score=76.45  Aligned_cols=215  Identities=13%  Similarity=-0.026  Sum_probs=140.9

Q ss_pred             ccccchhhHHHHHHHHHhhccCcchh----hhhhhhhhhhccCCCChHHHHHHhccCCC-----CC----hhhHHHHHHH
Q 038429           31 HFLTNQKQLKRIHAQMLSTDFFFDPY----SASKLFTPCALSTFSSLEYARKMFDQIPQ-----PN----LYTWNTLIRA   97 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~li~~   97 (258)
                      ...|++++|...+.......-..+..    +++.+...+...|  ++++|...+++...     .+    ..+++.+...
T Consensus        25 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           25 INDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKG--ELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcC--cHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            35678888888888877654222222    4556666777778  88888888876542     22    2335677778


Q ss_pred             HhcCCChhhHHHHHHHhHhc---CCCC--CC-cchHHHHHHHhcCcCCcchhhhhhhcc---cC------chhHHHHHHH
Q 038429           98 YSSSDEPIQSFMIFLQLVYN---SPYF--PN-EFTLPFVIKAAARPVQFRVGQAIHGMF---ED------DLVISNSLIH  162 (258)
Q Consensus        98 ~~~~g~~~~a~~~~~~m~~~---~~~~--p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~------~~~~~~~li~  162 (258)
                      +...|++++|...+++....   .+..  |. ..++..+...+...|++++|...++..   .+      ....+..+..
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  182 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  182 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHH
Confidence            88889999888888776321   2222  22 234566777788888888888887776   11      2346777778


Q ss_pred             HHHhcCCHHHHHHHHHhcC----CCCh-hhHH-----HHHHHHHcCCChHHHHHHHHHHHHcCCCCC---hhhHHHHHHH
Q 038429          163 FYAVCGDLAMAYCVFVMIG----KKDV-VSWN-----SMISGFVEGGFFEKAIELYREMEVENVKPD---EVTMVVVLSA  229 (258)
Q Consensus       163 ~~~~~g~~~~a~~~~~~m~----~~~~-~~~~-----~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~t~~~li~~  229 (258)
                      .+...|++++|...+++..    .++. ..+.     ..+..+...|+.++|...+++.......++   ...+..+...
T Consensus       183 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~  262 (373)
T 1hz4_A          183 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  262 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHH
Confidence            8888899998888887653    2221 1222     223346688888888888877654322111   2245667777


Q ss_pred             HhccCChhHHHHHHHHHH
Q 038429          230 CAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       230 ~~~~g~~~~a~~~~~~m~  247 (258)
                      +...|++++|...+++..
T Consensus       263 ~~~~g~~~~A~~~l~~a~  280 (373)
T 1hz4_A          263 QILLGEFEPAEIVLEELN  280 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHH
Confidence            888888888888888764

>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=98.72  E-value=1.7e-06  Score=68.57  Aligned_cols=198  Identities=11%  Similarity=0.004  Sum_probs=137.7

Q ss_pred             HHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChh---hHHHHHHHHhcCCChhhHHHHHHHhHhcCC
Q 038429           43 HAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLY---TWNTLIRAYSSSDEPIQSFMIFLQLVYNSP  119 (258)
Q Consensus        43 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  119 (258)
                      +..+.+....|+..+...+...+.-.-    +   .++..-...+..   .+...+..+...|++++|..+++.......
T Consensus        34 ~s~~e~g~~~~~~~~l~~i~~~l~~~~----~---~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~  106 (293)
T 3u3w_A           34 VSRIESGAVYPSMDILQGIAAKLQIPI----I---HFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEE  106 (293)
T ss_dssp             HHHHHTTSCCCCHHHHHHHHHHHTCCT----H---HHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHhCcCH----H---HHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhcccc
Confidence            333433344677777766666665432    1   233322222222   344457788999999999999999833333


Q ss_pred             CCCCcc----hHHHHHHHhcCcCCcchhhhhhhcc------cCc----hhHHHHHHHHHHhcCCHHHHHHHHHhcCC---
Q 038429          120 YFPNEF----TLPFVIKAAARPVQFRVGQAIHGMF------EDD----LVISNSLIHFYAVCGDLAMAYCVFVMIGK---  182 (258)
Q Consensus       120 ~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~------~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~---  182 (258)
                      ..|+..    .+..+...+...+++++|...++..      .++    ..+++.+...|...|++++|...|+...+   
T Consensus       107 ~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~  186 (293)
T 3u3w_A          107 YHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLE  186 (293)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            333321    2345677778888999999888877      223    23689999999999999999999987752   


Q ss_pred             ---C----ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc----CCCCC-hhhHHHHHHHHhccCC-hhHHHHHHHHHH
Q 038429          183 ---K----DVVSWNSMISGFVEGGFFEKAIELYREMEVE----NVKPD-EVTMVVVLSACAKKRD-LEFGIWVSSHIE  247 (258)
Q Consensus       183 ---~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~t~~~li~~~~~~g~-~~~a~~~~~~m~  247 (258)
                         .    ...+|..+...|.+.|++++|...+++..+.    +..+. ...|..+-..+.+.|+ +++|.+.+++..
T Consensus       187 ~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          187 ALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             hcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence               1    2347888999999999999999999887542    32233 5678889999999995 699999988764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.71  E-value=5.5e-07  Score=73.69  Aligned_cols=218  Identities=11%  Similarity=-0.022  Sum_probs=155.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccC-cc----hhhhhhhhhhhhccCCCChHHHHHHhccCCC-------C----ChhhHH
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFF-FD----PYSASKLFTPCALSTFSSLEYARKMFDQIPQ-------P----NLYTWN   92 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-------~----~~~~~~   92 (258)
                      .+...|++++|.+.+.+.....-. .+    ..++..+...+...|  ++++|...+++...       +    ...++.
T Consensus        62 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  139 (373)
T 1hz4_A           62 VLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQG--FLQTAWETQEKAFQLINEQHLEQLPMHEFLVR  139 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHH
T ss_pred             HHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhccccCcHHHHHHH
Confidence            455678999999999988764211 11    223566777888889  99999988876532       1    234567


Q ss_pred             HHHHHHhcCCChhhHHHHHHHhHhcCC-CCC--CcchHHHHHHHhcCcCCcchhhhhhhcc-----cCch-hHHH-----
Q 038429           93 TLIRAYSSSDEPIQSFMIFLQLVYNSP-YFP--NEFTLPFVIKAAARPVQFRVGQAIHGMF-----EDDL-VISN-----  158 (258)
Q Consensus        93 ~li~~~~~~g~~~~a~~~~~~m~~~~~-~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~-----~~~~-~~~~-----  158 (258)
                      .+...+...|++++|...+++...... ..+  ...++..+...+...|++++|...++..     .++. ..+.     
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            788899999999999999988733221 111  1245777888889999999999988876     2221 1222     


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCCCh-------hhHHHHHHHHHcCCChHHHHHHHHHHHHc----CCCCCh-hhHHHH
Q 038429          159 SLIHFYAVCGDLAMAYCVFVMIGKKDV-------VSWNSMISGFVEGGFFEKAIELYREMEVE----NVKPDE-VTMVVV  226 (258)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~-~t~~~l  226 (258)
                      .....+...|++++|...+.....++.       ..+..+...+...|++++|...+++....    |..++. ..+..+
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            233457799999999999998876421       24567778899999999999999887543    222222 256667


Q ss_pred             HHHHhccCChhHHHHHHHHHHH
Q 038429          227 LSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       227 i~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      -.++...|+.++|...+++..+
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            7788899999999999987653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.70  E-value=5.5e-08  Score=77.32  Aligned_cols=186  Identities=10%  Similarity=-0.037  Sum_probs=132.9

Q ss_pred             hhhhhhhhhccCCCChHHHHHHhccCCC-------C--ChhhHHHHHHHHhcCCChhhHHHHHHHhHhc---CCCCCC-c
Q 038429           58 ASKLFTPCALSTFSSLEYARKMFDQIPQ-------P--NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYN---SPYFPN-E  124 (258)
Q Consensus        58 ~~~li~~~~~~~~~~~~~a~~~~~~m~~-------~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~p~-~  124 (258)
                      |......|...|  ++++|...|++...       +  ...+|+.+...|.+.|++++|+..|++...-   .|-... .
T Consensus        40 ~~~a~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  117 (292)
T 1qqe_A           40 CVQAATIYRLRK--ELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (292)
T ss_dssp             HHHHHHHHHHTT--CTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            344455677788  99888888875532       1  2568999999999999999999999876321   121111 3


Q ss_pred             chHHHHHHHhcCc-CCcchhhhhhhcc---cC-c------hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CC---hh--
Q 038429          125 FTLPFVIKAAARP-VQFRVGQAIHGMF---ED-D------LVISNSLIHFYAVCGDLAMAYCVFVMIGK--KD---VV--  186 (258)
Q Consensus       125 ~~~~~ll~~~~~~-~~~~~a~~~~~~~---~~-~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~---~~--  186 (258)
                      .+++.+-..|... |++++|...++..   .| +      ..+++.+...|.+.|++++|...|+...+  |+   ..  
T Consensus       118 ~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  197 (292)
T 1qqe_A          118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (292)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHH
Confidence            4688888889886 9999999998887   12 1      35688899999999999999999987643  32   11  


Q ss_pred             ---hHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh------hhHHHHHHHHh--ccCChhHHHHHHHHHH
Q 038429          187 ---SWNSMISGFVEGGFFEKAIELYREMEVENVKPDE------VTMVVVLSACA--KKRDLEFGIWVSSHIE  247 (258)
Q Consensus       187 ---~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~------~t~~~li~~~~--~~g~~~~a~~~~~~m~  247 (258)
                         .|..+...+...|++++|...|++..+.  .|+.      ..+..++.++.  ..+++++|...|+.+.
T Consensus       198 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          198 LKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence               4677778889999999999999887652  3432      13455666664  4567888888776653

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.69  E-value=2e-07  Score=80.35  Aligned_cols=177  Identities=8%  Similarity=-0.020  Sum_probs=139.0

Q ss_pred             ccchh-------hHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-Ch-hhHHHHHHHHhcC
Q 038429           33 LTNQK-------QLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-NL-YTWNTLIRAYSSS  101 (258)
Q Consensus        33 ~~~~~-------~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~~-~~~~~li~~~~~~  101 (258)
                      .|+++       +|..+++..++.-.+.+...|..++..+.+.|  ++++|..+|++..+  | +. ..|...+..+.+.
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  369 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM--KYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRA  369 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcC--CHHHHHHHHHHHhCccccCchHHHHHHHHHHHHh
Confidence            57766       88999998886323446788999999999999  99999999997643  4 33 4899999999999


Q ss_pred             CChhhHHHHHHHhHhcCCCCCC-cchHHHHHH-HhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHH
Q 038429          102 DEPIQSFMIFLQLVYNSPYFPN-EFTLPFVIK-AAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYC  175 (258)
Q Consensus       102 g~~~~a~~~~~~m~~~~~~~p~-~~~~~~ll~-~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~  175 (258)
                      |++++|..+|++. .+.  .|+ ...|..... .+...|+.+.|..+|+..    +.+...|..++..+.+.|+.++|..
T Consensus       370 ~~~~~A~~~~~~A-l~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~  446 (530)
T 2ooe_A          370 EGIKSGRMIFKKA-RED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRV  446 (530)
T ss_dssp             HHHHHHHHHHHHH-HTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHH
T ss_pred             cCHHHHHHHHHHH-Hhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHH
Confidence            9999999999998 443  233 222322211 123578999999999987    5567899999999999999999999


Q ss_pred             HHHhcCC--C-C----hhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          176 VFVMIGK--K-D----VVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       176 ~~~~m~~--~-~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      +|++...  | +    ...|...+......|+.+.+..+++++.+.
T Consensus       447 ~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          447 LFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9998753  2 2    237888888888999999999999988764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.69  E-value=3.2e-07  Score=71.37  Aligned_cols=159  Identities=9%  Similarity=-0.022  Sum_probs=87.2

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc---cC----chhHHHHH
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF---ED----DLVISNSL  160 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~----~~~~~~~l  160 (258)
                      ..+-.+...+.+.|++++|+..|+.......-.|. ..++..+..++.+.|++++|...++..   .|    ....+..+
T Consensus        16 ~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l   95 (261)
T 3qky_A           16 QEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYER   95 (261)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHH
Confidence            33444444444444444444444444211110000 223344444444444444444444444   11    12234444


Q ss_pred             HHHHHh--------cCCHHHHHHHHHhcCC--C-ChhhH-----------------HHHHHHHHcCCChHHHHHHHHHHH
Q 038429          161 IHFYAV--------CGDLAMAYCVFVMIGK--K-DVVSW-----------------NSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       161 i~~~~~--------~g~~~~a~~~~~~m~~--~-~~~~~-----------------~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      ..++.+        .|++++|...|+...+  | +....                 ..+...|...|++++|+..|++..
T Consensus        96 g~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l  175 (261)
T 3qky_A           96 AMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVF  175 (261)
T ss_dssp             HHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            455555        5666666666655442  3 22222                 455677888999999999999887


Q ss_pred             HcCCCCC----hhhHHHHHHHHhcc----------CChhHHHHHHHHHHHc
Q 038429          213 VENVKPD----EVTMVVVLSACAKK----------RDLEFGIWVSSHIEKN  249 (258)
Q Consensus       213 ~~~~~p~----~~t~~~li~~~~~~----------g~~~~a~~~~~~m~~~  249 (258)
                      +..  |+    ...+..+..+|...          |++++|...++++.+.
T Consensus       176 ~~~--p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          176 DAY--PDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHC--TTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHC--CCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            752  43    34567777777755          8889999999988764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.69  E-value=1.9e-07  Score=76.94  Aligned_cols=184  Identities=9%  Similarity=-0.187  Sum_probs=137.8

Q ss_pred             hhhhhhccCCCChHHHHHHhccCCC-----C----ChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC-----cch
Q 038429           61 LFTPCALSTFSSLEYARKMFDQIPQ-----P----NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN-----EFT  126 (258)
Q Consensus        61 li~~~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~  126 (258)
                      .-..+...|  ++++|...|++..+     +    ...+|..+...|...|++++|+..+++...-..-.++     ..+
T Consensus       109 ~g~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  186 (383)
T 3ulq_A          109 RGMYELDQR--EYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQC  186 (383)
T ss_dssp             HHHHHHHTT--CHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHH
T ss_pred             HHHHHHHhc--CHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHH
Confidence            445566778  99999999987643     2    3467999999999999999999999887322111121     346


Q ss_pred             HHHHHHHhcCcCCcchhhhhhhcc------cC----chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--------C-Chhh
Q 038429          127 LPFVIKAAARPVQFRVGQAIHGMF------ED----DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--------K-DVVS  187 (258)
Q Consensus       127 ~~~ll~~~~~~~~~~~a~~~~~~~------~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--------~-~~~~  187 (258)
                      ++.+-..|...|++++|...++..      .+    ...+++.+-..|...|++++|.+.|++..+        | ...+
T Consensus       187 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  266 (383)
T 3ulq_A          187 HSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQA  266 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHH
Confidence            888889999999999999998887      11    124788899999999999999999987643        3 3356


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHc----CCCCChhhHHHHHHHHhccCC---hhHHHHHHHHH
Q 038429          188 WNSMISGFVEGGFFEKAIELYREMEVE----NVKPDEVTMVVVLSACAKKRD---LEFGIWVSSHI  246 (258)
Q Consensus       188 ~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~t~~~li~~~~~~g~---~~~a~~~~~~m  246 (258)
                      +..+-..|...|++++|...+++..+.    +-+.....+..+-..+...|+   +++|..++++.
T Consensus       267 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~  332 (383)
T 3ulq_A          267 YFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK  332 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            888899999999999999999887653    111122346778888888998   66666666554

>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=98.67  E-value=1.2e-07  Score=84.25  Aligned_cols=164  Identities=7%  Similarity=-0.148  Sum_probs=133.0

Q ss_pred             ccccchhhHHHHHHHHH--------hhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHh
Q 038429           31 HFLTNQKQLKRIHAQML--------STDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYS   99 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~--------~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~   99 (258)
                      ...+++++|.+.++...        +.. +.+...+..+..++...|  ++++|...|++..+   .+...|..+-.++.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g--~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLG--DVAKATRKLDDLAERVGWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcC--CHHHHHHHHHHHhccCcchHHHHHHHHHHHH
Confidence            45788999999999988        332 445678888899999999  99999999998764   57788999999999


Q ss_pred             cCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHH
Q 038429          100 SSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYC  175 (258)
Q Consensus       100 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~  175 (258)
                      +.|++++|+..|++..+..  +-+...|..+-.++.+.|++++ ...++..    +.+...|..+-.+|.+.|++++|.+
T Consensus       479 ~~g~~~~A~~~~~~al~l~--P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDTF--PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999983322  2356778899999999999999 9999887    5667899999999999999999999


Q ss_pred             HHHhcCC--C-ChhhHHHHHHHHHcCCC
Q 038429          176 VFVMIGK--K-DVVSWNSMISGFVEGGF  200 (258)
Q Consensus       176 ~~~~m~~--~-~~~~~~~li~~~~~~g~  200 (258)
                      .|++..+  | +...|..+..++...++
T Consensus       556 ~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            9999875  4 34567777777766554

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.65  E-value=4.9e-07  Score=71.67  Aligned_cols=172  Identities=9%  Similarity=-0.112  Sum_probs=134.6

Q ss_pred             ChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-
Q 038429           72 SLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-  150 (258)
Q Consensus        72 ~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-  150 (258)
                      ..+.....+......+...+..+...+.+.|++++|...|++.....  +-+...+..+...+.+.|++++|...++.. 
T Consensus       101 ~~~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~  178 (287)
T 3qou_A          101 PEEAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS--NQNGEIGLLLAETLIALNRSEDAEAVLXTIP  178 (287)
T ss_dssp             CHHHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSC
T ss_pred             CHHHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CcchhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            34455555555554566778888889999999999999999984332  234677888999999999999999999998 


Q ss_pred             --cCchhHHH-HHHHHHHhcCCHHHHHHHHHhcC--CC-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC---hh
Q 038429          151 --EDDLVISN-SLIHFYAVCGDLAMAYCVFVMIG--KK-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD---EV  221 (258)
Q Consensus       151 --~~~~~~~~-~li~~~~~~g~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~  221 (258)
                        .|+..... .....+.+.++.++|.+.|++..  .| +...+..+-..+...|++++|+..|++..+..  |+   ..
T Consensus       179 ~~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~--p~~~~~~  256 (287)
T 3qou_A          179 LQDQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXD--LTAADGQ  256 (287)
T ss_dssp             GGGCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTGGGGH
T ss_pred             hhhcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc--cccccch
Confidence              45544333 23334667788888888887764  34 67789999999999999999999999998863  43   56


Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          222 TMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       222 t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .+..+...+...|+.++|...+++..
T Consensus       257 a~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          257 TRXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            79999999999999999999888754

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.65  E-value=5.3e-07  Score=71.51  Aligned_cols=160  Identities=13%  Similarity=-0.002  Sum_probs=118.2

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCc----chHHHHHHHhcCcCCcchhhhhhhcc------cCc----
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNE----FTLPFVIKAAARPVQFRVGQAIHGMF------EDD----  153 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~------~~~----  153 (258)
                      ...+...+..+...|++++|+..++.........++.    ..+..+...+...|++++|...++..      ..+    
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            3456677888899999999999998773332211111    22344556678888999998887765      111    


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcC-----CCC-----hhhHHHHHHHHHcCCChHHHHHHHHHHHHc----CCCCC
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIG-----KKD-----VVSWNSMISGFVEGGFFEKAIELYREMEVE----NVKPD  219 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~  219 (258)
                      ..+|+.+-..|...|++++|...|++..     .|+     ..+|+.+...|...|++++|+..+++..+.    +....
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            3488999999999999999999998765     122     258889999999999999999999887643    11111


Q ss_pred             -hhhHHHHHHHHhccCChhHH-HHHHHHHH
Q 038429          220 -EVTMVVVLSACAKKRDLEFG-IWVSSHIE  247 (258)
Q Consensus       220 -~~t~~~li~~~~~~g~~~~a-~~~~~~m~  247 (258)
                       ..+|..+...|.+.|+.++| ...+++..
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             56788889999999999999 77677653

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.65  E-value=1.7e-07  Score=73.02  Aligned_cols=163  Identities=13%  Similarity=0.083  Sum_probs=112.7

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-C---hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC-cch
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-N---LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN-EFT  126 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~  126 (258)
                      +...+-.+...+.+.|  ++++|...|++..+  | +   ..++..+..++.+.|++++|+..|+.......-.|. ..+
T Consensus        14 ~~~~~~~~a~~~~~~g--~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           14 SPQEAFERAMEFYNQG--KYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SHHHHHHHHHHHHHTT--CHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHhC--CHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            3445555566667777  88888888876653  3 2   456777778888888888888888877443321222 334


Q ss_pred             HHHHHHHhcC--------cCCcchhhhhhhcc----cCchhHH-----------------HHHHHHHHhcCCHHHHHHHH
Q 038429          127 LPFVIKAAAR--------PVQFRVGQAIHGMF----EDDLVIS-----------------NSLIHFYAVCGDLAMAYCVF  177 (258)
Q Consensus       127 ~~~ll~~~~~--------~~~~~~a~~~~~~~----~~~~~~~-----------------~~li~~~~~~g~~~~a~~~~  177 (258)
                      +..+..++..        .|++++|...++..    +.+....                 ..+...|.+.|++++|...|
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  171 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTY  171 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            5566666666        78888888887777    3333344                 45678899999999999999


Q ss_pred             HhcCC--CC----hhhHHHHHHHHHcC----------CChHHHHHHHHHHHHcCCCCCh
Q 038429          178 VMIGK--KD----VVSWNSMISGFVEG----------GFFEKAIELYREMEVENVKPDE  220 (258)
Q Consensus       178 ~~m~~--~~----~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~~~~p~~  220 (258)
                      +...+  |+    ...+..+..+|...          |++++|...|++..+.  .|+.
T Consensus       172 ~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~  228 (261)
T 3qky_A          172 EAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDS  228 (261)
T ss_dssp             HHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCC
Confidence            98754  43    23566777777755          8899999999998875  3554

>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=98.65  E-value=1.8e-07  Score=74.91  Aligned_cols=204  Identities=10%  Similarity=-0.039  Sum_probs=142.8

Q ss_pred             ccchhhHHHHHHHHHhhc------cCcch----hhhhhhhhhhhccCCCChHHHHHHhccCCC-----C----ChhhHHH
Q 038429           33 LTNQKQLKRIHAQMLSTD------FFFDP----YSASKLFTPCALSTFSSLEYARKMFDQIPQ-----P----NLYTWNT   93 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~------~~~~~----~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~   93 (258)
                      .|++++|.+++.+..+..      ..++.    ..|+.....|...|  ++++|...|.+..+     .    -..+|+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~   81 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAK--QLEQAKDAYLQEAEAHANNRSLFHAAKAFEQ   81 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            577788888888776531      12332    25666777788888  99888888776532     1    1457888


Q ss_pred             HHHHHhcCCChhhHHHHHHHhHh---cCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc----cC------chhHHHH
Q 038429           94 LIRAYSSSDEPIQSFMIFLQLVY---NSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF----ED------DLVISNS  159 (258)
Q Consensus        94 li~~~~~~g~~~~a~~~~~~m~~---~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~------~~~~~~~  159 (258)
                      +...|.+.|++++|+..|++...   +.|-... ..++..+-..|.. |++++|...++..    +.      ...+++.
T Consensus        82 lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~  160 (307)
T 2ifu_A           82 AGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGK  160 (307)
T ss_dssp             HHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHH
Confidence            99999999999999999987632   2221111 3467788888888 9999998888877    11      1457888


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC-----CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh------hhHH
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIGK-----KD----VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE------VTMV  224 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~------~t~~  224 (258)
                      +...|.+.|++++|.+.|++..+     ++    ...+..+...+...|++++|...|++.. .  .|+.      ....
T Consensus       161 lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~  237 (307)
T 2ifu_A          161 ASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALE  237 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHH
Confidence            89999999999999999987653     11    2256667777788899999999999887 3  3432      1344


Q ss_pred             HHHHHHhccCChhHHHHHH
Q 038429          225 VVLSACAKKRDLEFGIWVS  243 (258)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~  243 (258)
                      .++.++ ..|+.+.+.++.
T Consensus       238 ~l~~~~-~~~d~~~~~~~~  255 (307)
T 2ifu_A          238 DLLQAY-DEQDEEQLLRVC  255 (307)
T ss_dssp             HHHHHH-HTTCHHHHHHHT
T ss_pred             HHHHHH-HhcCHHHHHHHH
Confidence            555555 567777766643

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.64  E-value=4.5e-07  Score=72.08  Aligned_cols=161  Identities=8%  Similarity=-0.013  Sum_probs=115.7

Q ss_pred             CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCC-CCCcchHHHHHHHhcCcCCcchhhhhhhcc---cC-----chhH
Q 038429           86 PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPY-FPNEFTLPFVIKAAARPVQFRVGQAIHGMF---ED-----DLVI  156 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~-----~~~~  156 (258)
                      ++..++..+..++...|++++|++.+.+- ...+- .-+...+..++..+.+.|+.+.|...++.|   .|     +..+
T Consensus        98 ~~~~~~~~la~i~~~~g~~eeAL~~l~~~-i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~~~d~~~~~d~~  176 (310)
T 3mv2_B           98 NSPYELYLLATAQAILGDLDKSLETCVEG-IDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNAIEDTVSGDNEM  176 (310)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHH-HTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHH-hccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCccccccchHH
Confidence            45556668888888999999999999887 44432 224566788888999999999999999888   55     3566


Q ss_pred             HHHHHHHH--HhcC--CHHHHHHHHHhcCC--CChhhHHHHHHHHHcCCChHHHHHHHHHHHHc-----CC---CC-Chh
Q 038429          157 SNSLIHFY--AVCG--DLAMAYCVFVMIGK--KDVVSWNSMISGFVEGGFFEKAIELYREMEVE-----NV---KP-DEV  221 (258)
Q Consensus       157 ~~~li~~~--~~~g--~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~---~p-~~~  221 (258)
                      ...|..++  ...|  +..+|..+|+++.+  |+..+-..++.++.+.|++++|+..++.+.+.     +-   .| |..
T Consensus       177 l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~  256 (310)
T 3mv2_B          177 ILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPT  256 (310)
T ss_dssp             HHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHH
T ss_pred             HHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHH
Confidence            66666663  3334  89999999998865  34334555666888999999999999876543     10   13 456


Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          222 TMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       222 t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +...+|......|+  +|.++++++.+.
T Consensus       257 ~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          257 FLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            66455555555676  788888888765

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.63  E-value=8.2e-07  Score=67.61  Aligned_cols=180  Identities=13%  Similarity=0.029  Sum_probs=103.0

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC--CC----hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCc-chH
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PN----LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNE-FTL  127 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~  127 (258)
                      ...+-.+...+.+.|  ++++|...|+++.+  |+    ...+..+..++.+.|++++|+..|++..+...-.+.. .++
T Consensus         4 ~~~~~~~a~~~~~~g--~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~   81 (225)
T 2yhc_A            4 PNEIYATAQQKLQDG--NWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVM   81 (225)
T ss_dssp             HHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHH
Confidence            334445555666777  88888877776643  32    2456677777778888888888887773333211111 122


Q ss_pred             HHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CCh-hhH----------------
Q 038429          128 PFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KDV-VSW----------------  188 (258)
Q Consensus       128 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~-~~~----------------  188 (258)
                      ..+..++...+.-     .       ...|..+-..+...|+.++|...|+...+  |+. ..+                
T Consensus        82 ~~~g~~~~~~~~~-----~-------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~  149 (225)
T 2yhc_A           82 YMRGLTNMALDDS-----A-------LQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKY  149 (225)
T ss_dssp             HHHHHHHHHHHC--------------------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhh-----h-------hhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHH
Confidence            2222222211100     0       00011111222234556666666655543  321 111                


Q ss_pred             -HHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          189 -NSMISGFVEGGFFEKAIELYREMEVENVKPDE----VTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       189 -~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                       -.+...|.+.|++++|...|+++.+..  |+.    ..+..+..++.+.|+.++|.+.++.+...+
T Consensus       150 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          150 EYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence             234456788899999999999988752  442    467888889999999999999999887654

>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=98.62  E-value=2.4e-07  Score=67.70  Aligned_cols=156  Identities=6%  Similarity=-0.119  Sum_probs=82.6

Q ss_pred             hhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHh
Q 038429           58 ASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAA  134 (258)
Q Consensus        58 ~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~  134 (258)
                      +..+...+...|  ++++|...|++..+   .+...+..+...+.+.|++++|+..|+.. ...  .|+.. +..+...+
T Consensus         9 ~~~~a~~~~~~g--~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a-~~~--~p~~~-~~~~~~~~   82 (176)
T 2r5s_A            9 LLKQVSELLQQG--EHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATI-PLE--YQDNS-YKSLIAKL   82 (176)
T ss_dssp             HHHHHHHHHHTT--CHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTC-CGG--GCCHH-HHHHHHHH
T ss_pred             HHHHHHHHHHcC--CHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHh-hhc--cCChH-HHHHHHHH
Confidence            334445555666  77777777766654   34556666666777777777777766655 221  12221 11111000


Q ss_pred             cCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcC--CC-ChhhHHHHHHHHHcCCChHHHHHHHHHH
Q 038429          135 ARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIG--KK-DVVSWNSMISGFVEGGFFEKAIELYREM  211 (258)
Q Consensus       135 ~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m  211 (258)
                                                  .+...+...+|...|+...  .| +...+..+-..+...|++++|...|++.
T Consensus        83 ----------------------------~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  134 (176)
T 2r5s_A           83 ----------------------------ELHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNI  134 (176)
T ss_dssp             ----------------------------HHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ----------------------------HHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence                                        0011111122344444332  23 4556666666666677777777777666


Q ss_pred             HHcCCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          212 EVENVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       212 ~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .+..-.+ +...+..+...+...|+.++|...|++..
T Consensus       135 l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          135 LKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            5543211 23456666666777777777776666554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.61  E-value=2.3e-07  Score=73.72  Aligned_cols=194  Identities=11%  Similarity=-0.081  Sum_probs=139.9

Q ss_pred             hHHHHHHHHHhhccCcchhhhhhhhhhhhcc-CCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHh
Q 038429           38 QLKRIHAQMLSTDFFFDPYSASKLFTPCALS-TFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVY  116 (258)
Q Consensus        38 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  116 (258)
                      +|.+++.+..+.- +++...+ .+   |... + .++++|...|++.           ...|...|++++|+..|.+...
T Consensus         3 ~a~~~~~~a~k~~-~~~~~~~-~~---~~~~~~-~~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~   65 (292)
T 1qqe_A            3 DPVELLKRAEKKG-VPSSGFM-KL---FSGSDS-YKFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAAD   65 (292)
T ss_dssp             CHHHHHHHHHHHS-SCCCTHH-HH---HSCCSH-HHHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHh-CcCCCcc-hh---cCCCCC-ccHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHH
Confidence            4566666665553 3222223 22   2221 2 0377887776654           5678889999999999987632


Q ss_pred             ---cCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc---c---Cc----hhHHHHHHHHHHhc-CCHHHHHHHHHhcC
Q 038429          117 ---NSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF---E---DD----LVISNSLIHFYAVC-GDLAMAYCVFVMIG  181 (258)
Q Consensus       117 ---~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~---~---~~----~~~~~~li~~~~~~-g~~~~a~~~~~~m~  181 (258)
                         +.|-+++ ..+|+.+..+|.+.|++++|...++..   .   .+    ..+++.+-..|... |++++|...|++..
T Consensus        66 ~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al  145 (292)
T 1qqe_A           66 YQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAG  145 (292)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence               2232222 467899999999999999999988877   1   11    45788999999996 99999999998765


Q ss_pred             C--C---C----hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChh------hHHHHHHHHhccCChhHHHHHHHHH
Q 038429          182 K--K---D----VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEV------TMVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       182 ~--~---~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~------t~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      +  |   +    ..+|+.+...+...|++++|+..|++..+........      .|..+..++...|++++|...+++.
T Consensus       146 ~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a  225 (292)
T 1qqe_A          146 EWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEG  225 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGG
T ss_pred             HHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4  2   1    3568889999999999999999999988764322221      5677788889999999999999887


Q ss_pred             HH
Q 038429          247 EK  248 (258)
Q Consensus       247 ~~  248 (258)
                      .+
T Consensus       226 l~  227 (292)
T 1qqe_A          226 QS  227 (292)
T ss_dssp             GC
T ss_pred             Hh
Confidence            53

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.61  E-value=1.7e-07  Score=74.47  Aligned_cols=172  Identities=10%  Similarity=-0.027  Sum_probs=128.2

Q ss_pred             HHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-----CChhhHHHHHHHHhcCCChhhHHHHHHH
Q 038429           39 LKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----PNLYTWNTLIRAYSSSDEPIQSFMIFLQ  113 (258)
Q Consensus        39 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~  113 (258)
                      +...++.....+ .++..++..+..++...|  ++++|++++.+...     .+...+..++..+.+.|+++.|.+.++.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g--~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~  161 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILG--DLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDN  161 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHT--CHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC--CHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            455666666555 456666678888899999  99999999987632     3667888999999999999999999999


Q ss_pred             hHhcCCCCC-----CcchHHHHHHHh----cCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          114 LVYNSPYFP-----NEFTLPFVIKAA----ARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       114 m~~~~~~~p-----~~~~~~~ll~~~----~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      | .+.  .|     +..+...+..++    ...++...|..+|+.+   .|+..+...++.++.+.|++++|++.++.+.
T Consensus       162 ~-~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          162 Y-TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             H-HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             H-Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9 543  45     355666666553    2344899999999999   5554455566668999999999999997653


Q ss_pred             C------------C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh
Q 038429          182 K------------K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE  220 (258)
Q Consensus       182 ~------------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  220 (258)
                      +            | |..+.-.+|......|+  +|.+++.++++.  .|+.
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~h  286 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEH  286 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCC
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCC
Confidence            3            3 66677556555555676  889999999885  3554

>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=98.60  E-value=3.9e-07  Score=66.56  Aligned_cols=150  Identities=11%  Similarity=-0.035  Sum_probs=97.9

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHHHHHHH-HhcCCCh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWNTLIRA-YSSSDEP  104 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~-~~~~g~~  104 (258)
                      ..+...|++++|...++...+.. +.+...+..+..++...|  ++++|...|++..+  |+...+...... +.+.+..
T Consensus        14 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g--~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~   90 (176)
T 2r5s_A           14 SELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETK--QFELAQELLATIPLEYQDNSYKSLIAKLELHQQAAE   90 (176)
T ss_dssp             HHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTT--CHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCC--CHHHHHHHHHHhhhccCChHHHHHHHHHHHHhhccc
Confidence            35667899999999999988765 446778899999999999  99999999999865  433222221111 1111122


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--  182 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--  182 (258)
                      .+|+..|++....   .                             +.+...+..+...+...|++++|.+.|++..+  
T Consensus        91 ~~a~~~~~~al~~---~-----------------------------P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~  138 (176)
T 2r5s_A           91 SPELKRLEQELAA---N-----------------------------PDNFELACELAVQYNQVGRDEEALELLWNILKVN  138 (176)
T ss_dssp             CHHHHHHHHHHHH---S-----------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             chHHHHHHHHHHh---C-----------------------------CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC
Confidence            2344455444111   1                             23455666677777777777777777776543  


Q ss_pred             CC---hhhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          183 KD---VVSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       183 ~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      |+   ...+..+...+...|+.++|...|++..
T Consensus       139 p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          139 LGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             TTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             cccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            32   3467777777777777777777776543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.60  E-value=1.7e-06  Score=73.06  Aligned_cols=209  Identities=8%  Similarity=-0.090  Sum_probs=106.3

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCCh---HHHHHHhccCCCCChhhHHHHHHHHhcCC---
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSL---EYARKMFDQIPQPNLYTWNTLIRAYSSSD---  102 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~---~~a~~~~~~m~~~~~~~~~~li~~~~~~g---  102 (258)
                      ...+.|++++|.++|....+.|   ++..+..|-..|...|  +.   ++|...|++..+.+...+..+-..+...+   
T Consensus        12 ~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g--~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~   86 (452)
T 3e4b_A           12 EALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTR--DPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGAT   86 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC------------------------------CHHHHHHHHHTC--CC
T ss_pred             HHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccC--CCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCC
Confidence            4456789999999999998887   3445556666666666  66   89999998887667788888888666665   


Q ss_pred             --ChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc------------------------------
Q 038429          103 --EPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF------------------------------  150 (258)
Q Consensus       103 --~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~------------------------------  150 (258)
                        ++++|+..|+.. .+.|.   ...+..|-..|...+..+.+...++.+                              
T Consensus        87 ~~~~~~A~~~~~~A-a~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~  162 (452)
T 3e4b_A           87 EAEHHEAESLLKKA-FANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLD  162 (452)
T ss_dssp             HHHHHHHHHHHHHH-HHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHH
T ss_pred             CcCHHHHHHHHHHH-HHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHH
Confidence              778999999988 55442   225555555555444433322222222                              


Q ss_pred             ----------cCchhHHHHHHHHHHhcC---CHHHHHHHHHhcCC---CChhhHHHHHHHHHcC----CChHHHHHHHHH
Q 038429          151 ----------EDDLVISNSLIHFYAVCG---DLAMAYCVFVMIGK---KDVVSWNSMISGFVEG----GFFEKAIELYRE  210 (258)
Q Consensus       151 ----------~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~----g~~~~a~~~~~~  210 (258)
                                ..+...+..|-..|.+.|   +.++|.+.|+...+   ++...+..|-..|...    ++.++|..+|++
T Consensus       163 ~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~  242 (452)
T 3e4b_A          163 DVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEK  242 (452)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHH
Confidence                      233335555556666666   66666666654422   2333334444444333    466666666666


Q ss_pred             HHHcCCCCChhhHHHHHHH-H--hccCChhHHHHHHHHHHHcC
Q 038429          211 MEVENVKPDEVTMVVVLSA-C--AKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       211 m~~~~~~p~~~t~~~li~~-~--~~~g~~~~a~~~~~~m~~~g  250 (258)
                      .. .|   +...+..|-.. +  ...+++++|.+.|++..+.|
T Consensus       243 aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g  281 (452)
T 3e4b_A          243 IA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD  281 (452)
T ss_dssp             HG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT
T ss_pred             Hc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC
Confidence            55 22   23334444443 2  34667777777777666655

>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=98.60  E-value=5.3e-07  Score=67.61  Aligned_cols=89  Identities=7%  Similarity=-0.126  Sum_probs=56.0

Q ss_pred             hhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCc
Q 038429           58 ASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARP  137 (258)
Q Consensus        58 ~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~  137 (258)
                      +..+...+...|  ++++|...|++...++..+|..+...+.+.|++++|+..|++.....  +.+..++..+..++...
T Consensus         9 ~~~~g~~~~~~~--~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A            9 LWNEGVLAADKK--DWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHHHTT--CHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhC--CHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHc
Confidence            344555566667  77778777777766777777777777777778888777777763221  22334455555555555


Q ss_pred             CCcchhhhhhhcc
Q 038429          138 VQFRVGQAIHGMF  150 (258)
Q Consensus       138 ~~~~~a~~~~~~~  150 (258)
                      |++++|...++..
T Consensus        85 ~~~~~A~~~~~~a   97 (213)
T 1hh8_A           85 EKYDLAIKDLKEA   97 (213)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHH
Confidence            5555555555444

>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=98.59  E-value=1.5e-06  Score=65.66  Aligned_cols=158  Identities=9%  Similarity=-0.051  Sum_probs=87.7

Q ss_pred             ChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcC----Ccchhhhhhhcc--cCchhHHHHH
Q 038429           87 NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPV----QFRVGQAIHGMF--EDDLVISNSL  160 (258)
Q Consensus        87 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~----~~~~a~~~~~~~--~~~~~~~~~l  160 (258)
                      +..++..+-..|...+++++|+..|++. .+.|   +..++..|-..|.. +    ++++|...++..  ..+...+..|
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a-~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g~~~a~~~L   91 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKA-AAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAGSKSGEIVL   91 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHH-HHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHH-HHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3334444444444444444444444444 2222   22333333333333 3    344444444444  3344455555


Q ss_pred             HHHHHh----cCCHHHHHHHHHhcCCCC-----hhhHHHHHHHHHc----CCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 038429          161 IHFYAV----CGDLAMAYCVFVMIGKKD-----VVSWNSMISGFVE----GGFFEKAIELYREMEVENVKPDEVTMVVVL  227 (258)
Q Consensus       161 i~~~~~----~g~~~~a~~~~~~m~~~~-----~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~t~~~li  227 (258)
                      -..|..    .+++++|.+.|+...+.+     ...+..|-..|..    .++.++|..+|++..+.  ..+...+..|-
T Consensus        92 g~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~Lg  169 (212)
T 3rjv_A           92 ARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYWAG  169 (212)
T ss_dssp             HHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHHHH
T ss_pred             HHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHHHH
Confidence            555554    667777877777665532     4667777677766    66788888888877665  23444555666


Q ss_pred             HHHhcc-C-----ChhHHHHHHHHHHHcCC
Q 038429          228 SACAKK-R-----DLEFGIWVSSHIEKNGI  251 (258)
Q Consensus       228 ~~~~~~-g-----~~~~a~~~~~~m~~~g~  251 (258)
                      ..|... |     +.++|...++...+.|.
T Consensus       170 ~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          170 MMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            666543 2     78888888888777664

>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=98.59  E-value=3.7e-07  Score=79.30  Aligned_cols=142  Identities=7%  Similarity=-0.071  Sum_probs=107.6

Q ss_pred             ChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhh
Q 038429           72 SLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHG  148 (258)
Q Consensus        72 ~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  148 (258)
                      ++++|...|++..+   .+...|..+...+.+.|++++|+..|++. .+.. +-+..++..+..++...|++++|...++
T Consensus         4 ~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a-l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            4 DGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRG-LALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             -----------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHH-HTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            88999999988764   45788999999999999999999999998 4432 3346778888899999999999999988


Q ss_pred             cc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcC---CChHHHHHHHHHHHHcC
Q 038429          149 MF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEG---GFFEKAIELYREMEVEN  215 (258)
Q Consensus       149 ~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~~  215 (258)
                      ..    +.+...+..+...|.+.|++++|.+.|++..+  | +...+..+...+...   |+.++|.+.+++..+.+
T Consensus        82 ~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           82 QASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            88    55677899999999999999999999987653  3 667888888899888   99999999999888764

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.58  E-value=2e-06  Score=72.52  Aligned_cols=84  Identities=5%  Similarity=-0.153  Sum_probs=58.7

Q ss_pred             CcccccchhhHHHHHHHHHhh-----c---cCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-----------CChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLST-----D---FFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----------PNLY   89 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~-----~---~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----------~~~~   89 (258)
                      .....|+.++|.+.|....+.     +   ......+|+.+..+|...|  ++++|...+++..+           ....
T Consensus        60 ~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g--~~~~A~~~~~ka~~i~~~~~~~~~~~~~~  137 (472)
T 4g1t_A           60 LKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMG--RLSDVQIYVDKVKHVCEKFSSPYRIESPE  137 (472)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHSCCSSCCCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcC--ChHHHHHHHHHHHHHhHhcccccchhhHH
Confidence            556678999999999887653     1   1223457889999999999  99999888765421           1234


Q ss_pred             hHHHHHHHHhc--CCChhhHHHHHHHh
Q 038429           90 TWNTLIRAYSS--SDEPIQSFMIFLQL  114 (258)
Q Consensus        90 ~~~~li~~~~~--~g~~~~a~~~~~~m  114 (258)
                      +|+.+..++..  .+++++|+..|++.
T Consensus       138 ~~~~~g~~~~~~~~~~y~~A~~~~~ka  164 (472)
T 4g1t_A          138 LDCEEGWTRLKCGGNQNERAKVCFEKA  164 (472)
T ss_dssp             HHHHHHHHHHHHCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccccHHHHHHHHHHH
Confidence            56655555544  35688888888876

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=98.57  E-value=4.6e-07  Score=76.45  Aligned_cols=177  Identities=12%  Similarity=-0.035  Sum_probs=96.0

Q ss_pred             ChHHHHHHhccCC---CCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCc-----------
Q 038429           72 SLEYARKMFDQIP---QPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARP-----------  137 (258)
Q Consensus        72 ~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~-----------  137 (258)
                      +.++|...+++..   ..+..++..+...|.+.|++++|+..|++..+..  +-+..++..+..+|...           
T Consensus       228 ~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~y~~~~~~~~~~~~~~  305 (472)
T 4g1t_A          228 EEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI--PNNAYLHCQIGCCYRAKVFQVMNLRENG  305 (472)
T ss_dssp             --CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            4455555554432   2455667777777777788888877777763221  12233444444333211           


Q ss_pred             --------CCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CChh----hHHHHHH-HHHcC
Q 038429          138 --------VQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KDVV----SWNSMIS-GFVEG  198 (258)
Q Consensus       138 --------~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~~----~~~~li~-~~~~~  198 (258)
                              +..+.|...++..    +.+...+..+-..|.+.|++++|.+.|++..+  |+..    .+..+.. .....
T Consensus       306 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~  385 (472)
T 4g1t_A          306 MYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQM  385 (472)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHC
Confidence                    1133444444444    45556777888888888999999888876532  3222    1222221 23467


Q ss_pred             CChHHHHHHHHHHHHcC-----------------------CCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          199 GFFEKAIELYREMEVEN-----------------------VKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       199 g~~~~a~~~~~~m~~~~-----------------------~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      |+.++|+..|++..+..                       -+.+..+|..+-..+...|++++|.+.|++..+.|
T Consensus       386 ~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          386 KCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             SCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             CCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            88888888877654421                       12345678888888888899999999888877644

>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=98.55  E-value=4.9e-07  Score=78.53  Aligned_cols=154  Identities=8%  Similarity=-0.113  Sum_probs=112.5

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHH
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFM  109 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~  109 (258)
                      .|++++|.+.+++..+.. +.+...+..+...+...|  ++++|...|++..+   .+...|..+...|.+.|++++|..
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMG--DTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHT--CHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            478899999999988765 345778999999999999  99999999987644   467889999999999999999999


Q ss_pred             HHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhc---CCHHHHHHHHHhcCC
Q 038429          110 IFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVC---GDLAMAYCVFVMIGK  182 (258)
Q Consensus       110 ~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~  182 (258)
                      .|++..+..  +.+...+..+..++.+.|++++|...++..    +.+...+..+...+...   |+.++|.+.+++..+
T Consensus        79 ~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           79 LLQQASDAA--PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            999984332  334678899999999999999999999988    55677899999999999   999999999988754


Q ss_pred             --C-ChhhHHHH
Q 038429          183 --K-DVVSWNSM  191 (258)
Q Consensus       183 --~-~~~~~~~l  191 (258)
                        | +...|..+
T Consensus       157 ~~p~~~~~~~~l  168 (568)
T 2vsy_A          157 QGVGAVEPFAFL  168 (568)
T ss_dssp             HTCCCSCHHHHT
T ss_pred             cCCcccChHHHh
Confidence              3 34444443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.53  E-value=1.2e-06  Score=71.94  Aligned_cols=181  Identities=12%  Similarity=-0.027  Sum_probs=134.9

Q ss_pred             hhhhccCCCChHHHHHHhccCCC-----C----ChhhHHHHHHHHhcCCChhhHHHHHHHhHhc---CC-CCC-CcchHH
Q 038429           63 TPCALSTFSSLEYARKMFDQIPQ-----P----NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYN---SP-YFP-NEFTLP  128 (258)
Q Consensus        63 ~~~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~-~~p-~~~~~~  128 (258)
                      ..+...|  ++++|...|++..+     +    ...++..+...|...|+++.|+..+++...-   .+ ..+ ...+++
T Consensus       109 ~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          109 MYEFDQK--EYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHTT--CHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHC--CHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            3455677  99999999986543     2    3457889999999999999999999886321   11 111 245678


Q ss_pred             HHHHHhcCcCCcchhhhhhhcc------cC----chhHHHHHHHHHHhcCCHHHHHHHHHhcCC-------C-ChhhHHH
Q 038429          129 FVIKAAARPVQFRVGQAIHGMF------ED----DLVISNSLIHFYAVCGDLAMAYCVFVMIGK-------K-DVVSWNS  190 (258)
Q Consensus       129 ~ll~~~~~~~~~~~a~~~~~~~------~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-------~-~~~~~~~  190 (258)
                      .+-..+...|+++.|...++..      .+    ...+++.+-..|...|++++|.+.|++..+       | ...++..
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            8889999999999999988877      11    235788899999999999999999987653       2 3457788


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHcCCC---C-ChhhHHHHHHHHhccCC---hhHHHHHHHH
Q 038429          191 MISGFVEGGFFEKAIELYREMEVENVK---P-DEVTMVVVLSACAKKRD---LEFGIWVSSH  245 (258)
Q Consensus       191 li~~~~~~g~~~~a~~~~~~m~~~~~~---p-~~~t~~~li~~~~~~g~---~~~a~~~~~~  245 (258)
                      +...|.+.|++++|...+++..+..-.   | ....+..+-..+...|+   +++|...+++
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~  328 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK  328 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh
Confidence            889999999999999999998764211   2 23346666667777888   6666666654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.52  E-value=4.8e-07  Score=71.73  Aligned_cols=156  Identities=7%  Similarity=-0.128  Sum_probs=124.5

Q ss_pred             CcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHH
Q 038429           52 FFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLP  128 (258)
Q Consensus        52 ~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~  128 (258)
                      +.+...+..+...+...|  ++++|...|++..+   .+...+..+...+.+.|++++|...+++. ...  .|+.....
T Consensus       114 p~~~~~~~~~a~~~~~~g--~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~-~~~--~p~~~~~~  188 (287)
T 3qou_A          114 PREEELXAQQAMQLMQES--NYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTI-PLQ--DQDTRYQG  188 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTS-CGG--GCSHHHHH
T ss_pred             CCchhhHHHHHHHHHhCC--CHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhC-chh--hcchHHHH
Confidence            455667778888888999  99999999997743   56788999999999999999999999987 332  34433222


Q ss_pred             -HHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CC---hhhHHHHHHHHHcC
Q 038429          129 -FVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KD---VVSWNSMISGFVEG  198 (258)
Q Consensus       129 -~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~---~~~~~~li~~~~~~  198 (258)
                       .....+...++.+.|...++..    +.+...+..+...|...|++++|.+.|.+..+  |+   ...+..+...+...
T Consensus       189 ~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          189 LVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHc
Confidence             2223356677788788777776    66778999999999999999999999998764  43   56899999999999


Q ss_pred             CChHHHHHHHHHHH
Q 038429          199 GFFEKAIELYREME  212 (258)
Q Consensus       199 g~~~~a~~~~~~m~  212 (258)
                      |+.++|...+++-.
T Consensus       269 g~~~~a~~~~r~al  282 (287)
T 3qou_A          269 GTGDALASXYRRQL  282 (287)
T ss_dssp             CTTCHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHH
Confidence            99999999887754

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.51  E-value=1.3e-06  Score=66.46  Aligned_cols=169  Identities=13%  Similarity=0.070  Sum_probs=114.7

Q ss_pred             CcccccchhhHHHHHHHHHhhccCc--chhhhhhhhhhhhccCCCChHHHHHHhccCCC--CCh----hhHHHHHHHHhc
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFF--DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNL----YTWNTLIRAYSS  100 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~  100 (258)
                      .+...|++++|...|+.+.+.....  ....+..+..++.+.|  ++++|...|++..+  |+.    .++..+..++.+
T Consensus        13 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~--~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~   90 (225)
T 2yhc_A           13 QKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNA--DLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMA   90 (225)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHh
Confidence            4566799999999999999864221  2356778888999999  99999999998753  332    245555555543


Q ss_pred             ------------------CCChhhHHHHHHHhHhcCCCCCCc-chHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHH
Q 038429          101 ------------------SDEPIQSFMIFLQLVYNSPYFPNE-FTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLI  161 (258)
Q Consensus       101 ------------------~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li  161 (258)
                                        .|++++|+..|++..+..   |+. .++.......          .+.   ..-....-.+.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~---P~~~~a~~a~~~l~----------~~~---~~~~~~~~~~a  154 (225)
T 2yhc_A           91 LDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY---PNSQYTTDATKRLV----------FLK---DRLAKYEYSVA  154 (225)
T ss_dssp             HHC--------------CCHHHHHHHHHHHHHHTTC---TTCTTHHHHHHHHH----------HHH---HHHHHHHHHHH
T ss_pred             hhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC---cCChhHHHHHHHHH----------HHH---HHHHHHHHHHH
Confidence                              567888888888873322   332 2222111100          000   00011123456


Q ss_pred             HHHHhcCCHHHHHHHHHhcCC--CCh----hhHHHHHHHHHcCCChHHHHHHHHHHHHcC
Q 038429          162 HFYAVCGDLAMAYCVFVMIGK--KDV----VSWNSMISGFVEGGFFEKAIELYREMEVEN  215 (258)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  215 (258)
                      ..|.+.|++++|...|+.+.+  |+.    ..+..+..+|.+.|+.++|...++.+...+
T Consensus       155 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          155 EYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            778899999999999998764  432    467888999999999999999999888764

>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=98.49  E-value=2.3e-06  Score=64.06  Aligned_cols=86  Identities=6%  Similarity=-0.197  Sum_probs=49.6

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHH
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYA  165 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~  165 (258)
                      .+..+...+...|++++|+..|++.     +.|+..++..+..++...|++++|...++..    +.+...|..+..+|.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHH
Confidence            3555666677777777777777655     2445555555555555555555555555554    334445555555555


Q ss_pred             hcCCHHHHHHHHHhc
Q 038429          166 VCGDLAMAYCVFVMI  180 (258)
Q Consensus       166 ~~g~~~~a~~~~~~m  180 (258)
                      +.|++++|.+.|+..
T Consensus        83 ~~~~~~~A~~~~~~a   97 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEA   97 (213)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             HcccHHHHHHHHHHH
Confidence            555555555555443

>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=98.47  E-value=2.7e-07  Score=82.08  Aligned_cols=163  Identities=7%  Similarity=-0.087  Sum_probs=129.4

Q ss_pred             hccCCCChHHHHHHhccCC-----------CCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHh
Q 038429           66 ALSTFSSLEYARKMFDQIP-----------QPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAA  134 (258)
Q Consensus        66 ~~~~~~~~~~a~~~~~~m~-----------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~  134 (258)
                      ...|  ++++|...+++..           ..+...|..+...+.+.|++++|+..|++..+..  +-+...|..+-.++
T Consensus       402 ~~~~--~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~  477 (681)
T 2pzi_A          402 TVLS--QPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV--GWRWRLVWYRAVAE  477 (681)
T ss_dssp             TTTC--CHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--CCCHHHHHHHHHHH
T ss_pred             cccc--CHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC--cchHHHHHHHHHHH
Confidence            5566  9999999888664           2466788899999999999999999999884322  23567888888899


Q ss_pred             cCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHH
Q 038429          135 ARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIEL  207 (258)
Q Consensus       135 ~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~  207 (258)
                      ...|++++|...|+..    +.+...|..+-.+|.+.|++++ .+.|++..+  | +...|..+-..+.+.|++++|...
T Consensus       478 ~~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          478 LLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HHHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999988    5567789999999999999999 999987653  4 667899999999999999999999


Q ss_pred             HHHHHHcCCCCC-hhhHHHHHHHHhccCC
Q 038429          208 YREMEVENVKPD-EVTMVVVLSACAKKRD  235 (258)
Q Consensus       208 ~~~m~~~~~~p~-~~t~~~li~~~~~~g~  235 (258)
                      |++..+  +.|+ ...+..+..++...|+
T Consensus       557 ~~~al~--l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPP--TSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCT--TSTTHHHHHHHHHHHTC----
T ss_pred             HHhhcc--cCcccHHHHHHHHHHHHccCC
Confidence            988665  3465 4567777777766554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.45  E-value=5.7e-07  Score=67.69  Aligned_cols=159  Identities=11%  Similarity=0.017  Sum_probs=104.9

Q ss_pred             hhhhhhhccCCCChHHHHHHhccCCC--C-ChhhHHH----------------HHHHHhcCCChhhHHHHHHHhHhcCCC
Q 038429           60 KLFTPCALSTFSSLEYARKMFDQIPQ--P-NLYTWNT----------------LIRAYSSSDEPIQSFMIFLQLVYNSPY  120 (258)
Q Consensus        60 ~li~~~~~~~~~~~~~a~~~~~~m~~--~-~~~~~~~----------------li~~~~~~g~~~~a~~~~~~m~~~~~~  120 (258)
                      .....+...|  ++++|...|++..+  | +...|..                +...+.+.|++++|+..|++..+..  
T Consensus         9 ~~g~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--   84 (208)
T 3urz_A            9 QKVSAAIEAG--QNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA--   84 (208)
T ss_dssp             HHHHHHHHTT--CHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHCC--CHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--
Confidence            3344556677  88888888887654  2 3455666                7888888888888888888873322  


Q ss_pred             CCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCC--HHHHHHHHHhcCCCChhh--HHHHH
Q 038429          121 FPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGD--LAMAYCVFVMIGKKDVVS--WNSMI  192 (258)
Q Consensus       121 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~~~~~--~~~li  192 (258)
                      +-+...+..+-.++...|++++|...++..    +.+...|..+-..|...|+  .+.+...+.....|+...  +...-
T Consensus        85 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~g  164 (208)
T 3urz_A           85 PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKMQYARYRDG  164 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCchhHHHHHHH
Confidence            234567778888888888888888888877    5556677777777765543  445566666666665433  22233


Q ss_pred             HHHHcCCChHHHHHHHHHHHHcCCCCChhhHH
Q 038429          193 SGFVEGGFFEKAIELYREMEVENVKPDEVTMV  224 (258)
Q Consensus       193 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~  224 (258)
                      .++...|++++|...|++..+  +.|+.....
T Consensus       165 ~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~  194 (208)
T 3urz_A          165 LSKLFTTRYEKARNSLQKVIL--RFPSTEAQK  194 (208)
T ss_dssp             HHHHHHHTHHHHHHHHHHHTT--TSCCHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHH--hCCCHHHHH
Confidence            344556788888888887665  456654433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.43  E-value=1.8e-06  Score=64.94  Aligned_cols=52  Identities=8%  Similarity=0.117  Sum_probs=24.4

Q ss_pred             hhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHh
Q 038429           61 LFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQL  114 (258)
Q Consensus        61 li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m  114 (258)
                      +..++.+.|  ++++|...|++..+   .+...|..+...+...|++++|+..|++.
T Consensus        60 lg~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a  114 (208)
T 3urz_A           60 LALAYKKNR--NYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKI  114 (208)
T ss_dssp             HHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHCC--CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444444444  55555544443321   23444444555555555555555555444

>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=98.41  E-value=2.9e-06  Score=67.81  Aligned_cols=149  Identities=7%  Similarity=-0.104  Sum_probs=80.6

Q ss_pred             cccccchhhHHHHHHHHHhhccC-----cchhhhhhhhhhhhccCCCChHHHHHHhccCCC-------C--ChhhHHHHH
Q 038429           30 PHFLTNQKQLKRIHAQMLSTDFF-----FDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-------P--NLYTWNTLI   95 (258)
Q Consensus        30 ~~~~~~~~~a~~~~~~m~~~~~~-----~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-------~--~~~~~~~li   95 (258)
                      +...|++++|...+.+.......     ....+|+.+..+|.+.|  ++++|...|++..+       +  -..+++.+.
T Consensus        46 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g--~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           46 FKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQ--RMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--CGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33445556666666555543111     01235566666666666  66666665554321       1  134566666


Q ss_pred             HHHhcCCChhhHHHHHHHhHhc---CCCCC-CcchHHHHHHHhcCcCCcchhhhhhhcc------cCc----hhHHHHHH
Q 038429           96 RAYSSSDEPIQSFMIFLQLVYN---SPYFP-NEFTLPFVIKAAARPVQFRVGQAIHGMF------EDD----LVISNSLI  161 (258)
Q Consensus        96 ~~~~~~g~~~~a~~~~~~m~~~---~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~------~~~----~~~~~~li  161 (258)
                      ..|.+ |++++|+..|++...-   .+-.+ ...++..+...+.+.|++++|...++..      .++    ...+..+.
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g  202 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQV  202 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            66666 7777777777665211   11100 0235566666677777777777666666      111    12445555


Q ss_pred             HHHHhcCCHHHHHHHHHhcC
Q 038429          162 HFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~  181 (258)
                      ..+...|++++|...|++..
T Consensus       203 ~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          203 LVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHh
Confidence            55666677777777776543

>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=98.39  E-value=6.4e-06  Score=62.07  Aligned_cols=170  Identities=11%  Similarity=-0.070  Sum_probs=135.3

Q ss_pred             hhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-CChhhHHHHHHHHhcCC----ChhhHHHHH
Q 038429           37 KQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-PNLYTWNTLIRAYSSSD----EPIQSFMIF  111 (258)
Q Consensus        37 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~~g----~~~~a~~~~  111 (258)
                      .+|.+.|....+.|   ++..+..|-..|...+  ++++|...|++..+ .+..++..|-..|.. +    ++++|+..|
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~--~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSG--DYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            35667777777765   6777888888888888  99999999987654 677888889888888 6    899999999


Q ss_pred             HHhHhcCCCCCCcchHHHHHHHhcC----cCCcchhhhhhhcc---cCc---hhHHHHHHHHHHh----cCCHHHHHHHH
Q 038429          112 LQLVYNSPYFPNEFTLPFVIKAAAR----PVQFRVGQAIHGMF---EDD---LVISNSLIHFYAV----CGDLAMAYCVF  177 (258)
Q Consensus       112 ~~m~~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~---~~~---~~~~~~li~~~~~----~g~~~~a~~~~  177 (258)
                      +.. .+.|   +..++..|-..|..    .+++++|...++..   .++   ...+..|-..|..    .++.++|...|
T Consensus        77 ~~A-~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           77 EKA-VEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHH-HHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHH-HHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            998 5544   55677778788877    78999999999988   332   6888899999988    88999999999


Q ss_pred             HhcCC--CChhhHHHHHHHHHcC-C-----ChHHHHHHHHHHHHcCC
Q 038429          178 VMIGK--KDVVSWNSMISGFVEG-G-----FFEKAIELYREMEVENV  216 (258)
Q Consensus       178 ~~m~~--~~~~~~~~li~~~~~~-g-----~~~~a~~~~~~m~~~~~  216 (258)
                      +...+  .+...+..|-..|... |     +.++|...|++..+.|.
T Consensus       153 ~~A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          153 KGSSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            87643  4666777777777543 3     89999999998887764

>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=98.37  E-value=5.1e-07  Score=64.30  Aligned_cols=103  Identities=7%  Similarity=-0.051  Sum_probs=56.4

Q ss_pred             HHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChH
Q 038429          130 VIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFE  202 (258)
Q Consensus       130 ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~  202 (258)
                      +-..|.+.|++++|...++..    +.+...|..+-.+|.+.|++++|...|+...+  | +...|..+...|.+.|+.+
T Consensus        37 la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~  116 (150)
T 4ga2_A           37 FAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTD  116 (150)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChH
Confidence            333344444444444444333    33455666677777777777777777765543  3 4556666777777777766


Q ss_pred             HHHHH-HHHHHHcCCCCC-hhhHHHHHHHHhccC
Q 038429          203 KAIEL-YREMEVENVKPD-EVTMVVVLSACAKKR  234 (258)
Q Consensus       203 ~a~~~-~~~m~~~~~~p~-~~t~~~li~~~~~~g  234 (258)
                      +|.+. +++..+.  .|+ ...|...-..+...|
T Consensus       117 ~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A          117 GRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             SHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            55544 3555442  343 344554444444444

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.36  E-value=3e-06  Score=60.41  Aligned_cols=119  Identities=13%  Similarity=-0.020  Sum_probs=88.3

Q ss_pred             HHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHH
Q 038429          127 LPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEK  203 (258)
Q Consensus       127 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~  203 (258)
                      ...+.+.+...+.+..+..+   -+.+...+..+-..+.+.|++++|.+.|+...+  | +...|..+-.+|...|++++
T Consensus        12 ~~~l~~~~~~~~~l~~al~l---~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~   88 (151)
T 3gyz_A           12 STAVIDAINSGATLKDINAI---PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQ   88 (151)
T ss_dssp             HHHHHHHHHTSCCTGGGCCS---CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHCCCCHHHHhCC---CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHH
Confidence            34444444444333333221   144556788888888999999999999987753  4 67788888889999999999


Q ss_pred             HHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          204 AIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       204 a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      |+..|++..+.  .| +...|..+-.+|.+.|++++|...|+...+..
T Consensus        89 Ai~~~~~al~l--~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A           89 AADLYAVAFAL--GKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHHHHH--SSSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999988775  34 45678888889999999999999999887654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.35  E-value=2.2e-06  Score=63.51  Aligned_cols=147  Identities=12%  Similarity=-0.033  Sum_probs=84.6

Q ss_pred             ChHHHHH---HhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHh---cCCCCCCcchHHHHHHHhcCcCCcchhhh
Q 038429           72 SLEYARK---MFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVY---NSPYFPNEFTLPFVIKAAARPVQFRVGQA  145 (258)
Q Consensus        72 ~~~~a~~---~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  145 (258)
                      ++++|.+   ++..-+.....++..+...+...|++++|...+++...   ..+..|                       
T Consensus         7 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~-----------------------   63 (203)
T 3gw4_A            7 DYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHT-----------------------   63 (203)
T ss_dssp             CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHH-----------------------
T ss_pred             cHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcH-----------------------
Confidence            7888888   65543334566778888888888888888888877622   111111                       


Q ss_pred             hhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----C-C----hhhHHHHHHHHHcCCChHHHHHHHHHHHHc-
Q 038429          146 IHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-----K-D----VVSWNSMISGFVEGGFFEKAIELYREMEVE-  214 (258)
Q Consensus       146 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~-~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-  214 (258)
                            .....++.+-..|...|++++|.+.+.+..+     + +    ...+..+-..+...|++++|...+++.... 
T Consensus        64 ------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  137 (203)
T 3gw4_A           64 ------AEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYA  137 (203)
T ss_dssp             ------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence                  1233455555566666666666665554321     1 1    224555566666667777776666665432 


Q ss_pred             ---CCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          215 ---NVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       215 ---~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                         +-.+ -..++..+...+...|++++|.+.+++..
T Consensus       138 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  174 (203)
T 3gw4_A          138 QQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRAR  174 (203)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence               1100 12234566666667777777777766554

>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=98.34  E-value=1.1e-06  Score=62.51  Aligned_cols=135  Identities=4%  Similarity=-0.127  Sum_probs=76.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      ...+.+++++|.+.+....... +-+...+-.+-..|.+.|  ++++|...|++..+   .+..+|..+...|.+.|+++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~--~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAK--EYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchH
Confidence            3445566777776666655443 223334455666677777  77777777765532   45667777777777777777


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhh-hhcc----cCchhHHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAI-HGMF----EDDLVISNSLIHFYAVCG  168 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~-~~~~----~~~~~~~~~li~~~~~~g  168 (258)
                      +|+..|+...+..  +-+..+|..+...+.+.|+.+++... ++..    +.+..+|......+.+.|
T Consensus        83 ~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           83 KAVECYRRSVELN--PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence            7777777663211  12344555566666666665554433 2332    334445554444444444

>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=98.31  E-value=6.5e-06  Score=58.72  Aligned_cols=126  Identities=12%  Similarity=0.033  Sum_probs=82.7

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcC
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCG  168 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g  168 (258)
                      ..|..+...+...|++++|...|+......                                +.+...+..+...|...|
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--------------------------------~~~~~~~~~~a~~~~~~~   61 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN--------------------------------PSNAIYYGNRSLAYLRTE   61 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--------------------------------TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC--------------------------------CCChHHHHHHHHHHHHcC
Confidence            445666666666677777766666652211                                223456667777777788


Q ss_pred             CHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhH--HHHHHHHhccCChhHHHHHH
Q 038429          169 DLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTM--VVVLSACAKKRDLEFGIWVS  243 (258)
Q Consensus       169 ~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~--~~li~~~~~~g~~~~a~~~~  243 (258)
                      ++++|.+.|+...+  | +...|..+...+...|++++|...|++..+.. +.+...+  ......+.+.|++++|...+
T Consensus        62 ~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~  140 (166)
T 1a17_A           62 CYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGD  140 (166)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            88888888776543  3 56677777788888888888888888877652 1233344  33333366778888888888


Q ss_pred             HHHH
Q 038429          244 SHIE  247 (258)
Q Consensus       244 ~~m~  247 (258)
                      ....
T Consensus       141 ~~~~  144 (166)
T 1a17_A          141 EHKR  144 (166)
T ss_dssp             HHHH
T ss_pred             cchH
Confidence            7654

>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=98.30  E-value=8.5e-06  Score=59.19  Aligned_cols=112  Identities=10%  Similarity=0.052  Sum_probs=53.4

Q ss_pred             cCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHH-HHhcCCH--HH
Q 038429          100 SSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHF-YAVCGDL--AM  172 (258)
Q Consensus       100 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~-~~~~g~~--~~  172 (258)
                      ..|++++|+..++......  +.+...+..+...+...|++++|...++..    +.+...+..+... |...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHC--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHH
Confidence            3455555555555542211  123344555555555555555555555554    3344445555555 4455555  55


Q ss_pred             HHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          173 AYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       173 a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      |...|+...+  | +...+..+...|...|++++|...|++..+
T Consensus       100 A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          100 TRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            5555554432  2 334445555555555555555555555544

>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=98.29  E-value=1.4e-05  Score=63.31  Aligned_cols=152  Identities=5%  Similarity=-0.102  Sum_probs=114.2

Q ss_pred             hhhhhhhccCCCChHHHHHHhccCCC-----CC----hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCc----ch
Q 038429           60 KLFTPCALSTFSSLEYARKMFDQIPQ-----PN----LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNE----FT  126 (258)
Q Consensus        60 ~li~~~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~----~~  126 (258)
                      ..+..+...|  ++++|..++++..+     ++    ...+..+...+...|++++|+..|+.......-.++.    .+
T Consensus        80 ~~i~~~~~~~--~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 3u3w_A           80 DQVIMLCKQK--RYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHTT--CHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHH
T ss_pred             HHHHHHHHHh--hHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHH
Confidence            3466778888  99999999987543     22    1234457777788889999999999983322222232    26


Q ss_pred             HHHHHHHhcCcCCcchhhhhhhcc------c-C----chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--------C-Chh
Q 038429          127 LPFVIKAAARPVQFRVGQAIHGMF------E-D----DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--------K-DVV  186 (258)
Q Consensus       127 ~~~ll~~~~~~~~~~~a~~~~~~~------~-~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--------~-~~~  186 (258)
                      ++.+..+|...|+++.|...++..      . .    ...+++.+...|.+.|++++|.+.+++..+        + -..
T Consensus       158 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~  237 (293)
T 3u3w_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHH
Confidence            889999999999999999988887      1 1    224788999999999999999999986643        1 145


Q ss_pred             hHHHHHHHHHcCCC-hHHHHHHHHHHHH
Q 038429          187 SWNSMISGFVEGGF-FEKAIELYREMEV  213 (258)
Q Consensus       187 ~~~~li~~~~~~g~-~~~a~~~~~~m~~  213 (258)
                      +|..+-..|.+.|+ .++|...+++...
T Consensus       238 ~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            78888889999995 6999998887653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.28  E-value=1e-05  Score=54.39  Aligned_cols=93  Identities=16%  Similarity=0.139  Sum_probs=54.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACA  231 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  231 (258)
                      ..|..+...+.+.|++++|.+.|+++.+  | +...+..+...+...|++++|..+++++.... +.+..++..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            3455555666666666666666655432  2 44555666666666666666666666665532 224455566666666


Q ss_pred             ccCChhHHHHHHHHHHH
Q 038429          232 KKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       232 ~~g~~~~a~~~~~~m~~  248 (258)
                      ..|++++|...++++.+
T Consensus        89 ~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHH
Confidence            66666666666666554

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.26  E-value=8.2e-06  Score=54.91  Aligned_cols=95  Identities=16%  Similarity=0.212  Sum_probs=66.6

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhc
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVC  167 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~  167 (258)
                      ...|..+...+.+.|++++|...|+++....                                +.+...+..+...+.+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--------------------------------~~~~~~~~~la~~~~~~   56 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD--------------------------------PNNAEAWYNLGNAYYKQ   56 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------------------TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--------------------------------cCcHHHHHHHHHHHHHh
Confidence            4566777777777777777777777762211                                12344566677777778


Q ss_pred             CCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          168 GDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       168 g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      |++++|...|+.+.+   .+..++..+...+...|++++|...++++.+.
T Consensus        57 ~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           57 GDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            888888888776643   35667777888888888888888888887764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.24  E-value=2.1e-06  Score=67.43  Aligned_cols=175  Identities=8%  Similarity=-0.056  Sum_probs=122.7

Q ss_pred             ChHHHHHHhccCCC---CChhhHHHH-------HHHHhcCCChhhHHHHHHHhHhcCCCCCCcc----------------
Q 038429           72 SLEYARKMFDQIPQ---PNLYTWNTL-------IRAYSSSDEPIQSFMIFLQLVYNSPYFPNEF----------------  125 (258)
Q Consensus        72 ~~~~a~~~~~~m~~---~~~~~~~~l-------i~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~----------------  125 (258)
                      +...|.+.|.+...   .....|..+       ...+.+.++..+++..+..-   -++.|+..                
T Consensus        21 d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~---l~l~p~~l~a~~~~~g~y~~~~~~   97 (282)
T 4f3v_A           21 SEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGS---VQISMSTLNARIAIGGLYGDITYP   97 (282)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHT---TTCCGGGGCCEEECCTTTCCCEEE
T ss_pred             CHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHH---hcCChhhhhhhhccCCcccccccc
Confidence            88888888887654   344566666       34455444455555544433   23333211                


Q ss_pred             ------hHHHHHHHhcCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC-C----hhhHHHH
Q 038429          126 ------TLPFVIKAAARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK-D----VVSWNSM  191 (258)
Q Consensus       126 ------~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~----~~~~~~l  191 (258)
                            ..-.....+...|++++|..+++.+   .|+......+-..+.+.+++++|+..|+...+. +    ...+..+
T Consensus        98 v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~L  177 (282)
T 4f3v_A           98 VTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAH  177 (282)
T ss_dssp             CSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHH
T ss_pred             cCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHH
Confidence                  1234556778889999999999988   444336666677889999999999999866543 2    2367777


Q ss_pred             HHHHHcCCChHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          192 ISGFVEGGFFEKAIELYREMEVENVKPD--EVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       192 i~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      -.++...|++++|+..|++.......|.  .......-.++.+.|+.++|..+|+++...
T Consensus       178 G~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          178 GVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            8889999999999999998875433254  235666777788899999999999998765

>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=98.24  E-value=6.1e-06  Score=58.86  Aligned_cols=123  Identities=13%  Similarity=-0.029  Sum_probs=82.5

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHH
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVI  131 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll  131 (258)
                      ...+..+...+...|  +++.|...|++..+   .+..+|..+...+...|++++|+..|++.....   |+        
T Consensus        13 ~~~~~~~a~~~~~~~--~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~---~~--------   79 (166)
T 1a17_A           13 AEELKTQANDYFKAK--DYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD---KK--------   79 (166)
T ss_dssp             HHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TT--------
T ss_pred             HHHHHHHHHHHHHcc--CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---cc--------
Confidence            456777888888999  99999999987643   578889999999999999999999999883321   21        


Q ss_pred             HHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHH--HHHHHHcCCChHHHHH
Q 038429          132 KAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNS--MISGFVEGGFFEKAIE  206 (258)
Q Consensus       132 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~--li~~~~~~g~~~~a~~  206 (258)
                                           +...|..+...|.+.|++++|.+.|+...+  | +...+..  +...+...|++++|..
T Consensus        80 ---------------------~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~  138 (166)
T 1a17_A           80 ---------------------YIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIA  138 (166)
T ss_dssp             ---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ---------------------cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                                 223445555566666666666666655432  2 3333322  2223555566667766


Q ss_pred             HHHHH
Q 038429          207 LYREM  211 (258)
Q Consensus       207 ~~~~m  211 (258)
                      .++..
T Consensus       139 ~~~~~  143 (166)
T 1a17_A          139 GDEHK  143 (166)
T ss_dssp             HHHHH
T ss_pred             cccch
Confidence            66554

>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=98.24  E-value=2.9e-05  Score=68.66  Aligned_cols=210  Identities=11%  Similarity=-0.044  Sum_probs=124.1

Q ss_pred             hhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHH-HHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHH
Q 038429           36 QKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYAR-KMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIF  111 (258)
Q Consensus        36 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~-~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~  111 (258)
                      .+++..+|++++... ......|-..+..+...|  +.++|. .+|++...   .+...|-..+...-+.|++++|..+|
T Consensus       325 ~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~--~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iy  401 (679)
T 4e6h_A          325 KARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKN--TDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTI  401 (679)
T ss_dssp             HHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHS--CCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcC--cHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            455666777776653 335666666666666666  666665 66665432   34444666666667777777777777


Q ss_pred             HHhHhc---------CCCCCC------------cchHHHHHHHhcCcCCcchhhhhhhcc--c-C--chhHHHHHHHHHH
Q 038429          112 LQLVYN---------SPYFPN------------EFTLPFVIKAAARPVQFRVGQAIHGMF--E-D--DLVISNSLIHFYA  165 (258)
Q Consensus       112 ~~m~~~---------~~~~p~------------~~~~~~ll~~~~~~~~~~~a~~~~~~~--~-~--~~~~~~~li~~~~  165 (258)
                      +.....         .+. |+            ..+|...++...+.|+.+.|..+|...  . |  ....|......-.
T Consensus       402 ek~l~~l~~~~~~~~~~~-p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~  480 (679)
T 4e6h_A          402 LSCIDRIHLDLAALMEDD-PTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEY  480 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhhhcc-CcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            776321         011 31            235666666666677777777777776  2 2  1223322222222


Q ss_pred             hc-CCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC--ChhhHHHHHHHHhccCChhHH
Q 038429          166 VC-GDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP--DEVTMVVVLSACAKKRDLEFG  239 (258)
Q Consensus       166 ~~-g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~t~~~li~~~~~~g~~~~a  239 (258)
                      +. ++.+.|.++|+...+  | +...|...+......|+.+.|..+|++.....-.+  ....|...++--.+.|+.+.+
T Consensus       481 ~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~  560 (679)
T 4e6h_A          481 HISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSV  560 (679)
T ss_dssp             TTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHH
T ss_pred             HhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            33 347777777766544  3 44555666666666777777777777766543211  224566666666677777777


Q ss_pred             HHHHHHHHHc
Q 038429          240 IWVSSHIEKN  249 (258)
Q Consensus       240 ~~~~~~m~~~  249 (258)
                      ..+.+++.+.
T Consensus       561 ~~v~~R~~~~  570 (679)
T 4e6h_A          561 RTLEKRFFEK  570 (679)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777777654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.24  E-value=3.1e-06  Score=62.63  Aligned_cols=155  Identities=12%  Similarity=-0.042  Sum_probs=101.1

Q ss_pred             ccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---------CChhhHHHHHHHHhcC
Q 038429           31 HFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---------PNLYTWNTLIRAYSSS  101 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---------~~~~~~~~li~~~~~~  101 (258)
                      -..|++++|.+++..+.. .......++..+...+...|  ++++|...+++...         ....++..+...+...
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~   79 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMD--RFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMA   79 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhC--cHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHc
Confidence            357889999996555543 22345678888999999999  99999998876542         2456788899999999


Q ss_pred             CChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          102 DEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       102 g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      |++++|...+++......-.++..                         ......+..+-..+...|++++|.+.+++..
T Consensus        80 g~~~~A~~~~~~al~~~~~~~~~~-------------------------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  134 (203)
T 3gw4_A           80 GNWDAARRCFLEERELLASLPEDP-------------------------LAASANAYEVATVALHFGDLAGARQEYEKSL  134 (203)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSCCCH-------------------------HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCccH-------------------------HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            999999999988732211111100                         0012345566666777777777777776543


Q ss_pred             C-----CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          182 K-----KD----VVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       182 ~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      +     .+    ..++..+-..+...|++++|...+++..+
T Consensus       135 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          135 VYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            2     11    22456677777788888888887776543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.24  E-value=2e-05  Score=51.96  Aligned_cols=97  Identities=7%  Similarity=-0.085  Sum_probs=80.3

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC--ChhhHHHHH
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP--DEVTMVVVL  227 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~t~~~li  227 (258)
                      +...+..+...+.+.|++++|...|+...+   .+...|..+...+...|++++|...|++..+.. +.  +...+..+.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~   83 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKA   83 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHH
Confidence            456777888889999999999999987643   366788888899999999999999999988753 22  467788899


Q ss_pred             HHHhcc-CChhHHHHHHHHHHHcC
Q 038429          228 SACAKK-RDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       228 ~~~~~~-g~~~~a~~~~~~m~~~g  250 (258)
                      ..+.+. |++++|.+.++...+..
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhcc
Confidence            999999 99999999999987654

>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=98.23  E-value=8.1e-06  Score=57.84  Aligned_cols=93  Identities=15%  Similarity=-0.028  Sum_probs=48.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      ...+..+...+.+.|++++|...|+....  | +...|..+-.+|...|++++|+..|++..... +-+...+..+..++
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            33444455555555555555555554421  2 44455555555555555555555555554431 11234455555555


Q ss_pred             hccCChhHHHHHHHHHH
Q 038429          231 AKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       231 ~~~g~~~~a~~~~~~m~  247 (258)
                      ...|++++|...|+...
T Consensus       100 ~~~g~~~~A~~~~~~al  116 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQ  116 (148)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHH
Confidence            55555555555555544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.20  E-value=1.2e-05  Score=67.80  Aligned_cols=168  Identities=9%  Similarity=-0.038  Sum_probs=97.6

Q ss_pred             HHHhccCCCCChhhHHHHHHHHhcCC---ChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCc----CCcchhhhhhhc
Q 038429           77 RKMFDQIPQPNLYTWNTLIRAYSSSD---EPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARP----VQFRVGQAIHGM  149 (258)
Q Consensus        77 ~~~~~~m~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~----~~~~~a~~~~~~  149 (258)
                      ..+++...+.+..++..|-..|.+.|   +.++|+..|+.. .+.| .++...+..+-..|...    +++++|...|+.
T Consensus       165 ~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~a-a~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~  242 (452)
T 3e4b_A          165 ERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAG-VSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEK  242 (452)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHH-HHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHH-HHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHH
Confidence            33444444445556667777777777   667777777666 4444 22333334444455443    466666666666


Q ss_pred             c-cCchhHHHHHHHH-H--HhcCCHHHHHHHHHhcCCC-ChhhHHHHHHHHHcCC-----ChHHHHHHHHHHHHcCCCCC
Q 038429          150 F-EDDLVISNSLIHF-Y--AVCGDLAMAYCVFVMIGKK-DVVSWNSMISGFVEGG-----FFEKAIELYREMEVENVKPD  219 (258)
Q Consensus       150 ~-~~~~~~~~~li~~-~--~~~g~~~~a~~~~~~m~~~-~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~~~~~~p~  219 (258)
                      . +.+...+..|-.. |  ...|++++|.+.|++..++ +...+..|-..|. .|     +.++|...|++.. .   -+
T Consensus       243 aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~  317 (452)
T 3e4b_A          243 IAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAADQPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---RE  317 (452)
T ss_dssp             HGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TC
T ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CC
Confidence            6 4445555555555 3  3467777777777655443 4555555555555 33     6777777776655 2   24


Q ss_pred             hhhHHHHHHHHhc----cCChhHHHHHHHHHHHcCC
Q 038429          220 EVTMVVVLSACAK----KRDLEFGIWVSSHIEKNGI  251 (258)
Q Consensus       220 ~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~  251 (258)
                      ...+..|-..|..    ..+.++|...|+...+.|.
T Consensus       318 ~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          318 VAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             HHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence            4555555555555    3377777777777766653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.19  E-value=1.7e-05  Score=54.51  Aligned_cols=94  Identities=9%  Similarity=-0.053  Sum_probs=65.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACA  231 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  231 (258)
                      ..+...-..|.+.|++++|.+.|++..+  | +...|..+-.+|.+.|++++|+..|++..+.. +.+...|..+..++.
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            3566667777777777777777776542  3 56677777777777777777777777766642 123556777777777


Q ss_pred             ccCChhHHHHHHHHHHHc
Q 038429          232 KKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       232 ~~g~~~~a~~~~~~m~~~  249 (258)
                      ..|++++|.+.|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            777777777777777653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.18  E-value=8.1e-06  Score=64.60  Aligned_cols=154  Identities=5%  Similarity=-0.138  Sum_probs=114.8

Q ss_pred             hhhhhhhhhhccCCCChHHHHHHhccCCC---CC------hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC----
Q 038429           57 SASKLFTPCALSTFSSLEYARKMFDQIPQ---PN------LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN----  123 (258)
Q Consensus        57 ~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~----  123 (258)
                      .+...+..+...|  ++++|...+++..+   ..      ...+..+...+...|++++|+..+++......-..+    
T Consensus        77 ~l~~~~~~~~~~~--~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           77 QFKDQVIMLCKQK--RYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHTT--CHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHhh--hHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            4455677788888  99999988864321   11      123455667788889999999999887332211112    


Q ss_pred             cchHHHHHHHhcCcCCcchhhhhhhcc------cCc-----hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-------
Q 038429          124 EFTLPFVIKAAARPVQFRVGQAIHGMF------EDD-----LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-------  183 (258)
Q Consensus       124 ~~~~~~ll~~~~~~~~~~~a~~~~~~~------~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-------  183 (258)
                      ..+|+.+...|...|++++|...++..      .++     ..+++.+...|.+.|++++|.+.+++..+  +       
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            347888999999999999999998876      222     25889999999999999999999987543  1       


Q ss_pred             ChhhHHHHHHHHHcCCChHHH-HHHHHHHH
Q 038429          184 DVVSWNSMISGFVEGGFFEKA-IELYREME  212 (258)
Q Consensus       184 ~~~~~~~li~~~~~~g~~~~a-~~~~~~m~  212 (258)
                      -..+|..+-..|.+.|+.++| ...+++..
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            145788888999999999999 77777654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.17  E-value=8.8e-06  Score=57.96  Aligned_cols=96  Identities=10%  Similarity=-0.046  Sum_probs=63.0

Q ss_pred             ChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHh
Q 038429           87 NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAV  166 (258)
Q Consensus        87 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~  166 (258)
                      +...+..+...+.+.|++++|+..|+......                                +.+...|..+-.+|.+
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~--------------------------------P~~~~~~~~lg~~~~~   82 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD--------------------------------FYNVDYIMGLAAIYQI   82 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------------------TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------------------------CCCHHHHHHHHHHHHH
Confidence            44566667777777777777777777762211                                2244556666667777


Q ss_pred             cCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          167 CGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       167 ~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      .|++++|.+.|+...+  | +...|..+-.+|...|++++|...|++..+.
T Consensus        83 ~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A           83 KEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             TTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7777777777765542  3 5566777777777777777777777776664

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.15  E-value=1.7e-05  Score=53.80  Aligned_cols=116  Identities=11%  Similarity=-0.061  Sum_probs=69.0

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhc
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVC  167 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~  167 (258)
                      ...|..+...+...|++++|+..|++.....                                +.+...+..+...+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--------------------------------~~~~~~~~~~a~~~~~~   59 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN--------------------------------PANAVYFCNRAAAYSKL   59 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------------------TTCHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC--------------------------------CCCHHHHHHHHHHHHHh
Confidence            4455566666666666666666666652211                                12334555666666667


Q ss_pred             CCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCh
Q 038429          168 GDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDL  236 (258)
Q Consensus       168 g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~  236 (258)
                      |++++|.+.++...+  | +...+..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++
T Consensus        60 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           60 GNYAGAVQDCERAICIDPAYSKAYGRMGLALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             hchHHHHHHHHHHHhcCccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            777777777665432  2 45566666677777777777777777766542 12445556666666555553

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.15  E-value=9.3e-06  Score=55.48  Aligned_cols=28  Identities=4%  Similarity=-0.142  Sum_probs=16.0

Q ss_pred             ChhhHHHHHHHHhcCCChhhHHHHHHHh
Q 038429           87 NLYTWNTLIRAYSSSDEPIQSFMIFLQL  114 (258)
Q Consensus        87 ~~~~~~~li~~~~~~g~~~~a~~~~~~m  114 (258)
                      +...|..+...+.+.|++++|+..|++.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a   42 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEA   42 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444555555566666666666666555

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.14  E-value=1.8e-05  Score=54.35  Aligned_cols=99  Identities=9%  Similarity=-0.002  Sum_probs=66.5

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcC
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCG  168 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g  168 (258)
                      ..|...-..|.+.|++++|+..|++..+..                                +.+...|..+-.+|.+.|
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~--------------------------------p~~~~~~~~~~~~~~~~~   61 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD--------------------------------PENAILYSNRAACLTKLM   61 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------------------TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------------------------CCCHHHHHHHhhHHHhhc
Confidence            345566666666666666666666652211                                334556777777777888


Q ss_pred             CHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChh
Q 038429          169 DLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEV  221 (258)
Q Consensus       169 ~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  221 (258)
                      ++++|.+.|+...+   .+...|..+-.+|...|++++|...|++..+.  .|+..
T Consensus        62 ~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~l--~P~~~  115 (126)
T 4gco_A           62 EFQRALDDCDTCIRLDSKFIKGYIRKAACLVAMREWSKAQRAYEDALQV--DPSNE  115 (126)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             cHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcCCH
Confidence            88888888776543   35667777888888888888888888877763  45443

>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=98.13  E-value=1.8e-06  Score=68.18  Aligned_cols=186  Identities=8%  Similarity=-0.087  Sum_probs=90.7

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHH
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVI  131 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll  131 (258)
                      ...+..+...+.+.|  ++++|...|++..+   .+...|..+...|.+.|++++|+..++.. .+.. +-+...+..+.
T Consensus         4 a~~~~~~g~~~~~~g--~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~a-l~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            4 AQELKEQGNRLFVGR--KYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRA-LELD-GQSVKAHFFLG   79 (281)
T ss_dssp             HHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH-TTSC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHH-HHhC-CCCHHHHHHHH
Confidence            344555555666666  66666666665432   35566666666666666666666666665 2221 22344556666


Q ss_pred             HHhcCcCCcchhhhhhhcc---cC-chhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHH
Q 038429          132 KAAARPVQFRVGQAIHGMF---ED-DLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIEL  207 (258)
Q Consensus       132 ~~~~~~~~~~~a~~~~~~~---~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~  207 (258)
                      .++...|++++|...++..   .| +...+...+....+..+.......-. ...|+.......+..+. .|+.++|.+.
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~~~l~~l~-~~~~~~A~~~  157 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWNSIEE-RRIHQESELHSYLTRLI-AAERERELEE  157 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHHHHHHHHHHH-TCCCCCCHHHHHHHHHH-HHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHHHHHHHHHHHHH-HHHhhhHHHHHHHHHHH-HHHHHHHHHH
Confidence            6666666666666666655   11 11112222222222221122222222 22232222222222222 4666777666


Q ss_pred             HHHHHHcCCCCChhhH-HHHHHHHhcc-CChhHHHHHHHHHHH
Q 038429          208 YREMEVENVKPDEVTM-VVVLSACAKK-RDLEFGIWVSSHIEK  248 (258)
Q Consensus       208 ~~~m~~~~~~p~~~t~-~~li~~~~~~-g~~~~a~~~~~~m~~  248 (258)
                      +++..+  ..|+.... ..+-..+.+. +.+++|.++|....+
T Consensus       158 ~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          158 CQRNHE--GHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             TSGGGT--TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHhhhc--cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            665443  34544333 2332233333 556777777776643

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.13  E-value=3.4e-05  Score=52.58  Aligned_cols=93  Identities=12%  Similarity=-0.050  Sum_probs=45.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACA  231 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  231 (258)
                      ..|..+...+.+.|++++|.+.|+...+  | +...+..+...+...|++++|...+++..+.. +.+...+..+...+.
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~   95 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHH
Confidence            3444455555555555555555544322  2 34445555555555555555555555544431 113344455555555


Q ss_pred             ccCChhHHHHHHHHHHH
Q 038429          232 KKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       232 ~~g~~~~a~~~~~~m~~  248 (258)
                      +.|++++|.+.+++..+
T Consensus        96 ~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           96 AMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            55555555555555443

>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=98.12  E-value=6.7e-06  Score=59.74  Aligned_cols=114  Identities=5%  Similarity=-0.016  Sum_probs=60.9

Q ss_pred             cCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHH-HHcCCCh--HHH
Q 038429          135 ARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISG-FVEGGFF--EKA  204 (258)
Q Consensus       135 ~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~-~~~~g~~--~~a  204 (258)
                      ...|++++|...++..    +.+...|..+...|...|++++|...|+...+  | +...+..+... +...|++  ++|
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             hhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            4455566666555554    34445666666666666666666666655432  2 44455555555 4555665  666


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          205 IELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       205 ~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      ...+++..+.. +-+...+..+...+...|++++|...+++..+.
T Consensus       101 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          101 RAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            66666655532 112344555555666666666666666665543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.11  E-value=3.3e-05  Score=64.23  Aligned_cols=157  Identities=7%  Similarity=-0.133  Sum_probs=100.9

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcc----hHHHHHHHhcCcCCcchhhhhhhcc----------cCchhH
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEF----TLPFVIKAAARPVQFRVGQAIHGMF----------EDDLVI  156 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~----------~~~~~~  156 (258)
                      +..+...|...|++++|.+.+.......+-.++..    +.+.+-..+...|+.+.+..++...          ..-..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            56677777777777777777776632222222221    2233333445556677776666655          112346


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCC--------C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc--CCC-C-C--hh
Q 038429          157 SNSLIHFYAVCGDLAMAYCVFVMIGK--------K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE--NVK-P-D--EV  221 (258)
Q Consensus       157 ~~~li~~~~~~g~~~~a~~~~~~m~~--------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~-p-~--~~  221 (258)
                      +..+...|...|++++|..+++....        + ....|..++..|...|++++|..++++....  .+. | .  ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            77788888888888888888875431        1 2347788888888889999888888776542  121 1 1  24


Q ss_pred             hHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          222 TMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       222 t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .+..+...+...|++++|...|.+..
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            56667777788888888888777654

>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=98.08  E-value=1e-05  Score=65.62  Aligned_cols=155  Identities=10%  Similarity=-0.034  Sum_probs=88.2

Q ss_pred             ChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhh
Q 038429           72 SLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHG  148 (258)
Q Consensus        72 ~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  148 (258)
                      ++++|...++....   .+...|..+...+.+.|++++|+..|++.....   |+...+           ..+.+    .
T Consensus       128 ~~~~A~~~~~~a~~~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~---p~~~~~-----------~~~~~----~  189 (336)
T 1p5q_A          128 SFEKAKESWEMNSEEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWL---EYESSF-----------SNEEA----Q  189 (336)
T ss_dssp             EEECCCCGGGCCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT---TTCCCC-----------CSHHH----H
T ss_pred             ecccccchhcCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh---hccccC-----------ChHHH----H
Confidence            34445555544332   246678899999999999999999999873322   222100           00000    0


Q ss_pred             cc-cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhH
Q 038429          149 MF-EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTM  223 (258)
Q Consensus       149 ~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~  223 (258)
                      .. +.....|..+-.+|.+.|++++|...|+...+  | +...|..+-.+|...|++++|...|++..+.  .| +...+
T Consensus       190 ~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~  267 (336)
T 1p5q_A          190 KAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAK  267 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHH
Confidence            00 11234566666666666666666666665432  2 4556666666666666666666666666553  23 33455


Q ss_pred             HHHHHHHhccCChhHH-HHHHHHH
Q 038429          224 VVVLSACAKKRDLEFG-IWVSSHI  246 (258)
Q Consensus       224 ~~li~~~~~~g~~~~a-~~~~~~m  246 (258)
                      ..+...+.+.|+.++| ..++..|
T Consensus       268 ~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          268 TQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666666666666665 3344444

>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=98.07  E-value=1.6e-05  Score=54.61  Aligned_cols=96  Identities=13%  Similarity=0.079  Sum_probs=65.9

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC--CCCC----hhhHHH
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVEN--VKPD----EVTMVV  225 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~p~----~~t~~~  225 (258)
                      ..+..+-..|.+.|++++|++.|++..+  | +...|+.+-.+|...|++++|+..+++..+..  ..++    ..+|..
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            4566677777788888888888876543  3 56677777778888888888888887765531  1111    135666


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHcC
Q 038429          226 VLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       226 li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      +-.++...|++++|.+.|++..+..
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~~  113 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSEF  113 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            6677777888888888887766543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.05  E-value=4.2e-05  Score=53.50  Aligned_cols=91  Identities=12%  Similarity=-0.028  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK  232 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  232 (258)
                      .+..+...+.+.|++++|.+.|+....  | +...|..+-..|...|++++|+..|++..... +-+...+..+..++..
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            334444444555555555555544321  2 33444444455555555555555555544432 1123344444455555


Q ss_pred             cCChhHHHHHHHHHH
Q 038429          233 KRDLEFGIWVSSHIE  247 (258)
Q Consensus       233 ~g~~~~a~~~~~~m~  247 (258)
                      .|++++|...|+...
T Consensus        99 ~g~~~~A~~~~~~al  113 (142)
T 2xcb_A           99 LGDLDGAESGFYSAR  113 (142)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHH
Confidence            555555555555443

>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=98.04  E-value=5.9e-05  Score=51.32  Aligned_cols=95  Identities=9%  Similarity=-0.041  Sum_probs=66.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      ...|..+-..+.+.|++++|.+.|+...+  | +...|..+-.+|...|++++|+..+++..+.. +-+...|..+..++
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            34566666777778888888888776543  3 56677777777788888888888887776642 12355677777777


Q ss_pred             hccCChhHHHHHHHHHHHc
Q 038429          231 AKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       231 ~~~g~~~~a~~~~~~m~~~  249 (258)
                      ...|++++|...+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           83 IAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHh
Confidence            7888888888877776543

>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=98.03  E-value=8.5e-05  Score=51.09  Aligned_cols=93  Identities=8%  Similarity=-0.140  Sum_probs=48.4

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      ...|..+...+.+.|++++|...|....+  | +...|..+...+...|++++|...+++..+.. +.+...+..+...+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~   87 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   87 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHHH
Confidence            34455555555555555555555554322  2 34455555555555555555555555555432 11334455555555


Q ss_pred             hccCChhHHHHHHHHHH
Q 038429          231 AKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       231 ~~~g~~~~a~~~~~~m~  247 (258)
                      ...|++++|...+++..
T Consensus        88 ~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           88 LEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHH
Confidence            55555555555555544

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.02  E-value=0.00023  Score=56.72  Aligned_cols=210  Identities=7%  Similarity=-0.073  Sum_probs=148.4

Q ss_pred             hhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHH----hcC---CChh
Q 038429           36 QKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAY----SSS---DEPI  105 (258)
Q Consensus        36 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~----~~~---g~~~  105 (258)
                      -++|.++.+.++..+ +-+..+|+.--.++...+..++++++..++.+..   .+..+|+.--..+    ...   ++++
T Consensus        49 s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           49 SERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             CHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHH
Confidence            357788888777665 2234455543333333221288999999887654   4556677665555    445   7899


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcc--hhhhhhhcc----cCchhHHHHHHHHHHhcCC------HHHH
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFR--VGQAIHGMF----EDDLVISNSLIHFYAVCGD------LAMA  173 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~--~a~~~~~~~----~~~~~~~~~li~~~~~~g~------~~~a  173 (258)
                      +++.+++.+....  +-|-.+|+----.+.+.|.++  ++...++.+    +.+-..|+.-...+.+.|+      ++++
T Consensus       128 ~EL~~~~~~l~~~--pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          128 REFDILEAMLSSD--PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccchhhhHHHH
Confidence            9999999994322  345566665555556666777  777777777    6778889888877877776      8888


Q ss_pred             HHHHHhcCC--C-ChhhHHHHHHHHHcCCChHH-HHHHHHHHHHcC--CCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          174 YCVFVMIGK--K-DVVSWNSMISGFVEGGFFEK-AIELYREMEVEN--VKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       174 ~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~~--~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      .+.++....  | |...|+-+-..+.+.|+..+ +..+.++....+  -..+...+..+.+.+.+.|+.++|.++++.+.
T Consensus       206 l~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~  285 (306)
T 3dra_A          206 LNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLK  285 (306)
T ss_dssp             HHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            888876643  4 88899988888888887444 555666655432  12466788999999999999999999999987


Q ss_pred             H
Q 038429          248 K  248 (258)
Q Consensus       248 ~  248 (258)
                      +
T Consensus       286 ~  286 (306)
T 3dra_A          286 S  286 (306)
T ss_dssp             H
T ss_pred             h
Confidence            5

>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=98.01  E-value=4.2e-06  Score=62.14  Aligned_cols=167  Identities=9%  Similarity=-0.046  Sum_probs=94.2

Q ss_pred             hhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcC
Q 038429           62 FTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPV  138 (258)
Q Consensus        62 i~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~  138 (258)
                      +......+  +++.+.+.++.-..   .....+..+...+.+.|++++|+..|++......-.|+....  .+..     
T Consensus        11 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~--~~~~-----   81 (198)
T 2fbn_A           11 SSGRENLY--FQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQ--ILLD-----   81 (198)
T ss_dssp             -------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCH--HHHH-----
T ss_pred             hhhhhhhh--hccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchh--hHHH-----
Confidence            33444455  77777777764432   345668888889999999999999999883322212211000  0000     


Q ss_pred             CcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC
Q 038429          139 QFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVEN  215 (258)
Q Consensus       139 ~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  215 (258)
                          -..     ......|..+..+|.+.|++++|...++...+   .+...|..+-.+|...|++++|...|++..+. 
T Consensus        82 ----~~~-----~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-  151 (198)
T 2fbn_A           82 ----KKK-----NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL-  151 (198)
T ss_dssp             ----HHH-----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-
T ss_pred             ----HHH-----HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH-
Confidence                000     01135667777778888888888888876543   35667777778888888888888888887664 


Q ss_pred             CCC-ChhhHHHHHHHHhccCChhHHH-HHHHHHHH
Q 038429          216 VKP-DEVTMVVVLSACAKKRDLEFGI-WVSSHIEK  248 (258)
Q Consensus       216 ~~p-~~~t~~~li~~~~~~g~~~~a~-~~~~~m~~  248 (258)
                       .| +...+..+...+...++.+++. ..+..+..
T Consensus       152 -~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          152 -NPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             -STTCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             -CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence             34 4456666666776667776666 44554443

>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=98.01  E-value=3e-05  Score=62.74  Aligned_cols=111  Identities=14%  Similarity=0.023  Sum_probs=87.4

Q ss_pred             CcCCcchhhhhhhcc------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CC----------------hhhHHHH
Q 038429          136 RPVQFRVGQAIHGMF------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KD----------------VVSWNSM  191 (258)
Q Consensus       136 ~~~~~~~a~~~~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~----------------~~~~~~l  191 (258)
                      ..++++.|...++..      .+..  +..+-..|.+.|++++|...|++..+  |+                ...|..+
T Consensus       125 ~L~~~~~A~~~~~~a~~~~p~~a~~--~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nl  202 (336)
T 1p5q_A          125 HLKSFEKAKESWEMNSEEKLEQSTI--VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNL  202 (336)
T ss_dssp             EEEEEECCCCGGGCCHHHHHHHHHH--HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHH
T ss_pred             EEeecccccchhcCCHHHHHHHHHH--HHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHH
Confidence            345666676666655      1222  34567778889999999999987653  43                4789999


Q ss_pred             HHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          192 ISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       192 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      -.+|.+.|++++|+..+++..+.. +.+...|..+..+|...|++++|...|++..+.
T Consensus       203 a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  259 (336)
T 1p5q_A          203 AMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  259 (336)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999999988753 235678999999999999999999999998765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.00  E-value=6.2e-05  Score=50.88  Aligned_cols=97  Identities=5%  Similarity=-0.114  Sum_probs=82.5

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 038429          152 DDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLS  228 (258)
Q Consensus       152 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~  228 (258)
                      .+...+..+...+...|++++|.+.|+...+  | +...|..+...+...|++++|...+++..... +.+...+..+..
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           10 AEAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            3456788888999999999999999987643  3 67788899999999999999999999988753 234678888999


Q ss_pred             HHhccCChhHHHHHHHHHHHc
Q 038429          229 ACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       229 ~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .+.+.|++++|...+++..+.
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHhc
Confidence            999999999999999998765

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.00  E-value=6.5e-05  Score=53.79  Aligned_cols=91  Identities=11%  Similarity=-0.010  Sum_probs=64.9

Q ss_pred             cchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHH
Q 038429          124 EFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFV  196 (258)
Q Consensus       124 ~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~  196 (258)
                      ...+..+...+.+.|++++|...|+..    +.+...|..+..+|.+.|++++|...|+...+  | +...|..+-..|.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   90 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARF   90 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            345666677777777777777777776    44666777777777777777777777776543  3 5667777777777


Q ss_pred             cCCChHHHHHHHHHHHHc
Q 038429          197 EGGFFEKAIELYREMEVE  214 (258)
Q Consensus       197 ~~g~~~~a~~~~~~m~~~  214 (258)
                      ..|++++|...|++..+.
T Consensus        91 ~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           91 DMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHHh
Confidence            777777777777776654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.99  E-value=0.00012  Score=50.81  Aligned_cols=97  Identities=11%  Similarity=-0.024  Sum_probs=62.7

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHH
Q 038429          152 DDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KD----VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVV  225 (258)
Q Consensus       152 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~  225 (258)
                      .+...+..+...+.+.|++++|.+.|+...+  |+    ...|..+...|...|++++|...+++..+.. +.+...+..
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  104 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYR  104 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHH
Confidence            3455666666777777777777777766543  43    4556666667777777777777777666542 124455666


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHc
Q 038429          226 VLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       226 li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +..++...|++++|...+++..+.
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc
Confidence            666777777777777777766543

>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=97.99  E-value=7.3e-05  Score=49.55  Aligned_cols=95  Identities=12%  Similarity=-0.078  Sum_probs=61.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      ...+..+...+...|++++|.+.|+...+  | +...+..+...+...|++++|...+++..+.. +.+...+..+...+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   82 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            34556666677777777777777766532  3 55566666667777777777777777766542 12355666666777


Q ss_pred             hccCChhHHHHHHHHHHHc
Q 038429          231 AKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       231 ~~~g~~~~a~~~~~~m~~~  249 (258)
                      ...|++++|.+.+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            7777777777777766543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.99  E-value=1.5e-05  Score=62.57  Aligned_cols=187  Identities=5%  Similarity=-0.168  Sum_probs=128.0

Q ss_pred             cccchhhHHHHHHHHHhhccCcchhhhhhhh-------hhhhccCCCChHHHHHHhccCCC--C-------C--------
Q 038429           32 FLTNQKQLKRIHAQMLSTDFFFDPYSASKLF-------TPCALSTFSSLEYARKMFDQIPQ--P-------N--------   87 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li-------~~~~~~~~~~~~~a~~~~~~m~~--~-------~--------   87 (258)
                      ..++...|.+.|..+.+.. +-....|..++       .++.+.+  +..++...+..-..  |       +        
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~--r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAW--YSRRNFGQLSGSVQISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHH--HTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHH--HHHHHHHHHHHHhcCChhhhhhhhccCCccccc
Confidence            4689999999999999886 33466676663       3333322  22222222221111  1       1        


Q ss_pred             -------hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc--cCc----h
Q 038429           88 -------LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF--EDD----L  154 (258)
Q Consensus        88 -------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~----~  154 (258)
                             ...+-.....+...|++++|.++|+.+ ...+  |+......+-..+.+.+++++|+..++..  .++    .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~-~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAA-PVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSS-CCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHH-HhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHH
Confidence                   112345677888899999999999888 5433  54336666666889999999999999887  232    2


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcC-CCC-----hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHH
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIG-KKD-----VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVV  226 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~-~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  226 (258)
                      ..+..+-.++.+.|++++|++.|++.. .|.     .......-.++.+.|+.++|..+|+++...  .|+...+..|
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~aL  247 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHH
Confidence            367788899999999999999999874 232     224556667788999999999999999885  4663333333

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.96  E-value=3.7e-05  Score=50.57  Aligned_cols=96  Identities=8%  Similarity=-0.100  Sum_probs=64.8

Q ss_pred             ChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHh
Q 038429           87 NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAV  166 (258)
Q Consensus        87 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~  166 (258)
                      +...|..+...+.+.|++++|...|++.....                                +.+...|..+...|.+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--------------------------------~~~~~~~~~~a~~~~~   52 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD--------------------------------PEESKYWLMKGKALYN   52 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC--------------------------------CCCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC--------------------------------cCCHHHHHHHHHHHHH
Confidence            34455555666666666666666666552211                                2344566777777888


Q ss_pred             cCCHHHHHHHHHhcCC--C---ChhhHHHHHHHHHcC-CChHHHHHHHHHHHHc
Q 038429          167 CGDLAMAYCVFVMIGK--K---DVVSWNSMISGFVEG-GFFEKAIELYREMEVE  214 (258)
Q Consensus       167 ~g~~~~a~~~~~~m~~--~---~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~  214 (258)
                      .|++++|.+.|+...+  |   +...+..+...+... |++++|.+.+++....
T Consensus        53 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           53 LERYEEAVDCYNYVINVIEDEYNKDVWAAKADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             TTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             ccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHHHHHhCCHHHHHHHHHHHhhc
Confidence            8888888888876543  3   466777888888888 8888888888887765

>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=97.94  E-value=0.00011  Score=65.15  Aligned_cols=195  Identities=10%  Similarity=-0.022  Sum_probs=134.6

Q ss_pred             ccccchhhHH-HHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-------------CC---------
Q 038429           31 HFLTNQKQLK-RIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-------------PN---------   87 (258)
Q Consensus        31 ~~~~~~~~a~-~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-------------~~---------   87 (258)
                      .+.|+.+.|. +++....... +.+...|-..+...-+.|  +++.|..+|+....             |+         
T Consensus       354 ~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~--~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~  430 (679)
T 4e6h_A          354 GEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNT--KIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLK  430 (679)
T ss_dssp             HHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhC--CHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhc
Confidence            3456667775 8888887543 455666677777777788  88888888886642             21         


Q ss_pred             ---hhhHHHHHHHHhcCCChhhHHHHHHHhHhcC-C-CCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHH
Q 038429           88 ---LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNS-P-YFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISN  158 (258)
Q Consensus        88 ---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~  158 (258)
                         ...|-..++...+.|..+.|..+|.+. .+. + ..+......+.+.-. ..++.+.|..+|+..    +.+...|.
T Consensus       431 ~~~~~vWi~y~~~erR~~~l~~AR~vf~~A-~~~~~~~~~~lyi~~A~lE~~-~~~d~e~Ar~ife~~Lk~~p~~~~~w~  508 (679)
T 4e6h_A          431 SKLTYVYCVYMNTMKRIQGLAASRKIFGKC-RRLKKLVTPDIYLENAYIEYH-ISKDTKTACKVLELGLKYFATDGEYIN  508 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-HHTGGGSCTHHHHHHHHHHHT-TTSCCHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCHHHHHHHHHHH-HHhcCCCChHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHHCCCchHHHH
Confidence               235777777777888888999999888 433 1 222222222223222 234588888888877    55666777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCC--C----ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc
Q 038429          159 SLIHFYAVCGDLAMAYCVFVMIGK--K----DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK  232 (258)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~--~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  232 (258)
                      ..++.....|+.+.|..+|+....  |    ....|...+.--...|+.+.+..+.+++.+.  .|+......+++-|.-
T Consensus       509 ~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry~~  586 (679)
T 4e6h_A          509 KYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKYKV  586 (679)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHTCB
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHhcC
Confidence            888888888899999999987765  2    2346778888778889998999999888876  3666666666666643

>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=97.92  E-value=3.3e-05  Score=52.37  Aligned_cols=60  Identities=12%  Similarity=0.161  Sum_probs=35.9

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-C-------hhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK--K-D-------VVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~-------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ..+..+...|...|++++|...|+...+  | +       ..+|..+...+...|++++|...|++..+.
T Consensus        39 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           39 TYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            3455555566666666666666655432  1 1       445666666666777777777777666653

>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=97.92  E-value=8e-05  Score=55.08  Aligned_cols=119  Identities=8%  Similarity=-0.148  Sum_probs=88.8

Q ss_pred             HHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-Ch----------------h
Q 038429          130 VIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DV----------------V  186 (258)
Q Consensus       130 ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~----------------~  186 (258)
                      ........|+++.+...++.-    ......+..+-..+.+.|++++|.+.|+...+  | +.                .
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~   89 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEIS   89 (198)
T ss_dssp             ------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHH
Confidence            344556677888888888876    33456778888899999999999999987643  2 32                6


Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          187 SWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .|..+-.+|...|++++|+..+++..+.. +.+...+..+..++...|++++|.+.|++..+.
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            78888899999999999999999988752 235678889999999999999999999988764

>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=97.92  E-value=6.4e-05  Score=50.88  Aligned_cols=97  Identities=11%  Similarity=0.021  Sum_probs=81.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC--CCCC----hhhHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVEN--VKPD----EVTMV  224 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~p~----~~t~~  224 (258)
                      ...|..+...+...|++++|...|+...+   .+...+..+...+...|++++|...+++.....  ..++    ...+.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            45678888999999999999999987653   367788889999999999999999999987653  1222    66788


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          225 VVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       225 ~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      .+...+.+.|++++|.+.+++..+..
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            88999999999999999999988754

>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=97.88  E-value=4.9e-05  Score=53.73  Aligned_cols=61  Identities=10%  Similarity=-0.104  Sum_probs=36.2

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      +...|..+-.+|.+.|++++|.+.|+....  | +...|..+-.+|...|++++|...|++..+
T Consensus        54 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           54 DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344555555566666666666666665432  3 445566666666666666666666666554

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.85  E-value=8.4e-05  Score=61.74  Aligned_cols=154  Identities=10%  Similarity=-0.028  Sum_probs=111.9

Q ss_pred             HHHHhcCCChhhHHHHHHHhHhcCCCCCCc---------------chHHHHHHHhcCcCCcchhhhhhhcc------cCc
Q 038429           95 IRAYSSSDEPIQSFMIFLQLVYNSPYFPNE---------------FTLPFVIKAAARPVQFRVGQAIHGMF------EDD  153 (258)
Q Consensus        95 i~~~~~~g~~~~a~~~~~~m~~~~~~~p~~---------------~~~~~ll~~~~~~~~~~~a~~~~~~~------~~~  153 (258)
                      ...+.+.|++++|++.|....+...-..+.               .++..+...|...|++++|...+...      .++
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            455677899999999999884443322222               13778899999999999999988887      112


Q ss_pred             h----hHHHHHHHHHHhcCCHHHHHHHHHhcCC--------C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc--CC--
Q 038429          154 L----VISNSLIHFYAVCGDLAMAYCVFVMIGK--------K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE--NV--  216 (258)
Q Consensus       154 ~----~~~~~li~~~~~~g~~~~a~~~~~~m~~--------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~--  216 (258)
                      .    .+.+.+-..+...|+.++|.+++.....        + -..++..+...|...|++++|..++++....  +.  
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    2233333444567899999998876532        1 1346788899999999999999999987654  21  


Q ss_pred             CCC-hhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          217 KPD-EVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       217 ~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      +|. ...+..+.+.|...|++++|..+++....
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            122 34688899999999999999999987653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.85  E-value=4.9e-05  Score=53.42  Aligned_cols=134  Identities=12%  Similarity=0.022  Sum_probs=89.6

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcC
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCG  168 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g  168 (258)
                      .++..+...+...|++++|+..+++......-.++.                          ..-..++..+...|...|
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~--------------------------~~~~~~~~~l~~~~~~~g   63 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK--------------------------AAERIAYSNLGNAYIFLG   63 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH--------------------------HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCc--------------------------hHHHHHHHHHHHHHHHcC
Confidence            456777777778888888888887762211000000                          001235666777778888


Q ss_pred             CHHHHHHHHHhcCC-----CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHc----CCCC-ChhhHHHHHHHHhccC
Q 038429          169 DLAMAYCVFVMIGK-----KD----VVSWNSMISGFVEGGFFEKAIELYREMEVE----NVKP-DEVTMVVVLSACAKKR  234 (258)
Q Consensus       169 ~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~t~~~li~~~~~~g  234 (258)
                      ++++|.+.++...+     ++    ...+..+-..+...|++++|...+++..+.    +-.+ ....+..+...+...|
T Consensus        64 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g  143 (164)
T 3ro3_A           64 EFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALG  143 (164)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHcc
Confidence            88888888776543     11    346777778888889999999888876543    2111 1346778888889999


Q ss_pred             ChhHHHHHHHHHHH
Q 038429          235 DLEFGIWVSSHIEK  248 (258)
Q Consensus       235 ~~~~a~~~~~~m~~  248 (258)
                      ++++|.+.+++..+
T Consensus       144 ~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          144 NHDQAMHFAEKHLE  157 (164)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999988764

>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=97.85  E-value=5.7e-05  Score=51.38  Aligned_cols=94  Identities=7%  Similarity=-0.052  Sum_probs=62.3

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcC
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCG  168 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g  168 (258)
                      ..|..+...+.+.|++++|+..|++.....                                +.+...|..+..+|.+.|
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--------------------------------p~~~~~~~~~a~~~~~~~   52 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRA--------------------------------PEDARGYSNRAAALAKLM   52 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------------------TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--------------------------------CCChHHHHHHHHHHHHhc
Confidence            345566666667777777777776652211                                233456667777777777


Q ss_pred             CHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          169 DLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       169 ~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ++++|.+.|+...+  | +...|..+-..+...|++++|...|++..+.
T Consensus        53 ~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           53 SFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHHh
Confidence            77777777766543  3 5567777777777888888888888776653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.84  E-value=2.3e-05  Score=55.23  Aligned_cols=131  Identities=13%  Similarity=0.000  Sum_probs=89.2

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC-----CC----hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcc
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----PN----LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEF  125 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~  125 (258)
                      ..++..+...+...|  ++++|...+++..+     .+    ..++..+...+...|++++|...+++......-.++. 
T Consensus         9 ~~~~~~l~~~~~~~~--~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~-   85 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLG--NFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDR-   85 (164)
T ss_dssp             HHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-
T ss_pred             HHHHHHHHHHHHHhc--CHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCc-
Confidence            346778888888999  99999999987653     22    2478889999999999999999998873211000110 


Q ss_pred             hHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-----C----ChhhHHHHHHHHH
Q 038429          126 TLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-----K----DVVSWNSMISGFV  196 (258)
Q Consensus       126 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~  196 (258)
                                               ......+..+...+...|++++|.+.+++..+     .    ....+..+...+.
T Consensus        86 -------------------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~  140 (164)
T 3ro3_A           86 -------------------------AVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYT  140 (164)
T ss_dssp             -------------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             -------------------------HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHH
Confidence                                     01133455666677777777777777765432     1    2345667777778


Q ss_pred             cCCChHHHHHHHHHHHH
Q 038429          197 EGGFFEKAIELYREMEV  213 (258)
Q Consensus       197 ~~g~~~~a~~~~~~m~~  213 (258)
                      ..|++++|...+++..+
T Consensus       141 ~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          141 ALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHTCHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHH
Confidence            88888888888877654

>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=97.84  E-value=7.9e-05  Score=51.26  Aligned_cols=96  Identities=8%  Similarity=-0.099  Sum_probs=62.6

Q ss_pred             CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHH
Q 038429           86 PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYA  165 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~  165 (258)
                      .+...|..+...+...|++++|+..|+......                                +.+...|..+..+|.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--------------------------------~~~~~~~~~l~~~~~   54 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--------------------------------PLVAVYYTNRALCYL   54 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------------------TTCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--------------------------------cCcHHHHHHHHHHHH
Confidence            345556666666666666666666666652211                                233456666777777


Q ss_pred             hcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          166 VCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       166 ~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      ..|++++|...|+...+  | +...|..+-..+...|++++|...|++..+
T Consensus        55 ~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           55 KMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            77777777777766543  3 556777777777788888888887777655

>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=97.82  E-value=0.00015  Score=47.99  Aligned_cols=95  Identities=14%  Similarity=-0.011  Sum_probs=61.4

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhc
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVC  167 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~  167 (258)
                      ...|..+...+...|++++|...|+......                                +.+...+..+...|.+.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--------------------------------~~~~~~~~~~a~~~~~~   51 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD--------------------------------PHNHVLYSNRSAAYAKK   51 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------------------TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--------------------------------CCcHHHHHHHHHHHHhh
Confidence            3456666777777777777777777662211                                22344556666667777


Q ss_pred             CCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          168 GDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       168 g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      |++++|...++...+  | +...+..+...+...|++++|...+++..+.
T Consensus        52 ~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           52 GDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc
Confidence            777777777765532  3 4556677777777777777777777776653

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.81  E-value=7.4e-05  Score=52.18  Aligned_cols=93  Identities=11%  Similarity=-0.136  Sum_probs=54.3

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcC
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCG  168 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g  168 (258)
                      ..+..+...+.+.|++++|+..|+......                                +.+...|..+-.+|.+.|
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--------------------------------p~~~~~~~~lg~~~~~~g   66 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD--------------------------------HYDARYFLGLGACRQSLG   66 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------------------TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC--------------------------------CccHHHHHHHHHHHHHHh
Confidence            445555566666677777766666652211                                223444555556666666


Q ss_pred             CHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          169 DLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       169 ~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      ++++|...|+...+  | +...|..+-.+|...|++++|...|++..+
T Consensus        67 ~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           67 LYEQALQSYSYGALMDINEPRFPFHAAECHLQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             CHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666665432  2 445566666666666666666666666554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.80  E-value=0.00032  Score=47.55  Aligned_cols=88  Identities=8%  Similarity=-0.022  Sum_probs=50.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC--CCh----hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC----hhhHHHHHHH
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIGK--KDV----VSWNSMISGFVEGGFFEKAIELYREMEVENVKPD----EVTMVVVLSA  229 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~--~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~----~~t~~~li~~  229 (258)
                      +...+.+.|++++|.+.|+...+  |+.    ..+..+...+...|++++|...|++.....  |+    ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHH
Confidence            44455566666666666665432  322    245555566666666666666666665532  32    3345555666


Q ss_pred             HhccCChhHHHHHHHHHHHc
Q 038429          230 CAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       230 ~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +.+.|++++|...++++.+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            66666666666666666543

>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=97.79  E-value=0.0001  Score=50.51  Aligned_cols=102  Identities=9%  Similarity=-0.021  Sum_probs=65.8

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcC
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCG  168 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g  168 (258)
                      .++..+-..+.+.|++++|+..|++...-   .                             +.+...|+.+-.+|.+.|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~---~-----------------------------p~~~~~~~nlg~~~~~~~   56 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIEL---D-----------------------------PSNITFYNNKAAVYFEEK   56 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---C-----------------------------TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh---C-----------------------------CCCHHHHHhHHHHHHHhh
Confidence            34566666777777777777777665221   1                             234556677777777778


Q ss_pred             CHHHHHHHHHhcCC--C-C-------hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHH
Q 038429          169 DLAMAYCVFVMIGK--K-D-------VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMV  224 (258)
Q Consensus       169 ~~~~a~~~~~~m~~--~-~-------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~  224 (258)
                      ++++|++.|+...+  | +       ..+|..+-..+...|++++|++.|++....  .||..+..
T Consensus        57 ~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~  120 (127)
T 4gcn_A           57 KFAECVQFCEKAVEVGRETRADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVK  120 (127)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHH
Confidence            88888777766543  2 1       135666667777888888888888877653  45654443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.79  E-value=0.00014  Score=49.45  Aligned_cols=92  Identities=12%  Similarity=-0.023  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHh
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACA  231 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~  231 (258)
                      .+..+...+.+.|++++|...|+...+  | +...|..+-..+...|++++|+..|++..+.  .| +...+..+...+.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            345566778889999999999987754  4 6678888888899999999999999988775  35 4567888888899


Q ss_pred             ccCChhHHHHHHHHHHHc
Q 038429          232 KKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       232 ~~g~~~~a~~~~~~m~~~  249 (258)
                      +.|++++|...+++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999988653

>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=97.77  E-value=5.8e-05  Score=64.17  Aligned_cols=119  Identities=5%  Similarity=-0.105  Sum_probs=91.5

Q ss_pred             CCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcC
Q 038429           25 GHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSS  101 (258)
Q Consensus        25 ~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~  101 (258)
                      .....+.+.|++++|.+.+++..+.. +.+...+..+..+|.+.|  ++++|...+++..+   .+..+|..+..+|.+.
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g--~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTE--CYGYALGDATRAIELDKKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhc--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            33447778899999999999999875 446888999999999999  99999999987643   5678899999999999


Q ss_pred             CChhhHHHHHHHhHhcCCCCCCcchHHHHHHH--hcCcCCcchhhhhhh
Q 038429          102 DEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKA--AARPVQFRVGQAIHG  148 (258)
Q Consensus       102 g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~--~~~~~~~~~a~~~~~  148 (258)
                      |++++|+..|++..+..  +-+...+..+..+  +.+.|++++|...++
T Consensus        88 g~~~eA~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           88 GKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             TCHHHHHHHHHHHHHHS--TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999984432  2233455555555  778899999998887

>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=97.75  E-value=4e-05  Score=65.13  Aligned_cols=119  Identities=9%  Similarity=-0.139  Sum_probs=92.9

Q ss_pred             hhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHH
Q 038429           56 YSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIK  132 (258)
Q Consensus        56 ~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~  132 (258)
                      ..+..+...+.+.|  ++++|...|++..+   .+..+|..+..+|.+.|++++|+..+++. .+.. +-+..++..+..
T Consensus         7 ~~~~~lg~~~~~~g--~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a-l~l~-p~~~~~~~~lg~   82 (477)
T 1wao_1            7 EELKTQANDYFKAK--DYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRA-IELD-KKYIKGYYRRAA   82 (477)
T ss_dssp             TTSSSSSSSTTTTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH-HHSC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--CHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHH-HHhC-CCCHHHHHHHHH
Confidence            34556667777888  99999999987643   56889999999999999999999999998 4332 335678889999


Q ss_pred             HhcCcCCcchhhhhhhcc----cCchhHHHHHHHH--HHhcCCHHHHHHHHH
Q 038429          133 AAARPVQFRVGQAIHGMF----EDDLVISNSLIHF--YAVCGDLAMAYCVFV  178 (258)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~--~~~~g~~~~a~~~~~  178 (258)
                      ++...|++++|...++..    +.+...+..+..+  +.+.|++++|.+.++
T Consensus        83 ~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           83 SNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999988    4455566666666  888999999999998

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.74  E-value=0.00018  Score=51.45  Aligned_cols=94  Identities=11%  Similarity=-0.146  Sum_probs=74.1

Q ss_pred             ChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHH
Q 038429           87 NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIH  162 (258)
Q Consensus        87 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~  162 (258)
                      +...|..+...+.+.|++++|+..|++.....  +-+...|..+..++.+.|++++|...++..    +.+...|..+-.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            45677888888888899999998888873322  235667888888888888998888888887    556778888888


Q ss_pred             HHHhcCCHHHHHHHHHhcCC
Q 038429          163 FYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       163 ~~~~~g~~~~a~~~~~~m~~  182 (258)
                      +|.+.|++++|.+.|++..+
T Consensus        88 ~~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHH
Confidence            88889999999888887653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.72  E-value=4.3e-05  Score=65.03  Aligned_cols=115  Identities=6%  Similarity=-0.119  Sum_probs=81.9

Q ss_pred             hcCcCCcchhhhhhhcc-----------cC-chhHHHHHHHHHHhcCCHHHHHHHHHhcCC----------C-ChhhHHH
Q 038429          134 AARPVQFRVGQAIHGMF-----------ED-DLVISNSLIHFYAVCGDLAMAYCVFVMIGK----------K-DVVSWNS  190 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~-----------~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----------~-~~~~~~~  190 (258)
                      +...|++++|+.+++..           .| ...+++.|...|...|++++|..++++..+          | ...+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            44667777776666555           23 345788888899999999998888876542          2 3357888


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHc---CCCCC----hhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          191 MISGFVEGGFFEKAIELYREMEVE---NVKPD----EVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       191 li~~~~~~g~~~~a~~~~~~m~~~---~~~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      |-..|...|++++|+.++++..+-   -+.||    ..+.+.+-.++...|.++.|..++.++++
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888999999999999888876431   13333    23455566667778889999999988865

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.72  E-value=0.00036  Score=48.33  Aligned_cols=100  Identities=9%  Similarity=-0.077  Sum_probs=66.4

Q ss_pred             CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHH
Q 038429           86 PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYA  165 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~  165 (258)
                      .+...+..+...+...|++++|+..|++. .+.  .|+..                          .....|..+...|.
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a-~~~--~~~~~--------------------------~~~~~~~~~a~~~~   76 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQA-LGL--DATPQ--------------------------DQAVLHRNRAACHL   76 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHH-HTS--CCCHH--------------------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHH-HHH--cccch--------------------------HHHHHHHHHHHHHH
Confidence            45667778888888888888888888877 332  23310                          00345556666677


Q ss_pred             hcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          166 VCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       166 ~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ..|++++|.+.++...+  | +...|..+...+...|++++|...|++..+.
T Consensus        77 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A           77 KLEDYDKAETEASKAIEKDGGDVKALYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HTTCHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            77777777777765432  3 5556667777777777788887777777654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=97.65  E-value=0.0021  Score=51.18  Aligned_cols=175  Identities=5%  Similarity=-0.076  Sum_probs=132.4

Q ss_pred             chhhHHHHHHHHHhhccCcchhhhhhhhhhh----hcc---CCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           35 NQKQLKRIHAQMLSTDFFFDPYSASKLFTPC----ALS---TFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        35 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~----~~~---~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      +++++.++++.+...+ +-+..+|+.--..+    ...   +  +++++..+++.+.+   .|..+|+.--..+.+.|.+
T Consensus        84 ~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~--~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~  160 (306)
T 3dra_A           84 NLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDF--DPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLH  160 (306)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCC--CTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCT
T ss_pred             cHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccC--CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccc
Confidence            8999999999999876 44566666544444    444   5  88999999887754   6888899888888888988


Q ss_pred             h--hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCC------cchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHH
Q 038429          105 I--QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQ------FRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAM  172 (258)
Q Consensus       105 ~--~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~------~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~  172 (258)
                      +  ++++.++.+ .+.+ +-|-.+|+---..+.+.++      ++++...+...    +.|...|+.+-..+.+.|+...
T Consensus       161 ~~~~EL~~~~~~-i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~  238 (306)
T 3dra_A          161 NDAKELSFVDKV-IDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSIT  238 (306)
T ss_dssp             TCHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGG
T ss_pred             ChHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChH
Confidence            8  999999999 4433 3456677665555555555      66666666555    7888999999999999988544


Q ss_pred             -HHHHHHhcCC------CChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          173 -AYCVFVMIGK------KDVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       173 -a~~~~~~m~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                       +.++.....+      ++...+..+...|.+.|+.++|.++++.+.+.
T Consensus       239 ~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~  287 (306)
T 3dra_A          239 QLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSK  287 (306)
T ss_dssp             GGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhc
Confidence             4455555432      36678889999999999999999999998763

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.61  E-value=8.9e-05  Score=63.10  Aligned_cols=119  Identities=6%  Similarity=-0.086  Sum_probs=90.6

Q ss_pred             HHHhcCCChhhHHHHHHHhHh--cCCCCCC----cchHHHHHHHhcCcCCcchhhhhhhcc-----------cCc-hhHH
Q 038429           96 RAYSSSDEPIQSFMIFLQLVY--NSPYFPN----EFTLPFVIKAAARPVQFRVGQAIHGMF-----------EDD-LVIS  157 (258)
Q Consensus        96 ~~~~~~g~~~~a~~~~~~m~~--~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~-----------~~~-~~~~  157 (258)
                      ..+...|++++|+.++++...  ..-+.|+    ..+++.|..+|...|++++|+.+++..           .|+ ..++
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            345678999999999877632  2222232    346889999999999999998888776           344 4589


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCC-------CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          158 NSLIHFYAVCGDLAMAYCVFVMIGK-------KD----VVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       158 ~~li~~~~~~g~~~~a~~~~~~m~~-------~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      +.|-..|...|++++|+.++++..+       ||    ..+.+.+-.++...+.+.+|+.++.++++.
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998876642       32    235566777888889999999999998763

>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=97.61  E-value=0.0002  Score=60.53  Aligned_cols=118  Identities=4%  Similarity=-0.148  Sum_probs=62.2

Q ss_pred             ChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC-------------cchHHHHHHHhcCcCCcchhhhhhhcc---
Q 038429           87 NLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN-------------EFTLPFVIKAAARPVQFRVGQAIHGMF---  150 (258)
Q Consensus        87 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~-------------~~~~~~ll~~~~~~~~~~~a~~~~~~~---  150 (258)
                      ....|..+...+.+.|++++|+..|++......-.++             ...|..+-.++.+.|++++|...++..   
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            4557888999999999999999999987332211111             234444444444555555554444444   


Q ss_pred             -cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHH
Q 038429          151 -EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKA  204 (258)
Q Consensus       151 -~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a  204 (258)
                       +.+...|..+-.+|...|++++|...|+...+  | +...+..+-..+.+.++.+++
T Consensus       347 ~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          347 DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence             33334444444455555555555555444332  2 333444444444444444433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.60  E-value=3.3e-05  Score=52.05  Aligned_cols=102  Identities=8%  Similarity=-0.142  Sum_probs=71.8

Q ss_pred             cccchhhHHHHHHHHHhhc--cCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhh
Q 038429           32 FLTNQKQLKRIHAQMLSTD--FFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQ  106 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~  106 (258)
                      ..|++++|...+...++.+  -+.+...+..+..++...|  ++++|...|++..+   .+...+..+..++.+.|++++
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~--~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLG--EYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHH
Confidence            3578889999999998864  2345667888888999999  99999999987643   467788889999999999999


Q ss_pred             HHHHHHHhHhcCCCCCCcchHHHHHHHhc
Q 038429          107 SFMIFLQLVYNSPYFPNEFTLPFVIKAAA  135 (258)
Q Consensus       107 a~~~~~~m~~~~~~~p~~~~~~~ll~~~~  135 (258)
                      |+..|++......-.|+...|...+..+.
T Consensus        80 A~~~~~~al~~~p~~~~~~~~~~ai~~~~  108 (117)
T 3k9i_A           80 GVELLLKIIAETSDDETIQSYKQAILFYA  108 (117)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHTHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            99999887443332333333444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.58  E-value=0.00023  Score=48.30  Aligned_cols=59  Identities=12%  Similarity=-0.074  Sum_probs=29.4

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      ...|..+-.++.+.|++++|...|++..+  | +...+..+...+...|++++|...+++..
T Consensus        51 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g~~~~A~~~~~~al  112 (121)
T 1hxi_A           51 EEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33444444555555555555555544332  2 33445555555555555555555555544

>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=97.55  E-value=0.0008  Score=52.83  Aligned_cols=92  Identities=11%  Similarity=-0.130  Sum_probs=67.0

Q ss_pred             CcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHH
Q 038429          123 NEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGF  195 (258)
Q Consensus       123 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~  195 (258)
                      +...+..+...+.+.|++++|...++..    +.+...|..+..+|.+.|++++|.+.++...+  | +...+..+-.+|
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   82 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3445666777777788888888777776    44666777777888888888888888876654  3 556677777777


Q ss_pred             HcCCChHHHHHHHHHHHHc
Q 038429          196 VEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       196 ~~~g~~~~a~~~~~~m~~~  214 (258)
                      ...|++++|+..|++..+.
T Consensus        83 ~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            8888888888888776553

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.54  E-value=0.00067  Score=45.88  Aligned_cols=95  Identities=11%  Similarity=-0.033  Sum_probs=58.8

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCH
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDL  170 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~  170 (258)
                      +..+...+.+.|++++|...|+......   |+..                          .....+..+..+|.+.|++
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~---p~~~--------------------------~~~~~~~~lg~~~~~~~~~   55 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY---PNGV--------------------------YTPNALYWLGESYYATRNF   55 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC---SSST--------------------------THHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC---CCCc--------------------------ccHHHHHHHHHHHHHhccH
Confidence            3445566667777777777777763222   2211                          0012455566667777777


Q ss_pred             HHHHHHHHhcCC--CC----hhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          171 AMAYCVFVMIGK--KD----VVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       171 ~~a~~~~~~m~~--~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ++|...|+...+  |+    ...+..+...+...|++++|...|++....
T Consensus        56 ~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           56 QLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            777777776543  32    345666677777788888888888777664

>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=97.53  E-value=0.0015  Score=52.91  Aligned_cols=210  Identities=8%  Similarity=-0.006  Sum_probs=139.4

Q ss_pred             chhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcC-C-ChhhHHH
Q 038429           35 NQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSS-D-EPIQSFM  109 (258)
Q Consensus        35 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~-g-~~~~a~~  109 (258)
                      .-++|.++.+.++..+ +-+..+|+.--.++...+ .++++++..++.+..   .+..+|+.--..+.+. + ++++++.
T Consensus        69 ~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~-~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           69 KSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLN-KSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             CCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhh-hhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHH
Confidence            3456777777777665 334555665555555555 148899988887653   5677788877777766 6 8899999


Q ss_pred             HHHHhHhcCCCCCCcchHHHHHHHhcCcCCcc--------hhhhhhhcc----cCchhHHHHHHHHHHhcCC-------H
Q 038429          110 IFLQLVYNSPYFPNEFTLPFVIKAAARPVQFR--------VGQAIHGMF----EDDLVISNSLIHFYAVCGD-------L  170 (258)
Q Consensus       110 ~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~----~~~~~~~~~li~~~~~~g~-------~  170 (258)
                      +++.+ .+.. +-|-.+|+--.-.+.+.+.++        ++....+.+    +.|...|+..-..+.+.++       +
T Consensus       147 ~~~k~-L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~N~SAW~~R~~lL~~l~~~~~~~~~~  224 (349)
T 3q7a_A          147 YIHGS-LLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSRSL  224 (349)
T ss_dssp             HHHHH-TSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTTSTTCCCCHHHH
T ss_pred             HHHHH-HHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccccchHHH
Confidence            99999 4332 335556654444444444454        566666655    6788899999888888876       6


Q ss_pred             HHHHHHHHhcC--CC-ChhhHHHHHHHHHcCCCh--------------------HHHHHHHHHHHHcC-----CCCChhh
Q 038429          171 AMAYCVFVMIG--KK-DVVSWNSMISGFVEGGFF--------------------EKAIELYREMEVEN-----VKPDEVT  222 (258)
Q Consensus       171 ~~a~~~~~~m~--~~-~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~m~~~~-----~~p~~~t  222 (258)
                      +++.+.+++..  .| |...|+-+-..+.+.|+.                    .+......++...+     -.++...
T Consensus       225 ~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~a  304 (349)
T 3q7a_A          225 QDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLA  304 (349)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHH
Confidence            78888887654  34 778888877777666653                    22223322222221     1256677


Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          223 MVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       223 ~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      ...+.+.|...|+.++|.++++.+.+
T Consensus       305 l~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          305 LEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            89999999999999999999999863

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.41  E-value=8e-05  Score=50.10  Aligned_cols=61  Identities=16%  Similarity=0.037  Sum_probs=44.4

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ...+..+...|.+.|++++|.+.|++..+  | +...+..+..++...|++++|+..+++....
T Consensus        27 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           27 AECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34666777777788888888888876643  3 5567777777788888888888888776654

>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=97.38  E-value=0.00065  Score=57.36  Aligned_cols=121  Identities=9%  Similarity=-0.054  Sum_probs=97.9

Q ss_pred             cchHHHHHHHhcCcCCcchhhhhhhcc----cCc---------------hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--
Q 038429          124 EFTLPFVIKAAARPVQFRVGQAIHGMF----EDD---------------LVISNSLIHFYAVCGDLAMAYCVFVMIGK--  182 (258)
Q Consensus       124 ~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~---------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~--  182 (258)
                      ...|..+-..+.+.|+++.|...|+..    +.+               ...|..+-.+|.+.|++++|...|+...+  
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            346777888899999999999999988    333               57899999999999999999999987754  


Q ss_pred             C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHHH-HHHHH
Q 038429          183 K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGIW-VSSHI  246 (258)
Q Consensus       183 ~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~-~~~~m  246 (258)
                      | +...|..+-.+|...|++++|...|++..+.  .| +...+..+...+.+.|+.+++.. ++..|
T Consensus       348 p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          348 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKEHNERDRRIYANM  412 (457)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3 7788999999999999999999999998764  45 44678888888888888887763 44444

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.38  E-value=0.00051  Score=55.56  Aligned_cols=144  Identities=8%  Similarity=-0.087  Sum_probs=69.5

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhc
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVC  167 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~  167 (258)
                      ...|..+...+.+.|++++|+..|++....   .|+...       +...++.+++..-+     ....|+.+-.+|.+.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~-------~~~~~~~~~~~~~l-----~~~~~~nla~~~~~~  243 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDFM-------FQLYGKYQDMALAV-----KNPCHLNIAACLIKL  243 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHHH-------HTCCHHHHHHHHHH-----HTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---hccchh-------hhhcccHHHHHHHH-----HHHHHHHHHHHHHHc
Confidence            445777778888888888888888876222   122211       11222222221111     123667777777788


Q ss_pred             CCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChh-hHHHHHHH-HhccCChhHHHHH
Q 038429          168 GDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEV-TMVVVLSA-CAKKRDLEFGIWV  242 (258)
Q Consensus       168 g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-t~~~li~~-~~~~g~~~~a~~~  242 (258)
                      |++++|...|+...+  | +...|..+-.+|...|++++|...|++..+.  .|+.. .+..+... ....+..+.+..+
T Consensus       244 g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~~a~~~  321 (338)
T 2if4_A          244 KRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQKQKEM  321 (338)
T ss_dssp             TCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------------
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888877776543  3 5667777777888888888888887776542  34432 33333333 2334566677777


Q ss_pred             HHHHHH
Q 038429          243 SSHIEK  248 (258)
Q Consensus       243 ~~~m~~  248 (258)
                      |..|..
T Consensus       322 ~~~~l~  327 (338)
T 2if4_A          322 YKGIFK  327 (338)
T ss_dssp             ------
T ss_pred             HHHhhC
Confidence            777653

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.34  E-value=0.0013  Score=46.68  Aligned_cols=88  Identities=10%  Similarity=-0.032  Sum_probs=47.9

Q ss_pred             hHHHHHHHhcCcCCcchhhhhhhcc--c--------------------CchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-
Q 038429          126 TLPFVIKAAARPVQFRVGQAIHGMF--E--------------------DDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-  182 (258)
Q Consensus       126 ~~~~ll~~~~~~~~~~~a~~~~~~~--~--------------------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-  182 (258)
                      .+...-..+.+.|+++.|...|...  .                    .+...|..+..+|.+.|++++|...++...+ 
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            3445555556666666665555554  0                    0123555555566666666666666554432 


Q ss_pred             -C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          183 -K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       183 -~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                       | +...|..+-.+|...|++++|...|++...
T Consensus        93 ~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           93 EETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence             2 445555555666666666666666655554

>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=97.32  E-value=0.0017  Score=46.22  Aligned_cols=94  Identities=10%  Similarity=-0.078  Sum_probs=73.7

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC--CC--------h-----hhHHHHHHHHHcCCChHHHHHHHHHHHHc-----
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK--KD--------V-----VSWNSMISGFVEGGFFEKAIELYREMEVE-----  214 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~--------~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----  214 (258)
                      ..+...-..+.+.|++++|.+.|+...+  |+        .     ..|+.+-.++.+.|++++|+..+++..+.     
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            3455666777888999999998886653  33        2     28888888999999999999999888763     


Q ss_pred             CCCCCh-hhH----HHHHHHHhccCChhHHHHHHHHHHH
Q 038429          215 NVKPDE-VTM----VVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       215 ~~~p~~-~t~----~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      .+.|+. ..|    ...-.++...|++++|...|++..+
T Consensus        92 e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           92 ELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            236764 467    8888899999999999999998764

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.20  E-value=0.0007  Score=54.72  Aligned_cols=94  Identities=11%  Similarity=-0.082  Sum_probs=68.8

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CCh------------------hhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK--KDV------------------VSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~------------------~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      ...+..+-..+.+.|++++|...|....+  |+.                  ..|+.+-.+|.+.|++++|+..+++..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~  258 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLT  258 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34455555555555555555555554322  211                  3788889999999999999999999887


Q ss_pred             cCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          214 ENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       214 ~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      .. +-+...|..+-.+|...|++++|...|++..+
T Consensus       259 ~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          259 EE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            53 23567899999999999999999999998754

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.19  E-value=0.00097  Score=43.64  Aligned_cols=89  Identities=8%  Similarity=-0.018  Sum_probs=65.5

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-------hhh
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-------EVT  222 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-------~~t  222 (258)
                      +...+..+-..+.+.|++++|.+.|+...+  | +...|..+-.++...|++++|+..+++..+.  .|+       ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHHH
Confidence            456777888888999999999999987643  3 6678888888999999999999999988764  455       334


Q ss_pred             HHHHHHHHhccCChhHHHHHH
Q 038429          223 MVVVLSACAKKRDLEFGIWVS  243 (258)
Q Consensus       223 ~~~li~~~~~~g~~~~a~~~~  243 (258)
                      +..+..++...|+.+.|...+
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSS
T ss_pred             HHHHHHHHHHHHhHhhhHhHH
Confidence            555555555566665554433

>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=97.09  E-value=0.00094  Score=54.73  Aligned_cols=115  Identities=3%  Similarity=-0.178  Sum_probs=62.9

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcC--------------CCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cC
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNS--------------PYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----ED  152 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~--------------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~  152 (258)
                      |..+...+.+.|++++|+..|++..+..              --+-+..+|..+..++.+.|++++|...++..    +.
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  305 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS  305 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCch
Confidence            4445555555555555555555542100              00112344555555566666666666555555    33


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHH
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAI  205 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~  205 (258)
                      +...|..+-.+|.+.|++++|.+.|++..+  | +...+..+-..+...++.+++.
T Consensus       306 ~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          306 NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            455666677777777777777777766543  3 4445555555555555555444

>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=97.07  E-value=0.0023  Score=52.40  Aligned_cols=112  Identities=9%  Similarity=-0.033  Sum_probs=82.8

Q ss_pred             HHHHHHHhcCcCCcchhhhhhhcc-c-------------------CchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-
Q 038429          127 LPFVIKAAARPVQFRVGQAIHGMF-E-------------------DDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-  183 (258)
Q Consensus       127 ~~~ll~~~~~~~~~~~a~~~~~~~-~-------------------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-  183 (258)
                      +..+-..+.+.|++++|...++.. .                   .+...|..+..+|.+.|++++|.+.++...+  | 
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  305 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS  305 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCch
Confidence            566667778888888888777665 1                   2346788888888899999999998887654  3 


Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHH
Q 038429          184 DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGI  240 (258)
Q Consensus       184 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~  240 (258)
                      +...|..+-.+|...|++++|+..|++..+.  .| +...+..+-..+...++.+++.
T Consensus       306 ~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          306 NTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            5667888888889999999999999887764  35 4455666666666666666554

>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=97.07  E-value=0.019  Score=46.11  Aligned_cols=212  Identities=8%  Similarity=-0.024  Sum_probs=136.5

Q ss_pred             cccch-hhHHHHHHHHHhhccCcchhhhhhh---hhhhhccCC-----CChHHHHHHhccCCC---CChhhHHHHHHHHh
Q 038429           32 FLTNQ-KQLKRIHAQMLSTDFFFDPYSASKL---FTPCALSTF-----SSLEYARKMFDQIPQ---PNLYTWNTLIRAYS   99 (258)
Q Consensus        32 ~~~~~-~~a~~~~~~m~~~~~~~~~~~~~~l---i~~~~~~~~-----~~~~~a~~~~~~m~~---~~~~~~~~li~~~~   99 (258)
                      +.|.. ++|.++.+.+...+. -+..+|+.-   +....+...     ..++++..+++.+..   .+..+|+.--..+.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP-~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHh
Confidence            33443 367888888887652 234445432   322222110     015667777766543   57788888888888


Q ss_pred             cCC--ChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCC-cchhhhhhhcc----cCchhHHHHHHHHHHhc-----
Q 038429          100 SSD--EPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQ-FRVGQAIHGMF----EDDLVISNSLIHFYAVC-----  167 (258)
Q Consensus       100 ~~g--~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~----~~~~~~~~~li~~~~~~-----  167 (258)
                      +.|  .+++++.+++.+. +.. +-|-.+|+----++...|. ++++...+..+    +.|...|+.....+.+.     
T Consensus       120 ~l~~~~~~~EL~~~~k~l-~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFL-EAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHH-HhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccc
Confidence            877  4899999999994 332 3456666655555555666 46777776666    77888898887777765     


Q ss_pred             ---------CCHHHHHHHHHhcC--CC-ChhhHHHHHHHHHcC-----------CChHHHHHHHHHHHHcCCCCChhhHH
Q 038429          168 ---------GDLAMAYCVFVMIG--KK-DVVSWNSMISGFVEG-----------GFFEKAIELYREMEVENVKPDEVTMV  224 (258)
Q Consensus       168 ---------g~~~~a~~~~~~m~--~~-~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~~~~p~~~t~~  224 (258)
                               +.++++.+.+....  .| |...|+-+-..+...           +.++++++.++++.+.  .||. .|.
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-~w~  274 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPEN-KWC  274 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-HHH
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cccc-chH
Confidence                     45778888887654  35 778888665555555           4578889999998874  4664 232


Q ss_pred             H-----HHHHHhccCChhHHHHHHHHHHHc
Q 038429          225 V-----VLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       225 ~-----li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .     +..+....|..+++...+.++++.
T Consensus       275 l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          275 LLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            2     222233467778888888888753

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.03  E-value=0.0047  Score=55.55  Aligned_cols=150  Identities=11%  Similarity=-0.018  Sum_probs=90.4

Q ss_pred             ccCCCChHHHHH-HhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhh
Q 038429           67 LSTFSSLEYARK-MFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQA  145 (258)
Q Consensus        67 ~~~~~~~~~a~~-~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  145 (258)
                      ..+  ++++|.+ ++..++  +......++..+.+.|.+++|+.+.++- .            .-.......|+++.|.+
T Consensus       611 ~~~--~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~~~~a~~~~~~~-~------------~~f~~~l~~~~~~~A~~  673 (814)
T 3mkq_A          611 LRG--EIEEAIENVLPNVE--GKDSLTKIARFLEGQEYYEEALNISPDQ-D------------QKFELALKVGQLTLARD  673 (814)
T ss_dssp             HTT--CHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTCHHHHHHHCCCH-H------------HHHHHHHHHTCHHHHHH
T ss_pred             HhC--CHHHHHHHHHhcCC--chHHHHHHHHHHHhCCChHHheecCCCc-c------------hheehhhhcCCHHHHHH
Confidence            355  8888888 665543  1222377888888888888887665322 1            11233456788888888


Q ss_pred             hhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHH
Q 038429          146 IHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVV  225 (258)
Q Consensus       146 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~  225 (258)
                      +.+.+ .+...|..+-..+.+.|+++.|++.|..+..     |..+...|...|+.+...++-+.....|      -++.
T Consensus       674 ~~~~~-~~~~~W~~la~~al~~~~~~~A~~~y~~~~d-----~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~~~  741 (814)
T 3mkq_A          674 LLTDE-SAEMKWRALGDASLQRFNFKLAIEAFTNAHD-----LESLFLLHSSFNNKEGLVTLAKDAETTG------KFNL  741 (814)
T ss_dssp             HHTTC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC-----HHHHHHHHHHTTCHHHHHHHHHHHHHTT------CHHH
T ss_pred             HHHhh-CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC-----hhhhHHHHHHcCCHHHHHHHHHHHHHcC------chHH
Confidence            87666 3457889999999999999999999988765     3333333444555554444443333332      1233


Q ss_pred             HHHHHhccCChhHHHHHHHH
Q 038429          226 VLSACAKKRDLEFGIWVSSH  245 (258)
Q Consensus       226 li~~~~~~g~~~~a~~~~~~  245 (258)
                      ...+|.+.|++++|.+++.+
T Consensus       742 A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          742 AFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHH
Confidence            33334444555555444443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.99  E-value=0.0049  Score=39.89  Aligned_cols=62  Identities=13%  Similarity=0.043  Sum_probs=48.1

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          152 DDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       152 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      .+...+..+-..|.+.|++++|.+.|+...+  | +...|..+-.+|...|++++|...|++..+
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3556777888888888888888888887643  3 566788888888888888888888877654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=96.93  E-value=0.0037  Score=44.25  Aligned_cols=95  Identities=4%  Similarity=-0.155  Sum_probs=69.0

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHhHhc------CC----------CCCCcchHHHHHHHhcCcCCcchhhhhhhcc-
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQLVYN------SP----------YFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-  150 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~----------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-  150 (258)
                      ...+......+.+.|++++|+..|......      ..          -+.+...|..+..++.+.|+++.|...++.. 
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345666777777888888888877776322      00          0112346777788888888888888887777 


Q ss_pred             ---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 038429          151 ---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       151 ---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (258)
                         +.+...|..+-.+|...|++++|...|+...+
T Consensus        91 ~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           91 KREETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence               55677888899999999999999999987654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.89  E-value=0.0026  Score=41.25  Aligned_cols=63  Identities=10%  Similarity=-0.010  Sum_probs=35.0

Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          184 DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       184 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      +...+..+-..|...|++++|+..|++..+.. +-+...|..+..+|...|++++|.+.+++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34455555556666666666666666655532 1123455556666666666666666665544

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.82  E-value=0.0075  Score=37.60  Aligned_cols=76  Identities=17%  Similarity=0.187  Sum_probs=52.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHH
Q 038429          154 LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSA  229 (258)
Q Consensus       154 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~  229 (258)
                      ...+..+-..+.+.|++++|.+.|+...+  | +...+..+-..+...|++++|...+++..+..  | +...+..+-..
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCHHHHHHHHHH
Confidence            44666777778888888888888876543  3 55677777788888888888888888776642  3 33445444444


Q ss_pred             Hh
Q 038429          230 CA  231 (258)
Q Consensus       230 ~~  231 (258)
                      +.
T Consensus        87 ~~   88 (91)
T 1na3_A           87 KQ   88 (91)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.80  E-value=0.0015  Score=42.74  Aligned_cols=92  Identities=10%  Similarity=-0.112  Sum_probs=59.4

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC-------
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN-------  123 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~-------  123 (258)
                      +...+..+-..+.+.|  ++++|...|++..+   .+...|..+..++.+.|++++|+..|++. .+.  .|+       
T Consensus         3 ~~~~~~~~g~~~~~~~--~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a-l~~--~p~~~~~~~~   77 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQG--LYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQG-LRY--TSTAEHVAIR   77 (111)
T ss_dssp             HHHHHHHHHHHHHTTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH-HTS--CSSTTSHHHH
T ss_pred             hHHHHHHHHHHHHHcC--CHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHH-HHh--CCCccHHHHH
Confidence            3455666667777777  88888887776532   45677777888888888888888888777 322  233       


Q ss_pred             cchHHHHHHHhcCcCCcchhhhhhhcc
Q 038429          124 EFTLPFVIKAAARPVQFRVGQAIHGMF  150 (258)
Q Consensus       124 ~~~~~~ll~~~~~~~~~~~a~~~~~~~  150 (258)
                      ...+..+..++...|+.+.+...++.+
T Consensus        78 ~~~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           78 SKLQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            334445555555566666665555544

>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=96.77  E-value=0.0014  Score=54.90  Aligned_cols=60  Identities=5%  Similarity=-0.117  Sum_probs=27.5

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHc---CCC---CC-hhhHHHHHHHHhccCChhHHHHHHHHH
Q 038429          187 SWNSMISGFVEGGFFEKAIELYREMEVE---NVK---PD-EVTMVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~---p~-~~t~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      +++.|...|...|++++|+.++++..+-   -+.   |+ ..+++.|-..|...|++++|..++++.
T Consensus       342 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          342 MMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            4445555555555555555555444321   011   22 123555555555555555555555543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.76  E-value=0.0045  Score=40.97  Aligned_cols=62  Identities=15%  Similarity=0.083  Sum_probs=40.6

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          152 DDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       152 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      .+...+..+...|.+.|++++|.+.|+...+  | +...|..+-..|...|++++|...|++..+
T Consensus        17 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           17 DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455666666777777777777777765542  3 455666666777777777777777766654

>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=96.75  E-value=0.0046  Score=42.83  Aligned_cols=64  Identities=9%  Similarity=-0.046  Sum_probs=33.3

Q ss_pred             ChhhHHHHHHHHHc----CCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCChhHHHHHHHHHHHcC
Q 038429          184 DVVSWNSMISGFVE----GGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK----KRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       184 ~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g  250 (258)
                      +...+..|-..|..    .++.++|.++|++..+.|   +...+..|-..|..    .++.++|.+.+++..+.|
T Consensus        56 ~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           56 SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            33444444444443    455555555555555543   34444455555554    556666666666655555

>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=96.74  E-value=0.017  Score=39.84  Aligned_cols=109  Identities=8%  Similarity=-0.080  Sum_probs=80.2

Q ss_pred             CChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc--cCchhHHHHHHHHHHh----cCCHHHHHH
Q 038429          102 DEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF--EDDLVISNSLIHFYAV----CGDLAMAYC  175 (258)
Q Consensus       102 g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~li~~~~~----~g~~~~a~~  175 (258)
                      +++++|+..|++. -+.|   +....  |-..|...+.++.|...++..  .-+...+..|-..|..    .++.++|.+
T Consensus         9 ~d~~~A~~~~~~a-a~~g---~~~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            9 KDLKKAIQYYVKA-CELN---EMFGC--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHH-HHTT---CTTHH--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             cCHHHHHHHHHHH-HcCC---CHhhh--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            3567777777777 5555   22233  555666666677777777776  5667778888888887    789999999


Q ss_pred             HHHhcCC-CChhhHHHHHHHHHc----CCChHHHHHHHHHHHHcCC
Q 038429          176 VFVMIGK-KDVVSWNSMISGFVE----GGFFEKAIELYREMEVENV  216 (258)
Q Consensus       176 ~~~~m~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~  216 (258)
                      .|+...+ -+...+..|-..|..    .++.++|..+|++..+.|.
T Consensus        83 ~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           83 YYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            9987654 467777888788877    7899999999999888764

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.73  E-value=0.0055  Score=40.53  Aligned_cols=76  Identities=8%  Similarity=-0.119  Sum_probs=61.0

Q ss_pred             HHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          172 MAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       172 ~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      +|.+.|+...+  | +...|..+-..|...|++++|+..|++..+.. +.+...|..+...+...|++++|...+++..+
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34555554432  3 67788899999999999999999999988753 23466788999999999999999999998764

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.67  E-value=0.0071  Score=54.33  Aligned_cols=129  Identities=10%  Similarity=0.014  Sum_probs=69.6

Q ss_pred             hhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcC
Q 038429           59 SKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPV  138 (258)
Q Consensus        59 ~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~  138 (258)
                      ..++..+.+.|  ..+.|.++.+.-        ..-.....+.|++++|+++.+.+       .+...|..+...+.+.+
T Consensus       633 ~~~~~~l~~~~--~~~~a~~~~~~~--------~~~f~~~l~~~~~~~A~~~~~~~-------~~~~~W~~la~~al~~~  695 (814)
T 3mkq_A          633 TKIARFLEGQE--YYEEALNISPDQ--------DQKFELALKVGQLTLARDLLTDE-------SAEMKWRALGDASLQRF  695 (814)
T ss_dssp             HHHHHHHHHTT--CHHHHHHHCCCH--------HHHHHHHHHHTCHHHHHHHHTTC-------CCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCC--ChHHheecCCCc--------chheehhhhcCCHHHHHHHHHhh-------CcHhHHHHHHHHHHHcC
Confidence            66666677777  777777665321        11123345567777777765544       34556777777777777


Q ss_pred             Ccchhhhhhhcc------------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHH
Q 038429          139 QFRVGQAIHGMF------------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIE  206 (258)
Q Consensus       139 ~~~~a~~~~~~~------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~  206 (258)
                      +++.|+++|..+            .-+......+.+.....|+++.|..+|....     -+...++.|.+.+++++|..
T Consensus       696 ~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~~~~~~A~~~~~~~g-----~~~~a~~~~~~~~~~~~A~~  770 (814)
T 3mkq_A          696 NFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETTGKFNLAFNAYWIAG-----DIQGAKDLLIKSQRFSEAAF  770 (814)
T ss_dssp             CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHT-----CHHHHHHHHHHTTCHHHHHH
T ss_pred             CHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHcCchHHHHHHHHHcC-----CHHHHHHHHHHcCChHHHHH
Confidence            777777766665            1111222233344444444444444443321     23334444555556666655


Q ss_pred             HHH
Q 038429          207 LYR  209 (258)
Q Consensus       207 ~~~  209 (258)
                      +-+
T Consensus       771 lA~  773 (814)
T 3mkq_A          771 LGS  773 (814)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=96.66  E-value=0.0053  Score=51.34  Aligned_cols=87  Identities=9%  Similarity=-0.039  Sum_probs=69.3

Q ss_pred             HHHHHhcCCHHHHHHHHHhcCC-------C----ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc---CCC---CC-hhh
Q 038429          161 IHFYAVCGDLAMAYCVFVMIGK-------K----DVVSWNSMISGFVEGGFFEKAIELYREMEVE---NVK---PD-EVT  222 (258)
Q Consensus       161 i~~~~~~g~~~~a~~~~~~m~~-------~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~---p~-~~t  222 (258)
                      +..+.+.|++++|+.++++..+       |    ...+++.|...|...|++++|+.++++..+-   -+.   |+ ..+
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            5566678999999999976532       2    3358999999999999999999999987542   122   33 356


Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHH
Q 038429          223 MVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       223 ~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      ++.|-..|...|++++|..++++..
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            8999999999999999999999764

>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=96.61  E-value=0.0088  Score=42.51  Aligned_cols=105  Identities=12%  Similarity=-0.057  Sum_probs=73.3

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcC
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCG  168 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g  168 (258)
                      ..+...-..+.+.|++++|+..|+....-..-.|+.                 ++   +..-+.+...|+.+-.++.+.|
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~-----------------~a---~~~~~~~a~a~~n~g~al~~Lg   71 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPE-----------------EA---FDHAGFDAFCHAGLAEALAGLR   71 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTT-----------------SC---CCHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcch-----------------hh---hhhccchHHHHHHHHHHHHHCC
Confidence            345667777888899999999998873322112221                 00   0000123448888899999999


Q ss_pred             CHHHHHHHHHhcC---------CC-ChhhH----HHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          169 DLAMAYCVFVMIG---------KK-DVVSW----NSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       169 ~~~~a~~~~~~m~---------~~-~~~~~----~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      ++++|+..++...         .| +...|    ...-.++...|++++|+..|++..+
T Consensus        72 r~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           72 SFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            9998888887553         44 44577    8888899999999999999998765

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.56  E-value=0.071  Score=36.60  Aligned_cols=83  Identities=19%  Similarity=0.045  Sum_probs=61.9

Q ss_pred             CCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          168 GDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       168 g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      |++......+-.+. .+...++..+..+...|+-+.-.++..++.. +.+|+....-.+-.+|.+.|+..+|.+++.+.-
T Consensus        75 ~NlKrVi~C~~~~n-~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC  152 (172)
T 1wy6_A           75 QNLKSVVECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEAC  152 (172)
T ss_dssp             SCTHHHHHHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hcHHHHHHHHHHhc-chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            34444444443332 2445577788888999999999999888644 456788888899999999999999999999999


Q ss_pred             HcCCc
Q 038429          248 KNGIK  252 (258)
Q Consensus       248 ~~g~~  252 (258)
                      +.|++
T Consensus       153 ~kG~k  157 (172)
T 1wy6_A          153 KKGEK  157 (172)
T ss_dssp             HTTCH
T ss_pred             HhhhH
Confidence            98864

>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=96.52  E-value=0.13  Score=41.55  Aligned_cols=177  Identities=8%  Similarity=-0.045  Sum_probs=121.6

Q ss_pred             chhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh------
Q 038429           35 NQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI------  105 (258)
Q Consensus        35 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~------  105 (258)
                      .++++..+++.+.... +.+..+|+.--.++.+....+.+++..+++.+.+   .|..+|+.-...+.+.|.++      
T Consensus       104 ~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~  182 (349)
T 3q7a_A          104 SLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQ  182 (349)
T ss_dssp             CHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHH
T ss_pred             hHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhh
Confidence            5889999999999877 4467777766555555410156788888887765   57777877666666655555      


Q ss_pred             --hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCC-------cchhhhhhhcc----cCchhHHHHHHHHHHhcCCH--
Q 038429          106 --QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQ-------FRVGQAIHGMF----EDDLVISNSLIHFYAVCGDL--  170 (258)
Q Consensus       106 --~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~-------~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~--  170 (258)
                        ++++.++++ .+.+ +-|..+|+-.-..+.+.++       ++++...+...    +-|...|+.+-..+.+.|+.  
T Consensus       183 ~~eELe~~~k~-I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~  260 (349)
T 3q7a_A          183 WGSELDWCNEM-LRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLV  260 (349)
T ss_dssp             HHHHHHHHHHH-HHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHH-HHhC-CCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcc
Confidence              899999988 4432 3467788877777777765       34555555444    77888998887777776653  


Q ss_pred             ------------------HHHHHHHHhcCC---------CChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          171 ------------------AMAYCVFVMIGK---------KDVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       171 ------------------~~a~~~~~~m~~---------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                                        .+..+....+..         +....+..|...|...|+.++|.++++.+.+.
T Consensus       261 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          261 PILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             GGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             cccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence                              333344433332         35567888999999999999999999998654

>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=96.50  E-value=0.0023  Score=53.53  Aligned_cols=83  Identities=13%  Similarity=-0.030  Sum_probs=63.4

Q ss_pred             HHHhcCcCCcchhhhhhhcc------------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC----------C-Chhh
Q 038429          131 IKAAARPVQFRVGQAIHGMF------------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK----------K-DVVS  187 (258)
Q Consensus       131 l~~~~~~~~~~~a~~~~~~~------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----------~-~~~~  187 (258)
                      +..+.+.|++++|+.+++..            +....+++.|...|...|++++|+.++++..+          | ...+
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            33445566777777766554            22345889999999999999999999887642          2 3357


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          188 WNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       188 ~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      ++.|-..|...|++++|+.++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            99999999999999999999987654

>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=96.47  E-value=0.0043  Score=51.87  Aligned_cols=80  Identities=9%  Similarity=-0.168  Sum_probs=65.5

Q ss_pred             cCcCCcchhhhhhhcc-----------cCc-hhHHHHHHHHHHhcCCHHHHHHHHHhcCC----------C-ChhhHHHH
Q 038429          135 ARPVQFRVGQAIHGMF-----------EDD-LVISNSLIHFYAVCGDLAMAYCVFVMIGK----------K-DVVSWNSM  191 (258)
Q Consensus       135 ~~~~~~~~a~~~~~~~-----------~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~----------~-~~~~~~~l  191 (258)
                      ...|++++|+.+++..           .|+ ..+++.|..+|...|++++|+.++++..+          | ...+|+.|
T Consensus       309 ~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  388 (433)
T 3qww_A          309 KHYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKL  388 (433)
T ss_dssp             TTTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHH
Confidence            3457788888887766           333 36899999999999999999999987652          2 33589999


Q ss_pred             HHHHHcCCChHHHHHHHHHHHHc
Q 038429          192 ISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       192 i~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      -..|...|++++|+.++++..+-
T Consensus       389 a~~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          389 GRLYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccCHHHHHHHHHHHHHH
Confidence            99999999999999999987763

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=96.42  E-value=0.037  Score=47.11  Aligned_cols=119  Identities=17%  Similarity=0.057  Sum_probs=69.6

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHH--HHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHH
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLP--FVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHF  163 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~  163 (258)
                      .|-..+....+.+.++.|..+|+.. +..+  .+...|.  +.+... ..++.+.|..+|+..    +.+...|...++.
T Consensus       288 lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~--~~~~v~i~~A~lE~~-~~~d~~~ar~ife~al~~~~~~~~~~~~yid~  363 (493)
T 2uy1_A          288 LRINHLNYVLKKRGLELFRKLFIEL-GNEG--VGPHVFIYCAFIEYY-ATGSRATPYNIFSSGLLKHPDSTLLKEEFFLF  363 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHH-TTSC--CCHHHHHHHHHHHHH-HHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-hCCC--CChHHHHHHHHHHHH-HCCChHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            3555555555566677777777766 3221  1222232  111111 122577777777766    2233445566666


Q ss_pred             HHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          164 YAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       164 ~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      ..+.|+.+.|..+|+...+ ....|...+.-=...|+.+.+..+++++..
T Consensus       364 e~~~~~~~~aR~l~er~~k-~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          364 LLRIGDEENARALFKRLEK-TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHTCHHHHHHHHHHSCC-BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6777777888888877642 455666666666666777777777766653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.42  E-value=0.0076  Score=37.56  Aligned_cols=25  Identities=16%  Similarity=0.309  Sum_probs=11.3

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHh
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQL  114 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m  114 (258)
                      .|..+...+.+.|++++|+..|++.
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a   35 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKA   35 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHH
Confidence            3444444444444444444444444

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=96.05  E-value=0.027  Score=47.94  Aligned_cols=198  Identities=9%  Similarity=-0.046  Sum_probs=105.6

Q ss_pred             hhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC-CChhhHHHHHHHHhcCCChhhHHHHHHHh
Q 038429           36 QKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ-PNLYTWNTLIRAYSSSDEPIQSFMIFLQL  114 (258)
Q Consensus        36 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m  114 (258)
                      .+++..+|+.++... +.+...|-..+..+.+.|  +.+.|..++++... |......   -.|+...+.++.   ++.+
T Consensus       195 ~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~--~~~~ar~i~erAi~~P~~~~l~---~~y~~~~e~~~~---~~~l  265 (493)
T 2uy1_A          195 ESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIG--QKEKAKKVVERGIEMSDGMFLS---LYYGLVMDEEAV---YGDL  265 (493)
T ss_dssp             HHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCCSSHHH---HHHHHHTTCTHH---HHHH
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHhCCCcHHHH---HHHHhhcchhHH---HHHH
Confidence            345666777776654 444666666666667777  88888877764422 3222111   122221111222   2222


Q ss_pred             HhcC--------CCCC---CcchHHHHHHHhcCcCCcchhhhhhhcc-cC--chhHHHHHHHHHHh-cCCHHHHHHHHHh
Q 038429          115 VYNS--------PYFP---NEFTLPFVIKAAARPVQFRVGQAIHGMF-ED--DLVISNSLIHFYAV-CGDLAMAYCVFVM  179 (258)
Q Consensus       115 ~~~~--------~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~--~~~~~~~li~~~~~-~g~~~~a~~~~~~  179 (258)
                      ....        +..+   ....|...+....+.++++.|..+|+.. .|  +...|......-.+ .++.+.|.++|+.
T Consensus       266 ~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~  345 (493)
T 2uy1_A          266 KRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIELGNEGVGPHVFIYCAFIEYYATGSRATPYNIFSS  345 (493)
T ss_dssp             HHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHCCSHHHHHHHHH
T ss_pred             HHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCCCChHHHHHHHHHHHHHCCChHHHHHHHHH
Confidence            1111        0001   1133455555555566677777777766 11  22233221111112 2357778887775


Q ss_pred             cCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          180 IGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       180 m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      ..+  | +...|...+.-....|+.+.|..+|++..     -....|...+.--...|+.+.+..++++..
T Consensus       346 al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          346 GLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            533  2 23345556666666777788888887752     235566677766666788888888777765

>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=95.87  E-value=0.094  Score=42.06  Aligned_cols=175  Identities=6%  Similarity=-0.049  Sum_probs=118.4

Q ss_pred             hhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCC-hhhHHHHH
Q 038429           36 QKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDE-PIQSFMIF  111 (258)
Q Consensus        36 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~-~~~a~~~~  111 (258)
                      ++++..+++.+.... +.+..+|+.--.++.+.+..+++++..+++.+.+   .|..+|+.--..+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            677888888888776 4577888877666766662248899998887754   788899988888888888 58999999


Q ss_pred             HHhHhcCCCCCCcchHHHHHHHhcCc--------------CCcchhhhhhhcc----cCchhHHHHHHHHHHhc------
Q 038429          112 LQLVYNSPYFPNEFTLPFVIKAAARP--------------VQFRVGQAIHGMF----EDDLVISNSLIHFYAVC------  167 (258)
Q Consensus       112 ~~m~~~~~~~p~~~~~~~ll~~~~~~--------------~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~------  167 (258)
                      +.+ .+.+ +-|..+|+-....+.+.              +.++++...+...    +-|...|+-+--.+.+.      
T Consensus       169 ~~~-I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSL-ITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHH-HHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHH-HHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            998 4433 34556666444443332              3345555555555    77888888766666655      


Q ss_pred             -----CCHHHHHHHHHhcCC--CChhhHHHHH-----HHHHcCCChHHHHHHHHHHHHc
Q 038429          168 -----GDLAMAYCVFVMIGK--KDVVSWNSMI-----SGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       168 -----g~~~~a~~~~~~m~~--~~~~~~~~li-----~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                           +.++++++.++++.+  ||. .|+.+-     .+....|..+++...+.++.+.
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhhCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence                 457788888887754  654 444222     2222456677788888887763

>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=95.83  E-value=0.049  Score=47.23  Aligned_cols=130  Identities=10%  Similarity=-0.021  Sum_probs=77.5

Q ss_pred             hhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcC--Ccchhhhhhhcc----cCchhHHHHHHHHHHhcC-CHHHHHHH
Q 038429          104 PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPV--QFRVGQAIHGMF----EDDLVISNSLIHFYAVCG-DLAMAYCV  176 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g-~~~~a~~~  176 (258)
                      +++++..++.+.+..  +-+..+|+----++.+.+  +++++...++.+    +.+-+.|+.---.+.+.| ..+++.+.
T Consensus        89 ~~~eL~~~~~~l~~~--pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~  166 (567)
T 1dce_A           89 VKAELGFLESCLRVN--PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAF  166 (567)
T ss_dssp             HHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHH
Confidence            566666666662211  223344544444444555  446666666666    556667777766777777 77788888


Q ss_pred             HHhcCCC---ChhhHHHHHHHHHcC--------------CChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChh
Q 038429          177 FVMIGKK---DVVSWNSMISGFVEG--------------GFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLE  237 (258)
Q Consensus       177 ~~~m~~~---~~~~~~~li~~~~~~--------------g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~  237 (258)
                      ++.+.+.   |...|+..-..+.+.              +.++++++.+++....  .| |...|..+-..+.+.++.+
T Consensus       167 ~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~--~P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          167 TDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             HHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHH--CSSCSHHHHHHHHHHSCCCCCS
T ss_pred             HHHHHHHCCCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhh--CCCCccHHHHHHHHHhcCCCcc
Confidence            7777653   556677655555442              4467777777776653  34 4456666666666666543

>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=95.82  E-value=0.15  Score=44.18  Aligned_cols=42  Identities=7%  Similarity=0.083  Sum_probs=18.6

Q ss_pred             hHHHHHHhccCCC---CChhhHHHHHHHHhcCC--ChhhHHHHHHHh
Q 038429           73 LEYARKMFDQIPQ---PNLYTWNTLIRAYSSSD--EPIQSFMIFLQL  114 (258)
Q Consensus        73 ~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g--~~~~a~~~~~~m  114 (258)
                      ++++...++.+.+   .+..+|+.--..+.+.|  ++++++..++.+
T Consensus        89 ~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~  135 (567)
T 1dce_A           89 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARF  135 (567)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccccHHHHHHHHHHH
Confidence            4444444443322   33444444444444444  334555555444

>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=95.75  E-value=0.0061  Score=43.27  Aligned_cols=73  Identities=12%  Similarity=0.063  Sum_probs=45.0

Q ss_pred             HHHHHHHHHhcCC--C-ChhhHHHHHHHHHcC-----------CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 038429          170 LAMAYCVFVMIGK--K-DVVSWNSMISGFVEG-----------GFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRD  235 (258)
Q Consensus       170 ~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  235 (258)
                      +++|+..|++..+  | +...|..+-.+|...           |++++|+..|++..+  +.|+...|...+...     
T Consensus        62 ~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~-----  134 (158)
T 1zu2_A           62 IQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT-----  134 (158)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHH-----
Confidence            3466666665543  3 445666666666654           478888888888776  467777776655543     


Q ss_pred             hhHHHHHHHHHHHcC
Q 038429          236 LEFGIWVSSHIEKNG  250 (258)
Q Consensus       236 ~~~a~~~~~~m~~~g  250 (258)
                       ++|-+++-++...+
T Consensus       135 -~ka~el~~~~~~~~  148 (158)
T 1zu2_A          135 -AKAPQLHAEAYKQG  148 (158)
T ss_dssp             -HTHHHHHHHHHHSS
T ss_pred             -HhCHhccCcccccc
Confidence             44555555554443

>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=95.41  E-value=0.27  Score=39.97  Aligned_cols=134  Identities=9%  Similarity=-0.042  Sum_probs=71.2

Q ss_pred             CChhhHHHHHHHHhcC--C---ChhhHHHHHHHhHhcCCCCCC-cchHHHHHHHhcCc---CCc--------chhhhhhh
Q 038429           86 PNLYTWNTLIRAYSSS--D---EPIQSFMIFLQLVYNSPYFPN-EFTLPFVIKAAARP---VQF--------RVGQAIHG  148 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~--g---~~~~a~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~---~~~--------~~a~~~~~  148 (258)
                      .+..+|...+++....  +   +..+|..+|++.+..   .|+ ...|..+.-++...   +.+        ..+..-..
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l---DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS---SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            5667777777665432  2   346788888877332   243 23343333232200   000        01111111


Q ss_pred             cc---cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC--CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhH
Q 038429          149 MF---EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG--KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTM  223 (258)
Q Consensus       149 ~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~  223 (258)
                      .+   +.+..+|..+...+...|++++|...+++..  +|+...|..+-..+.-.|++++|.+.|++....  .|...||
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~  346 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTL  346 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChH
Confidence            11   5555666666666666677777777776554  255555555556666677777777777665553  4655555


Q ss_pred             H
Q 038429          224 V  224 (258)
Q Consensus       224 ~  224 (258)
                      .
T Consensus       347 ~  347 (372)
T 3ly7_A          347 Y  347 (372)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=95.21  E-value=0.027  Score=39.95  Aligned_cols=106  Identities=11%  Similarity=-0.132  Sum_probs=61.0

Q ss_pred             CChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCc----------chhhhhhhcc----cCchhHHHHHHHHHHhc
Q 038429          102 DEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQF----------RVGQAIHGMF----EDDLVISNSLIHFYAVC  167 (258)
Q Consensus       102 g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~----------~~a~~~~~~~----~~~~~~~~~li~~~~~~  167 (258)
                      +++++|...++..+...  +-+...|..+-.++...+++          ++|...|+..    +.+...|+.+-.+|...
T Consensus        16 ~~feeA~~~~~~Ai~l~--P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            34455555555542211  22344455455555554443          3565555555    44555777777777766


Q ss_pred             -----------CCHHHHHHHHHhcC--CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC
Q 038429          168 -----------GDLAMAYCVFVMIG--KKDVVSWNSMISGFVEGGFFEKAIELYREMEVEN  215 (258)
Q Consensus       168 -----------g~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  215 (258)
                                 |++++|.+.|++..  +|+...|...+..      .++|-+++-+....+
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~~------~~ka~el~~~~~~~~  148 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEM------TAKAPQLHAEAYKQG  148 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH------HHTHHHHHHHHHHSS
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHHH------HHhCHhccCcccccc
Confidence                       48999999998775  4776666665554      344555555555443

>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=94.89  E-value=0.52  Score=38.27  Aligned_cols=129  Identities=7%  Similarity=-0.126  Sum_probs=87.6

Q ss_pred             CCCCcchHHHHHHHhcCc-----CCcchhhhhhhcc---cCc-hhHHHHHHHHHHh---cC-----CH---HHHHHHHHh
Q 038429          120 YFPNEFTLPFVIKAAARP-----VQFRVGQAIHGMF---EDD-LVISNSLIHFYAV---CG-----DL---AMAYCVFVM  179 (258)
Q Consensus       120 ~~p~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~---~~~-~~~~~~li~~~~~---~g-----~~---~~a~~~~~~  179 (258)
                      .+.+..+|...+.+....     .+..+|..+|+..   .|+ ...|..+.-+|.-   .+     ..   ..+.+....
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            466788899888775432     2356788888888   443 3455544444431   11     11   112221111


Q ss_pred             cC--CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          180 IG--KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       180 m~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      +.  ..+..+|..+-..+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.+++....+
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~  340 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR  340 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            11  2367788877776777799999999999999876  888888888888899999999999999887653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=94.72  E-value=0.11  Score=32.79  Aligned_cols=55  Identities=16%  Similarity=0.093  Sum_probs=44.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC--C-Chh-hHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          160 LIHFYAVCGDLAMAYCVFVMIGK--K-DVV-SWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       160 li~~~~~~g~~~~a~~~~~~m~~--~-~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ....+.+.|++++|.+.|+...+  | +.. .|..+-..|...|++++|...|++..+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            45567788999999999987653  4 556 7888888888999999999999888775

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.70  E-value=0.59  Score=33.63  Aligned_cols=130  Identities=12%  Similarity=0.035  Sum_probs=82.7

Q ss_pred             HHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHH
Q 038429           95 IRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAY  174 (258)
Q Consensus        95 i~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  174 (258)
                      .....+.|+++.|.++.+.+       -+...|..|-......|+++-|+++|.....    +..+.--|.-.|+.++-.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l-------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL-------NDSITWERLIQEALAQGNASLAEMIYQTQHS----FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----HHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHh-------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC----HHHHHHHHHHhCCHHHHH
Confidence            44556778899998888777       3566788888888888888888887777632    344444555567766665


Q ss_pred             HHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHH
Q 038429          175 CVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       175 ~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      ++-+.....  .-+|.....+.-.|+++++.++|.+.   |-.|....      .....|..+.|.++.+++
T Consensus        81 kla~iA~~~--g~~n~af~~~l~lGdv~~~i~lL~~~---~r~~eA~~------~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           81 KMQNIAQTR--EDFGSMLLNTFYNNSTKERSSIFAEG---GSLPLAYA------VAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHT--TCHHHHHHHHHHHTCHHHHHHHHHHT---TCHHHHHH------HHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHC--ccHHHHHHHHHHcCCHHHHHHHHHHC---CChHHHHH------HHHHcCcHHHHHHHHHHh
Confidence            554432211  12455555566678999999888543   22222211      112256778888887765

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=94.50  E-value=0.13  Score=32.35  Aligned_cols=58  Identities=16%  Similarity=0.133  Sum_probs=47.9

Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHcCCCC-Chh-hHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 038429          191 MISGFVEGGFFEKAIELYREMEVENVKP-DEV-TMVVVLSACAKKRDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       191 li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~-t~~~li~~~~~~g~~~~a~~~~~~m~~~g  250 (258)
                      ....+...|++++|...|++..+..  | +.. .+..+-.++...|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE--PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3456678899999999999988753  4 456 78888899999999999999999987653

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=93.54  E-value=0.46  Score=30.10  Aligned_cols=62  Identities=5%  Similarity=-0.104  Sum_probs=37.8

Q ss_pred             chhHHHHHHHHHHhcCC---HHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          153 DLVISNSLIHFYAVCGD---LAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      +...+..+-.++...++   .++|..+|++..+  | ++.....+-..+...|++++|+..|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            44455555555544333   5677777765543  3 4455556666677777777777777777664

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=93.51  E-value=1.6  Score=31.90  Aligned_cols=171  Identities=8%  Similarity=-0.015  Sum_probs=105.3

Q ss_pred             CcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHH
Q 038429           52 FFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVI  131 (258)
Q Consensus        52 ~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll  131 (258)
                      .++..+-...+..+++.+  ..+....+.+.+..++...-...+.++.+.|..+ +...+..+..    .++..+-...+
T Consensus        30 ~~~~~vR~~A~~~L~~~~--~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~----~~~~~vr~~a~  102 (211)
T 3ltm_A           30 DDSYYVRRAAAYALGKIG--DERAVEPLIKALKDEDAWVRRAAADALGQIGDER-AVEPLIKALK----DEDGWVRQSAA  102 (211)
T ss_dssp             CSSHHHHHHHHHHHHHHC--CGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGG-GHHHHHHHTT----CSSHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhC--CccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHH-HHHHHHHHHc----CCCHHHHHHHH
Confidence            456777777777888877  6555566666666677777777777887777643 3444433312    24555666667


Q ss_pred             HHhcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHH
Q 038429          132 KAAARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       132 ~~~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      .++++.++.+....+.+.+ .++..+-...+.++++.|..+....+...+..++..+-...+.++.+.+. .++...+..
T Consensus       103 ~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~-~~~~~~L~~  181 (211)
T 3ltm_A          103 VALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEIGG-ERVRAAMEK  181 (211)
T ss_dssp             HHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCS-HHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc-hhHHHHHHH
Confidence            7777777655555555555 67777777778888887775544455555556676666666677766665 344555555


Q ss_pred             HHHcCCCCChhhHHHHHHHHhcc
Q 038429          211 MEVENVKPDEVTMVVVLSACAKK  233 (258)
Q Consensus       211 m~~~~~~p~~~t~~~li~~~~~~  233 (258)
                      +...   ++...-...+.++.+.
T Consensus       182 ~l~d---~~~~vr~~A~~aL~~~  201 (211)
T 3ltm_A          182 LAET---GTGFARKVAVNYLETH  201 (211)
T ss_dssp             HHHH---CCHHHHHHHHHHHHC-
T ss_pred             HHhC---CCHHHHHHHHHHHHhc
Confidence            5443   3444555555555443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.35  E-value=1.3  Score=30.47  Aligned_cols=132  Identities=11%  Similarity=-0.017  Sum_probs=90.0

Q ss_pred             ChHHHHHHhccCCC-CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc
Q 038429           72 SLEYARKMFDQIPQ-PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF  150 (258)
Q Consensus        72 ~~~~a~~~~~~m~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  150 (258)
                      .+++..++..+..+ .+..-||-+|--....-+-+-..++++..    |---|.          ...|++..+...+-.+
T Consensus        22 ~v~qGveii~k~~~ssni~E~NW~ICNiiD~a~C~y~v~vLd~I----GkiFDi----------s~C~NlKrVi~C~~~~   87 (172)
T 1wy6_A           22 YIDEGVKIVLEITKSSTKSEYNWFICNLLESIDCRYMFQVLDKI----GSYFDL----------DKCQNLKSVVECGVIN   87 (172)
T ss_dssp             CHHHHHHHHHHHHHHSCHHHHTHHHHHHHHHCCHHHHHHHHHHH----GGGSCG----------GGCSCTHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHcCCCCccccceeeeecchhhchhHHHHHHHHH----hhhcCc----------HhhhcHHHHHHHHHHh
Confidence            55665666555433 34445666666555555555555555544    111121          2344455555555555


Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhc-C--CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCC
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMI-G--KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVK  217 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m-~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  217 (258)
                      ..+....+..++.+...|+-|+-.+++..+ .  +|+....-.+-.+|.+.|+..+|.+++.+.-+.|++
T Consensus        88 n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           88 NTLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             cchHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            566777888899999999999999999985 3  356778888889999999999999999999888874

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=92.90  E-value=0.69  Score=29.73  Aligned_cols=66  Identities=12%  Similarity=0.031  Sum_probs=46.4

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHhcCC----------CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh
Q 038429          153 DLVISNSLIHFYAVCGDLAMAYCVFVMIGK----------KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE  220 (258)
Q Consensus       153 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  220 (258)
                      +..-+..|-..+.+.|+++.|..-|+...+          +....+..|..++.+.|++++|..++++..+  +.|+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P~~   79 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEH   79 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCCC
Confidence            445566777788888888888877765432          1334677777888888888888888888776  35654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=92.78  E-value=0.98  Score=32.48  Aligned_cols=127  Identities=10%  Similarity=-0.005  Sum_probs=87.7

Q ss_pred             hhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhh
Q 038429           65 CALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQ  144 (258)
Q Consensus        65 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  144 (258)
                      ....|  +++.|.++.+.+  .+...|..|-....+.|+++-|.+.|... +         -|..+.-.|.-.|+.+.-.
T Consensus        15 AL~lg--~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~-~---------D~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           15 ALEYG--NLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQ-H---------SFDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHTT--CHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHT-T---------CHHHHHHHHHHHTCHHHHH
T ss_pred             HHhcC--CHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHh-C---------CHHHHHHHHHHhCCHHHHH
Confidence            34567  999999998776  57788999999999999999999999887 3         3555555555566665444


Q ss_pred             hhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHH
Q 038429          145 AIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREM  211 (258)
Q Consensus       145 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  211 (258)
                      .+-+.. -...-+|.....+...|+++++.++|.+..+.+..     .-.....|.-+.|.++.+++
T Consensus        81 kla~iA-~~~g~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA-----~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           81 KMQNIA-QTREDFGSMLLNTFYNNSTKERSSIFAEGGSLPLA-----YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHH-HHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHH-----HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHH-HHCccHHHHHHHHHHcCCHHHHHHHHHHCCChHHH-----HHHHHHcCcHHHHHHHHHHh
Confidence            332222 11224666777788899999999999876652211     11122356677788887665

>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=92.60  E-value=0.62  Score=38.21  Aligned_cols=54  Identities=9%  Similarity=-0.020  Sum_probs=24.4

Q ss_pred             HHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHH
Q 038429          192 ISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHI  246 (258)
Q Consensus       192 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  246 (258)
                      +..+...|+.++|...++.+... -+.+...|..++.++.+.|+..+|.+.|+..
T Consensus       178 ~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          178 AEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33444444444444444444332 1224444455555555555555555444443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=92.44  E-value=0.42  Score=30.28  Aligned_cols=66  Identities=11%  Similarity=-0.068  Sum_probs=47.7

Q ss_pred             CcchhhhhhhhhhhhccCC-CChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcC
Q 038429           52 FFDPYSASKLFTPCALSTF-SSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNS  118 (258)
Q Consensus        52 ~~~~~~~~~li~~~~~~~~-~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  118 (258)
                      +.++..+..+..++...+. ...++|..+|++..+   .++.+...+-..+.+.|++++|+..|+.+ .+.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~-l~~   72 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLL-LDS   72 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH-HTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHH-Hhh
Confidence            3456666666666654441 136888888887643   56778888889999999999999999998 443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=92.02  E-value=0.028  Score=47.30  Aligned_cols=142  Identities=11%  Similarity=0.034  Sum_probs=103.5

Q ss_pred             chhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHH
Q 038429           54 DPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKA  133 (258)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~  133 (258)
                      .+.+|..|-.+..+.+  .+.+|..-|-+.  .|+..|..+|.+..+.|.+++-+..+.-. ++..  -++..=+.|+-+
T Consensus        53 ~p~VWs~LgkAqL~~~--~v~eAIdsyIkA--~Dps~y~eVi~~A~~~~~~edLv~yL~Ma-Rk~~--ke~~IDteLi~a  125 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKG--MVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMA-RKKA--RESYVETELIFA  125 (624)
T ss_dssp             CCCCSSSHHHHTTTSS--SCTTTTTSSCCC--SCCCSSSHHHHHTTTSSCCTTHHHHHHTT-STTC--CSTTTTHHHHHH
T ss_pred             CccHHHHHHHHHHccC--chHHHHHHHHhC--CChHHHHHHHHHHHhCCCHHHHHHHHHHH-HHHh--cccccHHHHHHH
Confidence            4567888888888877  777776655333  67777889999999999999988887655 5443  334455789999


Q ss_pred             hcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC------------------------CChhhHH
Q 038429          134 AARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK------------------------KDVVSWN  189 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~------------------------~~~~~~~  189 (258)
                      |++.++..+-+.++..  |+..-...+-+-|...|.++.|.-+|..+.+                        .++.||.
T Consensus       126 yAk~~rL~elEefl~~--~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWK  203 (624)
T 3lvg_A          126 LAKTNRLAELEEFING--PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWK  203 (624)
T ss_dssp             HHTSCSSSTTTSTTSC--CSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHH
T ss_pred             HHhhCcHHHHHHHHcC--CCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHH
Confidence            9999988776665543  5555566677777888888888877776641                        3778888


Q ss_pred             HHHHHHHcCCChHHH
Q 038429          190 SMISGFVEGGFFEKA  204 (258)
Q Consensus       190 ~li~~~~~~g~~~~a  204 (258)
                      .+-.+|...+.+.-|
T Consensus       204 eV~~ACvd~~EfrLA  218 (624)
T 3lvg_A          204 EVCFACVDGKEFRLA  218 (624)
T ss_dssp             HHTHHHHHSCTTTTT
T ss_pred             HHHHHHhCchHHHHH
Confidence            888888877665544

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=90.87  E-value=3.5  Score=29.96  Aligned_cols=167  Identities=10%  Similarity=-0.038  Sum_probs=111.2

Q ss_pred             ChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-
Q 038429           72 SLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-  150 (258)
Q Consensus        72 ~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-  150 (258)
                      +-+....+.+.+..++...-...+..+.+.|..+..-.+.+.+ .    .++...-...+.++++.++.+....+.+.+ 
T Consensus        17 ~~~~~~~L~~~L~~~~~~vR~~A~~~L~~~~~~~~~~~L~~~l-~----~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~   91 (211)
T 3ltm_A           17 DPEKVEMYIKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKAL-K----DEDAWVRRAAADALGQIGDERAVEPLIKALK   91 (211)
T ss_dssp             CGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHT-T----CSCHHHHHHHHHHHHHHCCGGGHHHHHHHTT
T ss_pred             CHhHHHHHHHHHcCCCHHHHHHHHHHHHHhCCccHHHHHHHHH-c----CCCHHHHHHHHHHHHhhCCHHHHHHHHHHHc
Confidence            4444455555566677777777888888887744333343333 3    246666666777777777665555555556 


Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      .++..+-...+.++++.|+.+....+...+..++...-...+.++...|..+ +...+..+..   .+|...-...+.++
T Consensus        92 ~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~---d~~~~vr~~a~~aL  167 (211)
T 3ltm_A           92 DEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDER-AVEPLIKALK---DEDGWVRQSAADAL  167 (211)
T ss_dssp             CSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGG-GHHHHHHHTT---CSSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHH-HHHHHHHHHc---CCCHHHHHHHHHHH
Confidence            7788888888999999998766666667777788877777888888877654 4444444443   36777777888888


Q ss_pred             hccCChhHHHHHHHHHHH
Q 038429          231 AKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       231 ~~~g~~~~a~~~~~~m~~  248 (258)
                      .+.+.. .+...+..+.+
T Consensus       168 ~~~~~~-~~~~~L~~~l~  184 (211)
T 3ltm_A          168 GEIGGE-RVRAAMEKLAE  184 (211)
T ss_dssp             HHHCSH-HHHHHHHHHHH
T ss_pred             HHhCch-hHHHHHHHHHh
Confidence            887763 45555555544

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=90.31  E-value=0.92  Score=37.16  Aligned_cols=71  Identities=11%  Similarity=0.203  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH-----cCCCCChhhHHHH
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV-----ENVKPDEVTMVVV  226 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~t~~~l  226 (258)
                      ....++..+...|+.+++...+.....  | +...|..+|.++.+.|+..+|++.|++..+     .|+.|+..+-...
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            345577888899999999988877653  4 677999999999999999999999988644     4999988764433

>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=90.24  E-value=1.7  Score=34.11  Aligned_cols=62  Identities=15%  Similarity=0.051  Sum_probs=29.0

Q ss_pred             hHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCCC--ChhhHHHHHHHHhcc-CChhHHHHHHHHHHHcC
Q 038429          187 SWNSMISGFVE-----GGFFEKAIELYREMEVENVKP--DEVTMVVVLSACAKK-RDLEFGIWVSSHIEKNG  250 (258)
Q Consensus       187 ~~~~li~~~~~-----~g~~~~a~~~~~~m~~~~~~p--~~~t~~~li~~~~~~-g~~~~a~~~~~~m~~~g  250 (258)
                      .|..|...|..     -|+.++|.+.|++..+.  .|  +..++...-+.+++. |+.++|.+.+++.....
T Consensus       201 A~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~L--nP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~  270 (301)
T 3u64_A          201 VWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRY--CSAHDPDHHITYADALCIPLNNRAGFDEALDRALAID  270 (301)
T ss_dssp             HHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHH--CCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHh--CCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCC
Confidence            44444444444     25555555555554442  23  134444444444442 55555555555554443

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=90.12  E-value=4  Score=29.38  Aligned_cols=169  Identities=8%  Similarity=-0.019  Sum_probs=93.1

Q ss_pred             CcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHH
Q 038429           52 FFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVI  131 (258)
Q Consensus        52 ~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll  131 (258)
                      .++..+-...+.++++.+  .-+....+.+.+..++...-...+.++++.|..+. ...+..+..    .++...-...+
T Consensus        25 ~~~~~vr~~A~~~L~~~~--~~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~~~~-~~~L~~~l~----d~~~~vr~~a~   97 (201)
T 3ltj_A           25 DDSYYVRRAAAYALGKIG--DERAVEPLIKALKDEDAWVRRAAADALGQIGDERA-VEPLIKALK----DEDGWVRQSAA   97 (201)
T ss_dssp             CSCHHHHHHHHHHHHHHC--CGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGG-HHHHHHHTT----CSSHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcC--ChhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHH-HHHHHHHHc----CCCHHHHHHHH
Confidence            456666666666677666  55555555555556666666666677776666433 333333312    24555555666


Q ss_pred             HHhcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHH
Q 038429          132 KAAARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYRE  210 (258)
Q Consensus       132 ~~~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (258)
                      .++++.++.+....+.+.+ .++..+-...+.++++.|+.+....+...+..++..+=...+.++...|. .++...+..
T Consensus        98 ~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~A~~aL~~~~~-~~~~~~L~~  176 (201)
T 3ltj_A           98 VALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEIGG-ERVRAAMEK  176 (201)
T ss_dssp             HHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHTCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCS-HHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc-hhHHHHHHH
Confidence            6666666655444444444 56666666667777777665444444445555665555556666666554 334444444


Q ss_pred             HHHcCCCCChhhHHHHHHHHh
Q 038429          211 MEVENVKPDEVTMVVVLSACA  231 (258)
Q Consensus       211 m~~~~~~p~~~t~~~li~~~~  231 (258)
                      +...   ++...-...+.++.
T Consensus       177 ~l~d---~~~~vr~~A~~aL~  194 (201)
T 3ltj_A          177 LAET---GTGFARKVAVNYLE  194 (201)
T ss_dssp             HHHH---CCHHHHHHHHHHHH
T ss_pred             HHhC---CCHHHHHHHHHHHH
Confidence            4432   34444444444443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=89.97  E-value=1.1  Score=28.81  Aligned_cols=60  Identities=5%  Similarity=-0.076  Sum_probs=35.1

Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHHHcC------CCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          189 NSMISGFVEGGFFEKAIELYREMEVEN------VKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       189 ~~li~~~~~~g~~~~a~~~~~~m~~~~------~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      -.|-..+...|++..|...|+...+.-      -.+....+..+..++.+.|+++.|..++++..+
T Consensus         9 ~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            344555566666777766666554421      112344566666666677777777776666654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=89.52  E-value=1.2  Score=31.10  Aligned_cols=62  Identities=11%  Similarity=-0.041  Sum_probs=29.3

Q ss_pred             CchhHHHHHHHHHHhcC---CHHHHHHHHHhcCCCC-----hhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          152 DDLVISNSLIHFYAVCG---DLAMAYCVFVMIGKKD-----VVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       152 ~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      ++..+.-.+--++++++   +++++..+|+...+.+     ...+-.|--+|.+.|++++|.++++...+
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 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            44444445555555555   3445555554443211     12222333344555555555555555554

>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=89.10  E-value=2.2  Score=27.53  Aligned_cols=31  Identities=6%  Similarity=0.045  Sum_probs=16.7

Q ss_pred             CChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          183 KDVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      |++....+.+++|.+-+++.-|.++|+-.+.
T Consensus        43 P~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           43 PEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4555555555555555555555555554443

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=88.37  E-value=2.7  Score=27.05  Aligned_cols=81  Identities=14%  Similarity=0.097  Sum_probs=58.5

Q ss_pred             Ccchhhhhhhcc--cCchhHHHHH--HHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          139 QFRVGQAIHGMF--EDDLVISNSL--IHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       139 ~~~~a~~~~~~~--~~~~~~~~~l--i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ..++|..|-+.+  .++ .-.-.+  +..+...|++++|..+.+...-||...|-+|-.  .+.|..+++..-+.++...
T Consensus        22 ~HqEA~tIAdwL~~~~~-~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~s   98 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE-EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLARS   98 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCCc-HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            466777777777  444 333333  566778999999999999999999999988865  4667777787777777766


Q ss_pred             CCCCChhhH
Q 038429          215 NVKPDEVTM  223 (258)
Q Consensus       215 ~~~p~~~t~  223 (258)
                      | .|....|
T Consensus        99 g-~p~~q~F  106 (116)
T 2p58_C           99 Q-DPRIQTF  106 (116)
T ss_dssp             C-CHHHHHH
T ss_pred             C-CHHHHHH
Confidence            5 2444444

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=88.17  E-value=5.2  Score=30.76  Aligned_cols=18  Identities=0%  Similarity=0.047  Sum_probs=8.6

Q ss_pred             hhhhccCCCChHHHHHHhcc
Q 038429           63 TPCALSTFSSLEYARKMFDQ   82 (258)
Q Consensus        63 ~~~~~~~~~~~~~a~~~~~~   82 (258)
                      ...+..|  +.+-+..+++.
T Consensus        36 ~~A~~~g--~~~~v~~Ll~~   53 (285)
T 3kea_A           36 YYAIADN--NVRLVCTLLNA   53 (285)
T ss_dssp             HHHHHTT--CHHHHHHHHHT
T ss_pred             HHHHHcC--CHHHHHHHHhC
Confidence            3334444  55555555544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.68  E-value=2.6  Score=27.09  Aligned_cols=81  Identities=11%  Similarity=-0.034  Sum_probs=59.1

Q ss_pred             Ccchhhhhhhcc--cCchhHHHHH--HHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          139 QFRVGQAIHGMF--EDDLVISNSL--IHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       139 ~~~~a~~~~~~~--~~~~~~~~~l--i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      ..++|..|-+.+  .++ .-.-.+  +..+...|++++|..+.+...-||...|-+|-.  .+.|..+++..-+.++...
T Consensus        21 ~HqEA~tIAdwL~~~~~-~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~s   97 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ-DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGGS   97 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhCCc-HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            466777777777  444 333333  566778999999999999999999999988865  5778888888888787776


Q ss_pred             CCCCChhhH
Q 038429          215 NVKPDEVTM  223 (258)
Q Consensus       215 ~~~p~~~t~  223 (258)
                      |- |....|
T Consensus        98 g~-p~~q~F  105 (115)
T 2uwj_G           98 SD-PALADF  105 (115)
T ss_dssp             SS-HHHHHH
T ss_pred             CC-HHHHHH
Confidence            52 444444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=87.53  E-value=1.6  Score=30.49  Aligned_cols=61  Identities=10%  Similarity=-0.167  Sum_probs=40.3

Q ss_pred             CCcchHHHHHHHhcCcC---Ccchhhhhhhcc---c-C--chhHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 038429          122 PNEFTLPFVIKAAARPV---QFRVGQAIHGMF---E-D--DLVISNSLIHFYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       122 p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~---~-~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (258)
                      ++..+.-.+--++++++   +.+++..+++..   . |  ....+..|--+|.+.|++++|.+.++...+
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 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            45555555555556655   455666666666   2 3  234556677788999999999999988754

>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=87.37  E-value=1.6  Score=34.17  Aligned_cols=83  Identities=14%  Similarity=0.076  Sum_probs=63.6

Q ss_pred             hhhhhhhcc---cCc---hhHHHHHHHHHHhc-----CCHHHHHHHHHhcCC--C--ChhhHHHHHHHHHcC-CChHHHH
Q 038429          142 VGQAIHGMF---EDD---LVISNSLIHFYAVC-----GDLAMAYCVFVMIGK--K--DVVSWNSMISGFVEG-GFFEKAI  205 (258)
Q Consensus       142 ~a~~~~~~~---~~~---~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~--~--~~~~~~~li~~~~~~-g~~~~a~  205 (258)
                      .|..+++..   .|+   ...|..+...|.+.     |+.++|.+.|++..+  |  +..++...-..+++. |+.+++.
T Consensus       181 ~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~  260 (301)
T 3u64_A          181 AAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFD  260 (301)
T ss_dssp             HHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHH
Confidence            444445544   444   56899999999994     999999999998754  6  377888888888885 9999999


Q ss_pred             HHHHHHHHcCCC--CChhhHH
Q 038429          206 ELYREMEVENVK--PDEVTMV  224 (258)
Q Consensus       206 ~~~~~m~~~~~~--p~~~t~~  224 (258)
                      +.+++.......  |+....+
T Consensus       261 ~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          261 EALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHHHHHHHCCGGGCSSCHHHH
T ss_pred             HHHHHHHcCCCCCCCChhHHH
Confidence            999999987655  6644433

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=85.65  E-value=12  Score=35.24  Aligned_cols=121  Identities=9%  Similarity=0.026  Sum_probs=82.6

Q ss_pred             HHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC-------------------------
Q 038429          129 FVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK-------------------------  183 (258)
Q Consensus       129 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------------------------  183 (258)
                      .++..+.+.+..+.+..+....+.+....-.+-.+|...|++++|.+.|.+.-..                         
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~~~~  896 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYHHQN  896 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTTSCC
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccccccc
Confidence            4555555666666666665555556555556677888899999999999876320                         


Q ss_pred             -ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC-CCC-Chh--hHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          184 -DVVSWNSMISGFVEGGFFEKAIELYREMEVEN-VKP-DEV--TMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       184 -~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p-~~~--t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                       -..=|..++..+-+.|..+.+.++-+...+.. -.+ +..  .|..+++++...|++++|...+-.+...
T Consensus       897 ~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~  967 (1139)
T 4fhn_B          897 LLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTT  967 (1139)
T ss_dssp             SSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHS
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCH
Confidence             00126677788888888888887776555432 111 112  4788999999999999998888766543

>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=85.31  E-value=7.6  Score=27.14  Aligned_cols=54  Identities=6%  Similarity=-0.053  Sum_probs=32.9

Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCcc
Q 038429          199 GFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKM  253 (258)
Q Consensus       199 g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  253 (258)
                      ++.++|.++|+.+...+-+. ...|...-.--.+.|++..|.+++......|-+|
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            56777777777776542222 4444444444556777777777777776655544

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=84.57  E-value=9.1  Score=27.41  Aligned_cols=167  Identities=10%  Similarity=-0.031  Sum_probs=111.0

Q ss_pred             ChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-
Q 038429           72 SLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-  150 (258)
Q Consensus        72 ~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-  150 (258)
                      ....-..+++.+..++...-...+.++.+.|..+....+.+.+ .    .++...-...+.++++.++.+....+.+.+ 
T Consensus        12 ~~~~~~~~i~~L~~~~~~vr~~A~~~L~~~~~~~~~~~L~~~l-~----~~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~   86 (201)
T 3ltj_A           12 DPEKVEMYIKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKAL-K----DEDAWVRRAAADALGQIGDERAVEPLIKALK   86 (201)
T ss_dssp             CHHHHHHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHT-T----CSSHHHHHHHHHHHHHHCCGGGHHHHHHHTT
T ss_pred             CCcchHHHHHHhcCCCHHHHHHHHHHHHhcCChhHHHHHHHHH-c----CCCHHHHHHHHHHHHhhCCHHHHHHHHHHHc
Confidence            3444455666666777777777888888877644444444433 2    345555566677777777666555566655 


Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC  230 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  230 (258)
                      .++..+-...+.++++.|+.+....+...+..++..+=...+.++...+..+ +...+..+..   .++...-...+.++
T Consensus        87 d~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~---d~~~~vr~~A~~aL  162 (201)
T 3ltj_A           87 DEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDER-AVEPLIKALK---DEDGWVRQSAADAL  162 (201)
T ss_dssp             CSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHTCGG-GHHHHHHHTT---CSSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCHH-HHHHHHHHHc---CCCHHHHHHHHHHH
Confidence            7788888888999999998766666667777788777777788888777643 4444444443   25777777888888


Q ss_pred             hccCChhHHHHHHHHHHH
Q 038429          231 AKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       231 ~~~g~~~~a~~~~~~m~~  248 (258)
                      .+.|+.+ +...+..+.+
T Consensus       163 ~~~~~~~-~~~~L~~~l~  179 (201)
T 3ltj_A          163 GEIGGER-VRAAMEKLAE  179 (201)
T ss_dssp             HHHCSHH-HHHHHHHHHH
T ss_pred             HHhCchh-HHHHHHHHHh
Confidence            8887644 5555555543

>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=84.06  E-value=2.9  Score=26.95  Aligned_cols=10  Identities=30%  Similarity=0.411  Sum_probs=3.6

Q ss_pred             CCHHHHHHHH
Q 038429          168 GDLAMAYCVF  177 (258)
Q Consensus       168 g~~~~a~~~~  177 (258)
                      +++..|.++|
T Consensus        59 ND~alAVR~l   68 (109)
T 1v54_E           59 NDFASAVRIL   68 (109)
T ss_dssp             TCHHHHHHHH
T ss_pred             hhHHHHHHHH
Confidence            3333333333

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=83.55  E-value=0.37  Score=40.77  Aligned_cols=176  Identities=13%  Similarity=0.024  Sum_probs=108.4

Q ss_pred             cchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHH
Q 038429           53 FDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFV  130 (258)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l  130 (258)
                      -|+..|..+|.+..+.|  .+++-...+....+  .++..=+.|+-+|++.+++.+-.++        =-.||..-...+
T Consensus        81 ~Dps~y~eVi~~A~~~~--~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~rL~elEef--------l~~~N~A~iq~V  150 (624)
T 3lvg_A           81 DDPSSYMEVVQAANTSG--NWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEF--------INGPNNAHIQQV  150 (624)
T ss_dssp             SCCCSSSHHHHHTTTSS--CCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSCSSSTTTST--------TSCCSSSCTHHH
T ss_pred             CChHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHhcccccHHHHHHHHHhhCcHHHHHHH--------HcCCCcccHHHH
Confidence            45666888888888888  88888887776654  4455556888899998886653322        234666666677


Q ss_pred             HHHhcCcCCcchhhhhhhcc-------------------------cCchhHHHHHHHHHHhcCCHHHHHHHHHhc-C---
Q 038429          131 IKAAARPVQFRVGQAIHGMF-------------------------EDDLVISNSLIHFYAVCGDLAMAYCVFVMI-G---  181 (258)
Q Consensus       131 l~~~~~~~~~~~a~~~~~~~-------------------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m-~---  181 (258)
                      -+-|-..|.++.|+-+|..+                         ..++.||--+-.+|...+.+.-|.-.--.+ .   
T Consensus       151 GDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvhad  230 (624)
T 3lvg_A          151 GDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHAD  230 (624)
T ss_dssp             HHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCCSS
T ss_pred             HHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcccHH
Confidence            77777777777777776666                         346677888888888777666554433211 1   


Q ss_pred             -----------------------------CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc
Q 038429          182 -----------------------------KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK  232 (258)
Q Consensus       182 -----------------------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  232 (258)
                                                   +.....|+-|--.|++-. .++.++.+   +..   -+....--+|++|.+
T Consensus       231 eL~elv~~YE~~G~f~ELIsLlEaglglErAHmGmFTELaILYsKY~-PeKlmEHl---klf---~sriNipKviracE~  303 (624)
T 3lvg_A          231 ELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREHL---ELF---WSRVNIPKVLRAAEQ  303 (624)
T ss_dssp             CCSGGGSSSSTTCCCTTSTTTHHHHTTSTTCCHHHHHHHHHHHHSSC-TTHHHHHH---TTS---SSSSCCTTTHHHHTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhCCCchhHHHHHHHHHHHHhcC-HHHHHHHH---HHH---HHhccHHHHHHHHHH
Confidence                                         123345555555555542 22222222   111   112222346888888


Q ss_pred             cCChhHHHHHHHH
Q 038429          233 KRDLEFGIWVSSH  245 (258)
Q Consensus       233 ~g~~~~a~~~~~~  245 (258)
                      ..-+.++.-++..
T Consensus       304 ahLW~ElvfLY~~  316 (624)
T 3lvg_A          304 AHLWAELVFLYDK  316 (624)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             HhhHHHHHHHHhc
Confidence            8888888776664

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=82.89  E-value=6  Score=27.03  Aligned_cols=45  Identities=9%  Similarity=0.107  Sum_probs=27.0

Q ss_pred             CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 038429          183 KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLS  228 (258)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~  228 (258)
                      |++....+.+++|.+-+++.-|.++|+-.+.+ +.+....|..++.
T Consensus        86 PeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           86 PEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            56666666666666666666666666665543 3344445555544

>2ion_A PDCD4, programmed cell death 4, PDCD4; alpha-helical, antitumor protein; 1.57A {Mus musculus} SCOP: a.118.1.14 PDB: 2ios_A 2iol_A

Probab=82.03  E-value=8  Score=26.93  Aligned_cols=63  Identities=13%  Similarity=0.210  Sum_probs=39.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhhHHHHHHHHHcCCC--hHHHHHHHHHHHHcCCCCC
Q 038429          157 SNSLIHFYAVCGDLAMAYCVFVMIGKK---DVVSWNSMISGFVEGGF--FEKAIELYREMEVENVKPD  219 (258)
Q Consensus       157 ~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~~~~p~  219 (258)
                      .+.++.-|...|+.++|.+.++++..|   ...+...+..++-+.+.  .+.+..++..+...|+-+.
T Consensus        12 i~~lL~EY~~~~D~~EA~~cl~EL~~p~f~~e~V~~~i~~alE~~~~~~re~~~~LL~~L~~~~~is~   79 (152)
T 2ion_A           12 IDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITI   79 (152)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCH
Confidence            456777788888888888888888766   22334444455554322  3456667777776665443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=81.65  E-value=4.9  Score=33.53  Aligned_cols=92  Identities=11%  Similarity=0.030  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC----C-C----hhhHHHHHHHHHcCCChHHHHHHHHHHHH----cCCCCCh--
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK----K-D----VVSWNSMISGFVEGGFFEKAIELYREMEV----ENVKPDE--  220 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~----~-~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~~~p~~--  220 (258)
                      ....|.+.|...|++.+|.+++..+..    . +    +..|..-+..|...+++..|..++++...    ....|+.  
T Consensus       139 l~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~  218 (445)
T 4b4t_P          139 VTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKL  218 (445)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHH
Confidence            345577777888888888888876532    1 1    23555666777788888888888877642    1222222  


Q ss_pred             hhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          221 VTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       221 ~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      ..|...+..+...+++.+|...|.+..
T Consensus       219 ~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          219 EYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            345666777777788887777776653

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=81.62  E-value=4.1  Score=36.49  Aligned_cols=50  Identities=22%  Similarity=0.268  Sum_probs=36.6

Q ss_pred             HHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHH
Q 038429          162 HFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREM  211 (258)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m  211 (258)
                      +-+...|+++-|+++-++...  | +-.+|-.|...|...|+++.|+-.+..+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            334457888888888776653  5 5568888888888888888888777765

>2nsz_A Programmed cell death protein 4; PDCD4, tumor suppressor, translation, antitumor protein; 1.15A {Mus musculus} SCOP: a.118.1.14 PDB: 2kzt_B 2hm8_A 2ggf_A

Probab=81.60  E-value=9.7  Score=25.60  Aligned_cols=91  Identities=11%  Similarity=0.150  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhhHHHHHHHHHcCCC--hHHHHHHHHHHHHcCCCCChhh---HHHHH
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGKK---DVVSWNSMISGFVEGGF--FEKAIELYREMEVENVKPDEVT---MVVVL  227 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~~~~p~~~t---~~~li  227 (258)
                      ..+.++.-|...|+.++|.+.++++..|   ...+...+..++-+.+.  .+.+..++..+...|+-+....   |..++
T Consensus         9 ki~~ll~EY~~~~D~~Ea~~cl~eL~~p~f~~e~V~~~i~~alE~~~~~~~e~~~~LL~~L~~~~~is~~q~~~Gf~~v~   88 (129)
T 2nsz_A            9 EIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYERIY   88 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHHHHHHHHHHHH
Confidence            3567888888899999999999998877   22344455556555432  4567778888887775544433   33333


Q ss_pred             HHHhccC-ChhHHHHHHHHH
Q 038429          228 SACAKKR-DLEFGIWVSSHI  246 (258)
Q Consensus       228 ~~~~~~g-~~~~a~~~~~~m  246 (258)
                      ..+-... |+-.|..++.++
T Consensus        89 ~~l~Dl~lDiP~a~~~l~~~  108 (129)
T 2nsz_A           89 NEIPDINLDVPHSYSVLERF  108 (129)
T ss_dssp             HHHHHHHHHSTTHHHHHHHH
T ss_pred             hhChHhhcCccchHHHHHHH
Confidence            3332211 333455555544

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	258
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.37
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.37
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.31
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.07
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.83
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.79
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.65
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.59
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.57
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.53
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.33
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.31
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.3
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.28
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.23
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.19
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.13
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.05
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.96
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.94
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.91
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.88
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.86
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.83
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.83
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.66
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.66
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.65
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.64
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	97.58
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.57
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.48
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.31
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.26
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.22
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.21
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.05
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.05
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.93
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.91
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.89
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.78
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.77
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.72
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.65
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.63
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.52
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.5
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.34
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.11
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	95.84
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	95.1
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	94.84
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	94.43
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	94.37
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	90.88
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	89.75
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.99
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	85.08
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	81.09

>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=99.37  E-value=7.4e-12  Score=98.96  Aligned_cols=215  Identities=13%  Similarity=0.038  Sum_probs=166.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+.+.|++++|...|+.+++.. +-+...|..+..++...|  ++++|...|++..+   .+...|..+...|...|+++
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~--~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~  104 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE--QELLAISALRRCLELKPDNQTALMALAVSFTNESLQR  104 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC--ChHHHHHHHHhhhcccccccccccccccccccccccc
Confidence            5667899999999999999876 446788999999999999  99999999987643   46788999999999999999


Q ss_pred             hHHHHHHHhHhcCCCCCCcchH-------------HHHHHHhcCcCCcchhhhhhhcc------cCchhHHHHHHHHHHh
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTL-------------PFVIKAAARPVQFRVGQAIHGMF------EDDLVISNSLIHFYAV  166 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~-------------~~ll~~~~~~~~~~~a~~~~~~~------~~~~~~~~~li~~~~~  166 (258)
                      +|.+.++.......-.+.....             ...+..+...+.+.++...+...      ..+...+..+...+..
T Consensus       105 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~  184 (323)
T d1fcha_         105 QACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNL  184 (323)
T ss_dssp             HHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHH
T ss_pred             ccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHH
Confidence            9999999873322111111100             01111122234455566666554      3355678888899999


Q ss_pred             cCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccCChhHHHHH
Q 038429          167 CGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-EVTMVVVLSACAKKRDLEFGIWV  242 (258)
Q Consensus       167 ~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g~~~~a~~~  242 (258)
                      .|++++|...|+...+  | +...|..+-..|...|++++|.+.|++..+.  .|+ ...|..+..+|.+.|++++|.+.
T Consensus       185 ~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~  262 (323)
T d1fcha_         185 SGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEH  262 (323)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999987643  4 6778999999999999999999999998874  454 56788999999999999999999


Q ss_pred             HHHHHH
Q 038429          243 SSHIEK  248 (258)
Q Consensus       243 ~~~m~~  248 (258)
                      |++..+
T Consensus       263 ~~~al~  268 (323)
T d1fcha_         263 FLEALN  268 (323)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998765

>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=99.37  E-value=1.8e-11  Score=98.04  Aligned_cols=211  Identities=12%  Similarity=-0.021  Sum_probs=155.9

Q ss_pred             cccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCC---CCChhhHHHHHHHHhcCCChhhHH
Q 038429           32 FLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIP---QPNLYTWNTLIRAYSSSDEPIQSF  108 (258)
Q Consensus        32 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~g~~~~a~  108 (258)
                      ..+....+...+....... +.+...+..+...+...+  +.+.|...+++..   ..+..+|..+...+...|++++|+
T Consensus       147 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~  223 (388)
T d1w3ba_         147 ALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQG--EIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAV  223 (388)
T ss_dssp             TTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT--CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHH
T ss_pred             ccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccC--cHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHH
Confidence            3445555555555555544 334566777777788888  8888888887553   245667888888888888888888


Q ss_pred             HHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--
Q 038429          109 MIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--  182 (258)
Q Consensus       109 ~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--  182 (258)
                      ..++.. ...+ +.+...+..+...+.+.|++++|...++..    +.+..+|..+...|.+.|++++|.+.|+....  
T Consensus       224 ~~~~~~-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  301 (388)
T d1w3ba_         224 AAYLRA-LSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC  301 (388)
T ss_dssp             HHHHHH-HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC
T ss_pred             HHHHHh-HHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            888887 3332 234556777778888888888888888776    45566888888888888888888888876543  


Q ss_pred             -CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          183 -KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-EVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       183 -~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                       .+...+..+...+...|++++|+..|++..+.  .|+ ..++..+...+.+.|++++|...|++..+.
T Consensus       302 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         302 PTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             36667788888888888888888888887653  454 456778888888888888888888887653

>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=99.31  E-value=8.7e-11  Score=94.00  Aligned_cols=200  Identities=9%  Similarity=-0.065  Sum_probs=167.9

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  105 (258)
                      .....++.+.|...+....+.. +-+...+..+...+...|  ++++|...++....   .+...+..+...+.+.|+++
T Consensus       178 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  254 (388)
T d1w3ba_         178 VFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEAR--IFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLID  254 (388)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT--CTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             cccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccc--cHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHH
Confidence            4556788999999999888765 345678889999999999  99999999987643   56778888999999999999


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +|+..|++. .+.. +-+..++..+...+...|++++|...++..    +.+...+..+...+.+.|++++|.+.|++..
T Consensus       255 ~A~~~~~~a-l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al  332 (388)
T d1w3ba_         255 LAIDTYRRA-IELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKAL  332 (388)
T ss_dssp             HHHHHHHHH-HHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHH-HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999987 3332 234567889999999999999999999888    6777899999999999999999999999876


Q ss_pred             C--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccCC
Q 038429          182 K--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-EVTMVVVLSACAKKRD  235 (258)
Q Consensus       182 ~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g~  235 (258)
                      +  | +..+|..+-..|...|++++|...|++..+  +.|+ ...|..+...|.+.||
T Consensus       333 ~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         333 EVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTCC
T ss_pred             HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCC
Confidence            5  4 566788899999999999999999998776  4575 5678888888887775

>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=99.07  E-value=2.5e-10  Score=89.93  Aligned_cols=212  Identities=10%  Similarity=-0.079  Sum_probs=157.9

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--CC----------------hh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--PN----------------LY   89 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~~----------------~~   89 (258)
                      ..+...|+++.|...+....+.. +-+...+..+..+|...|  ++++|.+.+++...  |+                ..
T Consensus        61 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (323)
T d1fcha_          61 TTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES--LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLG  137 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSTTTGGGCC------------
T ss_pred             HHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc--cccccccchhhHHHhccchHHHHHhhhhhhhhcccc
Confidence            46777899999999999998876 346778888999999999  99999998876532  11                11


Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHH
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYA  165 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~  165 (258)
                      .....+..+...+...+|...|........-.++..++..+...+...|++++|...++..    +.+...|..+...|.
T Consensus       138 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~  217 (323)
T d1fcha_         138 PSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLA  217 (323)
T ss_dssp             ---CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhccc
Confidence            1122233334446678888888877444444456667888888999999999999999987    556778999999999


Q ss_pred             hcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc---C-------CCCChhhHHHHHHHHhc
Q 038429          166 VCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVE---N-------VKPDEVTMVVVLSACAK  232 (258)
Q Consensus       166 ~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~-------~~p~~~t~~~li~~~~~  232 (258)
                      +.|++++|.+.|+...+  | +...|..+...|.+.|++++|+..|++..+.   .       .......|..+-.++..
T Consensus       218 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~  297 (323)
T d1fcha_         218 NGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSM  297 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHH
T ss_pred             ccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHH
Confidence            99999999999987653  4 6678999999999999999999999987652   1       11122345666666666


Q ss_pred             cCChhHHHHH
Q 038429          233 KRDLEFGIWV  242 (258)
Q Consensus       233 ~g~~~~a~~~  242 (258)
                      .|+.+.+...
T Consensus       298 ~~~~d~~~~~  307 (323)
T d1fcha_         298 LGQSDAYGAA  307 (323)
T ss_dssp             HTCGGGHHHH
T ss_pred             cCCHHHHHHH
Confidence            6776655433

>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=98.83  E-value=1e-07  Score=74.49  Aligned_cols=211  Identities=12%  Similarity=-0.004  Sum_probs=155.2

Q ss_pred             cchhhHHHHHHHHHhhccCcchhhhhhhhhhhh--------------ccCCCChHHHHHHhccCC----CCChhhHHHHH
Q 038429           34 TNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCA--------------LSTFSSLEYARKMFDQIP----QPNLYTWNTLI   95 (258)
Q Consensus        34 ~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~--------------~~~~~~~~~a~~~~~~m~----~~~~~~~~~li   95 (258)
                      ...+++..+|+.++..- +.++..|-.-+..+-              ..+  ..+++..+|++..    ..+...|...+
T Consensus        30 ~~~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~--~~~~a~~i~~ral~~~~p~~~~l~~~ya  106 (308)
T d2onda1          30 LITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKL--FSDEAANIYERAISTLLKKNMLLYFAYA  106 (308)
T ss_dssp             HHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHH--HHHHHHHHHHHHHTTTTTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhccc--chHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            34567788888887764 334555544443322              122  4577888887643    24556788888


Q ss_pred             HHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHH-HHhcCCH
Q 038429           96 RAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHF-YAVCGDL  170 (258)
Q Consensus        96 ~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~-~~~~g~~  170 (258)
                      ....+.|+++.|..+|+.+ .+.........|...+..+.+.|+++.|..+|+..    +.+...|...... +...|+.
T Consensus       107 ~~~~~~~~~~~a~~i~~~~-l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~~~  185 (308)
T d2onda1         107 DYEESRMKYEKVHSIYNRL-LAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDK  185 (308)
T ss_dssp             HHHHHTTCHHHHHHHHHHH-HTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCH
T ss_pred             HHHHhcccHHHHHHHHHHH-HHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhccCH
Confidence            9999999999999999998 44322222346889999999999999999999988    4444455444433 3346899


Q ss_pred             HHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC-CCCC--hhhHHHHHHHHhccCChhHHHHHHH
Q 038429          171 AMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVEN-VKPD--EVTMVVVLSACAKKRDLEFGIWVSS  244 (258)
Q Consensus       171 ~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~--~~t~~~li~~~~~~g~~~~a~~~~~  244 (258)
                      +.|..+|+.+.+  | +...|...+..+...|+.+.|..+|++..... ..|+  ...|...+.--...|+.+.+..+++
T Consensus       186 ~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~  265 (308)
T d2onda1         186 SVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEK  265 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999998865  3 67789999999999999999999999987753 4454  2468888888788899999999999


Q ss_pred             HHHH
Q 038429          245 HIEK  248 (258)
Q Consensus       245 ~m~~  248 (258)
                      ++.+
T Consensus       266 r~~~  269 (308)
T d2onda1         266 RRFT  269 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

>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=98.79  E-value=5.5e-08  Score=76.04  Aligned_cols=194  Identities=7%  Similarity=-0.022  Sum_probs=145.7

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC--C-C-hhhHHHHHHHHhcCCChhhHH
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ--P-N-LYTWNTLIRAYSSSDEPIQSF  108 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~--~-~-~~~~~~li~~~~~~g~~~~a~  108 (258)
                      .+..+.+..+++..++...+.+...|...+...-+.|  +.+.|..+|+.+.+  | + ...|...+....+.|+.++|.
T Consensus        77 ~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~--~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar  154 (308)
T d2onda1          77 KLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM--KYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGR  154 (308)
T ss_dssp             HHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHH
T ss_pred             ccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcc--cHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHH
Confidence            3456788889998887655666778888888888999  99999999987643  3 3 347899999999999999999


Q ss_pred             HHHHHhHhcCCCCCCcchHHHHHH-HhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC-
Q 038429          109 MIFLQLVYNSPYFPNEFTLPFVIK-AAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK-  182 (258)
Q Consensus       109 ~~~~~m~~~~~~~p~~~~~~~ll~-~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-  182 (258)
                      ++|+.. .+.+ +.+...|..... .+...|+.+.|..+|+..    +.+...|...++.+.+.|+++.|..+|++..+ 
T Consensus       155 ~i~~~a-l~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~  232 (308)
T d2onda1         155 MIFKKA-REDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  232 (308)
T ss_dssp             HHHHHH-HTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHS
T ss_pred             HHHHHH-HHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHh
Confidence            999998 4432 223333433332 234567889999999988    66788999999999999999999999997632 


Q ss_pred             ----C--ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc-CCCCChhhHHHHHHHH
Q 038429          183 ----K--DVVSWNSMISGFVEGGFFEKAIELYREMEVE-NVKPDEVTMVVVLSAC  230 (258)
Q Consensus       183 ----~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~t~~~li~~~  230 (258)
                          |  ....|...+.--...|+.+.+..+++++.+. .-.+.......++.-|
T Consensus       233 ~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~ry  287 (308)
T d2onda1         233 GSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEYEGKETALLVDRY  287 (308)
T ss_dssp             SSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTTSSCHHHHHHTTT
T ss_pred             CCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccccccchHHHHHHHH
Confidence                2  2347888888888899999999999988764 2223334444444433

>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=98.65  E-value=6.2e-07  Score=70.17  Aligned_cols=199  Identities=7%  Similarity=-0.042  Sum_probs=150.8

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCC---CCChhhHHHHHHHHhcCCChh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIP---QPNLYTWNTLIRAYSSSDEPI  105 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~g~~~  105 (258)
                      .+.+.+..++|.++++.++..+ +-+...|+..-.++...+ +++++|...++...   ..+..+|+.+...+.+.|+++
T Consensus        52 ~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~-~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~  129 (315)
T d2h6fa1          52 VLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQ-KDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPS  129 (315)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCT
T ss_pred             HHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhC-cCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHH
Confidence            4556678899999999999886 446677888887777765 15899999998764   357889999999999999999


Q ss_pred             hHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCC------HHHHHH
Q 038429          106 QSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGD------LAMAYC  175 (258)
Q Consensus       106 ~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~------~~~a~~  175 (258)
                      +|+..++.+.+..  +-+..+|..+...+.+.|++++|...++..    +.+...|+.+...+.+.++      +++|.+
T Consensus       130 eAl~~~~kal~~d--p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~  207 (315)
T d2h6fa1         130 QELEFIADILNQD--AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQ  207 (315)
T ss_dssp             THHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHH
T ss_pred             HHHHHHhhhhhhh--hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhhhhHHhHH
Confidence            9999999984322  345788999999999999999999999998    5677788888777777665      577888


Q ss_pred             HHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhc
Q 038429          176 VFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAK  232 (258)
Q Consensus       176 ~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~  232 (258)
                      .+....+  | +...|+.+...+.. ...+++...++...+....+ +...+..+...|..
T Consensus       208 ~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         208 YTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence            7776543  4 67778777665544 44678888887776643222 34456667776644

>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=98.59  E-value=5.7e-07  Score=70.40  Aligned_cols=187  Identities=9%  Similarity=-0.082  Sum_probs=144.7

Q ss_pred             hhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCC-ChhhHHHHHHHhHhcCCCCCCcchHHHHH
Q 038429           56 YSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSD-EPIQSFMIFLQLVYNSPYFPNEFTLPFVI  131 (258)
Q Consensus        56 ~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~p~~~~~~~ll  131 (258)
                      ..++.+-..+.+.+  ..++|..++++..+   .+..+|+....++...| ++++|+..++...+..  +-+..+|..+-
T Consensus        44 ~a~~~~~~~~~~~e--~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~--p~~~~a~~~~~  119 (315)
T d2h6fa1          44 DVYDYFRAVLQRDE--RSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ--PKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHTC--CCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC--chHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH--HhhhhHHHHHh
Confidence            35566666677777  99999999998754   46678899998988876 5899999999883322  33567888889


Q ss_pred             HHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCC----
Q 038429          132 KAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGF----  200 (258)
Q Consensus       132 ~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~----  200 (258)
                      ..+.+.|++++|...++..    +.+...|+.+...+.+.|++++|.+.|+...+  | +...|+.+-..+.+.+.    
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchh
Confidence            9999999999999999999    67788999999999999999999999998765  4 66788877666666555    


Q ss_pred             --hHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          201 --FEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       201 --~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                        +++|+..+.+..+.  .| +...|..+...+.. ...+++.+.++...+.
T Consensus       200 ~~~~~ai~~~~~al~~--~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKL--VPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDL  248 (315)
T ss_dssp             HHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHH
T ss_pred             hhhHHhHHHHHHHHHh--CCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHh
Confidence              56888888877764  35 45566666655554 4467788888877654

>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=98.57  E-value=8e-07  Score=69.40  Aligned_cols=217  Identities=12%  Similarity=-0.043  Sum_probs=133.8

Q ss_pred             cccccchhhHHHHHHHHHhhccCcc----hhhhhhhhhhhhccCCCChHHHHHHhccCCC-----C----ChhhHHHHHH
Q 038429           30 PHFLTNQKQLKRIHAQMLSTDFFFD----PYSASKLFTPCALSTFSSLEYARKMFDQIPQ-----P----NLYTWNTLIR   96 (258)
Q Consensus        30 ~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~   96 (258)
                      +...|++++|.++++.........+    ...+..+..++...|  ++++|...|++..+     +    ...++..+..
T Consensus        22 ~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g--~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          22 AINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKG--ELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            3456788888888888776432211    234566667777778  88888888775532     1    1234555566


Q ss_pred             HHhcCCChhhHHHHHHHhHh---cCCCCCCc---chHHHHHHHhcCcCCcchhhhhhhcc--------------------
Q 038429           97 AYSSSDEPIQSFMIFLQLVY---NSPYFPNE---FTLPFVIKAAARPVQFRVGQAIHGMF--------------------  150 (258)
Q Consensus        97 ~~~~~g~~~~a~~~~~~m~~---~~~~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~--------------------  150 (258)
                      .+...|++..+...+.....   ..+.....   ..+..+...+...|+++.+...+...                    
T Consensus       100 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  179 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence            66666777776666655421   11111111   12333444455555555544443332                    


Q ss_pred             ------------------------------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCC-------ChhhHHHHHH
Q 038429          151 ------------------------------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKK-------DVVSWNSMIS  193 (258)
Q Consensus       151 ------------------------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------~~~~~~~li~  193 (258)
                                                    ......+..+...+...|++++|...+....+.       ....+..+..
T Consensus       180 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~  259 (366)
T d1hz4a_         180 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  259 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence                                          011224455566667778888888888766541       2234566778


Q ss_pred             HHHcCCChHHHHHHHHHHHH----cCCCCC-hhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          194 GFVEGGFFEKAIELYREMEV----ENVKPD-EVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       194 ~~~~~g~~~~a~~~~~~m~~----~~~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                      .+...|++++|...+++...    .+..|+ ...+..+-..|.+.|++++|.+.+++..+
T Consensus       260 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         260 AQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88999999999999988753    244444 34677788889999999999999987643

>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=98.53  E-value=1.7e-06  Score=65.03  Aligned_cols=217  Identities=11%  Similarity=-0.060  Sum_probs=140.5

Q ss_pred             cccccchhhHHHHHHHHHhhccCc---chhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCC
Q 038429           30 PHFLTNQKQLKRIHAQMLSTDFFF---DPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDE  103 (258)
Q Consensus        30 ~~~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~  103 (258)
                      +......+.+..-+++........   ...++..+-.+|.+.|  ++++|...|++..+   .+..+|+.+..++.+.|+
T Consensus         9 ~~~~~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g--~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~   86 (259)
T d1xnfa_           9 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLG--LRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGN   86 (259)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTC
T ss_pred             ccccHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHH
Confidence            333445566666666666543211   2335666777888899  99999999987643   577899999999999999


Q ss_pred             hhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHh
Q 038429          104 PIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVM  179 (258)
Q Consensus       104 ~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~  179 (258)
                      +++|+..|++..+..  +-+..++..+..++...|+++.|...++..    +.+......+..++.+.+..+.+..+...
T Consensus        87 ~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (259)
T d1xnfa_          87 FDAAYEAFDSVLELD--PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  164 (259)
T ss_dssp             HHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHhhhhhhHHHHHH--hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccccHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            999999999984322  224567888889999999999999999888    44455555555556666665555555544


Q ss_pred             cCCCChhhHHH-HHHHHHcCCChHHHHHHHHHHHHcC-----CCCC-hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCc
Q 038429          180 IGKKDVVSWNS-MISGFVEGGFFEKAIELYREMEVEN-----VKPD-EVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIK  252 (258)
Q Consensus       180 m~~~~~~~~~~-li~~~~~~g~~~~a~~~~~~m~~~~-----~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  252 (258)
                      ....+...++. ++..+........   .++......     ..|+ ..+|..+-..+...|++++|...|+...+.  .
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~  239 (259)
T d1xnfa_         165 FEKSDKEQWGWNIVEFYLGNISEQT---LMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--N  239 (259)
T ss_dssp             HHHSCCCSTHHHHHHHHTTSSCHHH---HHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C
T ss_pred             hhccchhhhhhhHHHHHHHHHHHHH---HHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--C
Confidence            43332222222 2222222222111   122221111     1122 245677888899999999999999998764  4


Q ss_pred             ccc
Q 038429          253 MDL  255 (258)
Q Consensus       253 p~~  255 (258)
                      |+-
T Consensus       240 p~~  242 (259)
T d1xnfa_         240 VHN  242 (259)
T ss_dssp             CTT
T ss_pred             CCC
Confidence            553

>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=98.33  E-value=4.8e-06  Score=60.09  Aligned_cols=117  Identities=10%  Similarity=-0.037  Sum_probs=72.1

Q ss_pred             hhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhh
Q 038429           65 CALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQ  144 (258)
Q Consensus        65 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  144 (258)
                      +...|  +++.|.+.|++...++..+|..+-..|...|++++|++.|++.++-.                          
T Consensus        15 ~~~~~--d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--------------------------   66 (192)
T d1hh8a_          15 AADKK--DWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--------------------------   66 (192)
T ss_dssp             HHHTT--CHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------------------
T ss_pred             HHHCC--CHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--------------------------
Confidence            34455  77777777777666666677777777777777777777776662211                          


Q ss_pred             hhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---C----------------ChhhHHHHHHHHHcCCChHHHH
Q 038429          145 AIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---K----------------DVVSWNSMISGFVEGGFFEKAI  205 (258)
Q Consensus       145 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~----------------~~~~~~~li~~~~~~g~~~~a~  205 (258)
                            +.+...|+.+-.+|.+.|++++|.+.|+....   +                ...++..+-.++...|++++|.
T Consensus        67 ------p~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~  140 (192)
T d1hh8a_          67 ------KHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAE  140 (192)
T ss_dssp             ------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ------hhhhhhHHHHHHHHHhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHH
Confidence                  23344566666666666666666666654310   0                1133445556677778888888


Q ss_pred             HHHHHHHHcC
Q 038429          206 ELYREMEVEN  215 (258)
Q Consensus       206 ~~~~~m~~~~  215 (258)
                      +.+++.....
T Consensus       141 ~~l~~A~~~~  150 (192)
T d1hh8a_         141 EQLALATSMK  150 (192)
T ss_dssp             HHHHHHHTTC
T ss_pred             HHHHHHHhcC
Confidence            8777665543

>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=98.31  E-value=4.2e-07  Score=71.51  Aligned_cols=216  Identities=9%  Similarity=-0.068  Sum_probs=147.2

Q ss_pred             CcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHH-HHHHHhcCCCh
Q 038429           29 HPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNT-LIRAYSSSDEP  104 (258)
Q Consensus        29 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~-li~~~~~~g~~  104 (258)
                      .....+.++.+..+++...+.. +.+...|..+..++...+.++.+++...++...+   ++...|.. ....+...+..
T Consensus        82 ~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~  160 (334)
T d1dcea1          82 PEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAP  160 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCH
T ss_pred             hHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhcccc
Confidence            3445566888999999988776 4467777777777777664478899988887643   45666554 44677788999


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcC---
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIG---  181 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~---  181 (258)
                      ++|+..++.. ...+ +-+..+|+.+-.++.+.|++++|...+.....-......+...+...+..+++...+....   
T Consensus       161 ~~Al~~~~~~-i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~  238 (334)
T d1dcea1         161 AEELAFTDSL-ITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR  238 (334)
T ss_dssp             HHHHHHHHTT-TTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             HHHHHHHHHH-HHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhC
Confidence            9999999888 4332 2356678888889999999999888877771111111223344555566666666655432   


Q ss_pred             CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          182 KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       182 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      .++...+..+...+...|+.++|...+.+.....  | +...+..+...+.+.|+.++|.+.++...+.
T Consensus       239 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         239 AEPLFRCELSVEKSTVLQSELESCKELQELEPEN--KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC--chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            2345556666666667777888888777655432  3 3456777777888888888888888887654

>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=98.30  E-value=5e-06  Score=59.98  Aligned_cols=120  Identities=12%  Similarity=-0.004  Sum_probs=92.3

Q ss_pred             hcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHH
Q 038429          134 AARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYR  209 (258)
Q Consensus       134 ~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~  209 (258)
                      +...|+++.|...|..+ +++..+|..+-.+|.+.|++++|.+.|++..+  | +...|..+-.+|.+.|++++|...|+
T Consensus        15 ~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~   94 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLK   94 (192)
T ss_dssp             HHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHHHH
Confidence            34556666676666666 66677888899999999999999999987754  3 77789999999999999999999999


Q ss_pred             HHHHcC------------CCC--C-hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCcc
Q 038429          210 EMEVEN------------VKP--D-EVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKM  253 (258)
Q Consensus       210 ~m~~~~------------~~p--~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  253 (258)
                      +.....            ...  + ..++..+-.++.+.|++++|.+.+....+....|
T Consensus        95 kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          95 EALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            876531            111  1 2345566778899999999999999887654443

>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=98.28  E-value=8.7e-06  Score=60.99  Aligned_cols=186  Identities=11%  Similarity=-0.019  Sum_probs=122.7

Q ss_pred             cCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCCh
Q 038429           28 RHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEP  104 (258)
Q Consensus        28 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~  104 (258)
                      ..+.+.|+++.|...|+..++.. +-++.+|..+-.++.+.|  ++++|...|++..+   .+..+|..+...+...|++
T Consensus        45 ~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g--~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~  121 (259)
T d1xnfa_          45 VLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAG--NFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRD  121 (259)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHH--HHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHHhhH
Confidence            35667899999999999999876 457888999999999999  99999999998754   4567899999999999999


Q ss_pred             hhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cCchhHHHHHHHHHHhcCCHHHHHH-HHHhc
Q 038429          105 IQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---EDDLVISNSLIHFYAVCGDLAMAYC-VFVMI  180 (258)
Q Consensus       105 ~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~-~~~~m  180 (258)
                      ++|+..|+...+..  +.+......+..++.+.+..+....+....   .++...++ ++..+........... .....
T Consensus       122 ~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  198 (259)
T d1xnfa_         122 KLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLMERLKADA  198 (259)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhc--cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhh-HHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999884332  223333333333334444444443433333   23222332 2333322222222222 22222


Q ss_pred             CC-----C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChh
Q 038429          181 GK-----K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEV  221 (258)
Q Consensus       181 ~~-----~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  221 (258)
                      ..     | ...+|..+-..|...|++++|...|+.....  .|+..
T Consensus       199 ~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~  243 (259)
T d1xnfa_         199 TDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHNF  243 (259)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTTC
T ss_pred             HHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCH
Confidence            22     2 3346777888999999999999999988764  46543

>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=98.23  E-value=2.5e-06  Score=65.75  Aligned_cols=188  Identities=10%  Similarity=-0.037  Sum_probs=126.0

Q ss_pred             hhhhhhhhhhccCCCChHHHHHHhccCCC-----C----ChhhHHHHHHHHhcCCChhhHHHHHHHhHh---cCCCC-CC
Q 038429           57 SASKLFTPCALSTFSSLEYARKMFDQIPQ-----P----NLYTWNTLIRAYSSSDEPIQSFMIFLQLVY---NSPYF-PN  123 (258)
Q Consensus        57 ~~~~li~~~~~~~~~~~~~a~~~~~~m~~-----~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~-p~  123 (258)
                      .|......|...+  ++++|.+.|.+...     .    -..+|+.+..+|.+.|++++|+..++....   ..|.. ..
T Consensus        39 ~y~~aa~~y~~~~--~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  116 (290)
T d1qqea_          39 LCVQAATIYRLRK--ELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRG  116 (290)
T ss_dssp             HHHHHHHHHHHTT--CTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHCc--CHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhH
Confidence            3566677788888  99999988876542     1    235799999999999999999999987522   12211 11


Q ss_pred             cchHHHHHHHh-cCcCCcchhhhhhhcc------c---C-chhHHHHHHHHHHhcCCHHHHHHHHHhcCC--CCh-----
Q 038429          124 EFTLPFVIKAA-ARPVQFRVGQAIHGMF------E---D-DLVISNSLIHFYAVCGDLAMAYCVFVMIGK--KDV-----  185 (258)
Q Consensus       124 ~~~~~~ll~~~-~~~~~~~~a~~~~~~~------~---~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~~~-----  185 (258)
                      ..++..+...| ...|+++.|...++..      .   + -..++..+...|.+.|++++|.+.|+....  ++.     
T Consensus       117 ~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~  196 (290)
T d1qqea_         117 ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQW  196 (290)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGG
T ss_pred             HHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhh
Confidence            23455566566 4569999999888776      1   1 134678889999999999999999987543  211     


Q ss_pred             ---hhHHHHHHHHHcCCChHHHHHHHHHHHHcCCC-CC---hhhHHHHHHHHhc--cCChhHHHHHHHHH
Q 038429          186 ---VSWNSMISGFVEGGFFEKAIELYREMEVENVK-PD---EVTMVVVLSACAK--KRDLEFGIWVSSHI  246 (258)
Q Consensus       186 ---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~---~~t~~~li~~~~~--~g~~~~a~~~~~~m  246 (258)
                         ..|...+..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|..-|+++
T Consensus       197 ~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         197 SLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             hHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence               12334455667789999999999987654211 12   2244666666655  24467777666543

>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=98.19  E-value=6.6e-06  Score=63.25  Aligned_cols=195  Identities=9%  Similarity=-0.102  Sum_probs=131.6

Q ss_pred             hHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHh-
Q 038429           38 QLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVY-  116 (258)
Q Consensus        38 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-  116 (258)
                      ++.+++....+.+ .|....+..+..  ...+  ++++|..+           |......|...|++++|.+.|.+... 
T Consensus         3 ~~~~~l~~aek~~-~~~~~~~~~~~~--~~~~--~~~~Aa~~-----------y~~aa~~y~~~~~~~~A~~~y~kA~~~   66 (290)
T d1qqea_           3 DPVELLKRAEKKG-VPSSGFMKLFSG--SDSY--KFEEAADL-----------CVQAATIYRLRKELNLAGDSFLKAADY   66 (290)
T ss_dssp             CHHHHHHHHHHHS-SCCCTHHHHHSC--CSHH--HHHHHHHH-----------HHHHHHHHHHTTCTHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc-CcchhHHHHhcC--Cccc--cHHHHHHH-----------HHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            4555666655555 333333322211  1122  56777665           45567889999999999999988732 


Q ss_pred             --cCCCCCC-cchHHHHHHHhcCcCCcchhhhhhhcc----------cCchhHHHHHHHHHH-hcCCHHHHHHHHHhcCC
Q 038429          117 --NSPYFPN-EFTLPFVIKAAARPVQFRVGQAIHGMF----------EDDLVISNSLIHFYA-VCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       117 --~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~----------~~~~~~~~~li~~~~-~~g~~~~a~~~~~~m~~  182 (258)
                        +.+-+++ ..+|..+..+|.+.|++++|...++..          .....++..+...|- ..|++++|.+.+....+
T Consensus        67 ~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~  146 (290)
T d1qqea_          67 QKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGE  146 (290)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHH
Confidence              1222222 357889999999999999999888876          122445666666774 46999999999976542


Q ss_pred             -------C--ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC-----h-hhHHHHHHHHhccCChhHHHHHHHHHH
Q 038429          183 -------K--DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD-----E-VTMVVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       183 -------~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~-~t~~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                             +  -..+|..+...+...|++++|...|++.........     . ..+...+..+...|+++.|...++...
T Consensus       147 l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~  226 (290)
T d1qqea_         147 WYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQ  226 (290)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGG
T ss_pred             HHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence                   1  234688889999999999999999999876532211     1 123444556667899999999988775


Q ss_pred             H
Q 038429          248 K  248 (258)
Q Consensus       248 ~  248 (258)
                      +
T Consensus       227 ~  227 (290)
T d1qqea_         227 S  227 (290)
T ss_dssp             C
T ss_pred             H
Confidence            4

>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=98.13  E-value=7.3e-06  Score=59.02  Aligned_cols=94  Identities=5%  Similarity=-0.212  Sum_probs=62.7

Q ss_pred             CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHH
Q 038429           86 PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLI  161 (258)
Q Consensus        86 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li  161 (258)
                      |+...+...-..|.+.|++++|+..|++.....  +-+...|..+..+|.+.|+++.|...++..    +.+...|..+-
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~--p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            455556667778888888888888887763322  234556666677777777777777766666    33455666677


Q ss_pred             HHHHhcCCHHHHHHHHHhcC
Q 038429          162 HFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~  181 (258)
                      .+|.+.|++++|...|+...
T Consensus        80 ~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHH
Confidence            77777777777777776543

>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=98.05  E-value=2.4e-05  Score=56.20  Aligned_cols=92  Identities=12%  Similarity=-0.092  Sum_probs=72.1

Q ss_pred             CCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHH
Q 038429          122 PNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISG  194 (258)
Q Consensus       122 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~  194 (258)
                      |+...+...-+.+.+.|++++|...|...    +.+...|+.+-.+|.+.|++++|...|+...+  | +..+|..+-.+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHH
Confidence            56666667777888888888888888776    66677788888888888888888888887765  4 56678888888


Q ss_pred             HHcCCChHHHHHHHHHHHH
Q 038429          195 FVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       195 ~~~~g~~~~a~~~~~~m~~  213 (258)
                      |...|++++|+..|++..+
T Consensus        82 ~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            8888888888888887654

>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=97.96  E-value=2.8e-05  Score=51.05  Aligned_cols=86  Identities=13%  Similarity=-0.050  Sum_probs=47.3

Q ss_pred             HHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhH
Q 038429          162 HFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEF  238 (258)
Q Consensus       162 ~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~  238 (258)
                      +.+.+.|++++|...|....+  | +...|..+-.+|...|++++|+..+++..+.+ +.+...|..+..++...|++++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHH
Confidence            344555666666666655432  3 44455555556666666666666665555432 2244455555556666666666


Q ss_pred             HHHHHHHHHH
Q 038429          239 GIWVSSHIEK  248 (258)
Q Consensus       239 a~~~~~~m~~  248 (258)
                      |...++...+
T Consensus        90 A~~~~~~a~~   99 (117)
T d1elwa_          90 AKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            6666665543

>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=97.94  E-value=2.6e-05  Score=51.18  Aligned_cols=70  Identities=17%  Similarity=0.055  Sum_probs=48.9

Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhh
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK---KDVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVT  222 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t  222 (258)
                      +.+...|..+-.+|.+.|++++|.+.+....+   .+...|..+..++...|++++|+..|++..+.  .|+...
T Consensus        34 p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a~~~--~p~~~~  106 (117)
T d1elwa_          34 PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAKRTYEEGLKH--EANNPQ  106 (117)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHH
T ss_pred             CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHH
Confidence            44556677777777777888888877776543   36667777777888888888888888777653  455443

>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=97.91  E-value=7e-05  Score=51.83  Aligned_cols=114  Identities=11%  Similarity=0.026  Sum_probs=87.2

Q ss_pred             HHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCC
Q 038429          127 LPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGG  199 (258)
Q Consensus       127 ~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g  199 (258)
                      +...-+.|.+.|++++|...|+..    +.+...|..+..+|...|++++|.+.|+...+  | +...|..+..++...|
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcC
Confidence            445566788899999999999988    77778999999999999999999999987753  4 6678999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCChh-hHHHHHHH--HhccCChhHHHHH
Q 038429          200 FFEKAIELYREMEVENVKPDEV-TMVVVLSA--CAKKRDLEFGIWV  242 (258)
Q Consensus       200 ~~~~a~~~~~~m~~~~~~p~~~-t~~~li~~--~~~~g~~~~a~~~  242 (258)
                      ++++|...+++....  .|+.. .+..+-.+  ....+.+++|...
T Consensus        93 ~~~eA~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          93 KFRAALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             CHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999998875  35543 33333333  2333445555544

>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=97.88  E-value=5.7e-05  Score=52.32  Aligned_cols=90  Identities=10%  Similarity=-0.065  Sum_probs=72.6

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHh
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAV  166 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~  166 (258)
                      +...-+.|.+.|++++|+..|++..+ .+ +-+...|..+..++...|++++|...|+..    +.+...|..+..+|..
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~-~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIE-LN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH-HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccc-cc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHH
Confidence            45566778889999999999988833 32 345677888888899999999999998888    5566788899999999


Q ss_pred             cCCHHHHHHHHHhcCC
Q 038429          167 CGDLAMAYCVFVMIGK  182 (258)
Q Consensus       167 ~g~~~~a~~~~~~m~~  182 (258)
                      .|++++|.+.|+...+
T Consensus        91 ~g~~~eA~~~~~~a~~  106 (159)
T d1a17a_          91 LGKFRAALRDYETVVK  106 (159)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            9999999998887653

>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=97.86  E-value=1.6e-05  Score=52.73  Aligned_cols=85  Identities=7%  Similarity=-0.124  Sum_probs=44.5

Q ss_pred             HHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCC---HHHHHHHHHhcCC--CC---hhhHHHHHHHHH
Q 038429          129 FVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGD---LAMAYCVFVMIGK--KD---VVSWNSMISGFV  196 (258)
Q Consensus       129 ~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~--~~---~~~~~~li~~~~  196 (258)
                      .+++.+...++++.|+..|+..    +.+..++..+-.++.+.++   +++|.++|+...+  |+   ..+|..+-.+|.
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            4455555555666666655555    4444555555555554333   3345555555443  21   123444555555


Q ss_pred             cCCChHHHHHHHHHHHH
Q 038429          197 EGGFFEKAIELYREMEV  213 (258)
Q Consensus       197 ~~g~~~~a~~~~~~m~~  213 (258)
                      +.|++++|.+.|++..+
T Consensus        84 ~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHH
Confidence            56666666666655555

>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=97.83  E-value=6.4e-05  Score=58.09  Aligned_cols=186  Identities=9%  Similarity=-0.093  Sum_probs=124.1

Q ss_pred             hhhhhhhccCCCChHHHHHHhccCCC--CC------hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC----cchH
Q 038429           60 KLFTPCALSTFSSLEYARKMFDQIPQ--PN------LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN----EFTL  127 (258)
Q Consensus        60 ~li~~~~~~~~~~~~~a~~~~~~m~~--~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~  127 (258)
                      .....+...|  ++++|..++++...  |+      ..+++.+...+...|++++|+..|++......-.++    ..++
T Consensus        17 lrA~~~~~~g--~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          17 LRAQVAINDG--NPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHTT--CHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHCC--CHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            3345566778  99999999876422  22      346778889999999999999999887322111112    2345


Q ss_pred             HHHHHHhcCcCCcchhhhhhhcc-----------cC-chhHHHHHHHHHHhcCCHHHHHHHHHhcCC-------------
Q 038429          128 PFVIKAAARPVQFRVGQAIHGMF-----------ED-DLVISNSLIHFYAVCGDLAMAYCVFVMIGK-------------  182 (258)
Q Consensus       128 ~~ll~~~~~~~~~~~a~~~~~~~-----------~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-------------  182 (258)
                      ..+...+...|++..+...+...           .+ ....+..+-..+...|+++.+...+.....             
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            66677788889988888777665           11 123555667788889999999888765431             


Q ss_pred             -------------------------------C-----ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCC---hhhH
Q 038429          183 -------------------------------K-----DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPD---EVTM  223 (258)
Q Consensus       183 -------------------------------~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~t~  223 (258)
                                                     .     ....+..+...+...|+.++|...+++........+   ...+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence                                           0     112344455566677788888777766544322111   2345


Q ss_pred             HHHHHHHhccCChhHHHHHHHHHH
Q 038429          224 VVVLSACAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       224 ~~li~~~~~~g~~~~a~~~~~~m~  247 (258)
                      ..+...+...|++++|...++...
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al  278 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELN  278 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            567778888899999999888765

>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=97.83  E-value=5.3e-05  Score=49.22  Aligned_cols=86  Identities=13%  Similarity=0.008  Sum_probs=71.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHhccC
Q 038429          159 SLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKP-DEVTMVVVLSACAKKR  234 (258)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~g  234 (258)
                      .+-..+.+.|++++|...|++..+  | +...|..+-..+.+.|++++|+..|++..+.  .| +...+..+...|...|
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCC
Confidence            355677889999999999988754  5 6778888999999999999999999988775  35 4677888999999999


Q ss_pred             ChhHHHHHHHHH
Q 038429          235 DLEFGIWVSSHI  246 (258)
Q Consensus       235 ~~~~a~~~~~~m  246 (258)
                      ++++|.+.+++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            999999998875

>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=97.66  E-value=0.00021  Score=50.55  Aligned_cols=67  Identities=10%  Similarity=0.040  Sum_probs=40.5

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH-----HcCCccc
Q 038429          187 SWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIE-----KNGIKMD  254 (258)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~-----~~g~~p~  254 (258)
                      .+..+...+...|++++|+..+++..... +-+...|..++.+|.+.|+.++|.+.|++..     +.|+.|+
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~  140 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  140 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcC
Confidence            45556666666666666666666665542 2245566666666666666666666666653     2466654

>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=97.66  E-value=0.00015  Score=47.81  Aligned_cols=90  Identities=11%  Similarity=0.023  Sum_probs=52.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCCh---HHHHHHHHHHHHcCCCCC-hhhHHHHHHHHh
Q 038429          159 SLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFF---EKAIELYREMEVENVKPD-EVTMVVVLSACA  231 (258)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~---~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~  231 (258)
                      .+++.+...+++++|++.|+...+  | +..++..+-.++.+.++.   ++|+.++++.....-.|+ ..++..+-.+|.
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            455666666677777777765543  3 455666666666554433   346666666554432222 124556666666


Q ss_pred             ccCChhHHHHHHHHHHH
Q 038429          232 KKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       232 ~~g~~~~a~~~~~~m~~  248 (258)
                      +.|++++|.+.|++..+
T Consensus        84 ~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHH
Confidence            67777777777776655

>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=97.65  E-value=6.7e-05  Score=48.70  Aligned_cols=85  Identities=7%  Similarity=-0.106  Sum_probs=44.1

Q ss_pred             HHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcC
Q 038429           93 TLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCG  168 (258)
Q Consensus        93 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g  168 (258)
                      .+...+.+.|++++|+..|++.++..  +-+..+|..+-.++.+.|++++|...++..    +.+...|..+...|...|
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCC
Confidence            34555666677777777776663322  112344444444555555555555544444    333445555555555555


Q ss_pred             CHHHHHHHHHh
Q 038429          169 DLAMAYCVFVM  179 (258)
Q Consensus       169 ~~~~a~~~~~~  179 (258)
                      ++++|.+.|++
T Consensus        99 ~~~~A~~~l~~  109 (112)
T d1hxia_          99 NANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            55555555543

>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=97.64  E-value=0.00042  Score=48.90  Aligned_cols=120  Identities=11%  Similarity=0.119  Sum_probs=83.9

Q ss_pred             HHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHhcCCH
Q 038429           92 NTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAVCGDL  170 (258)
Q Consensus        92 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~g~~  170 (258)
                      ..........|++++|...|.....-.   ++..        +......+-+...-..+ +.-...+..+...+.+.|++
T Consensus        15 ~~~g~~~~~~g~~e~A~~~~~~AL~l~---rG~~--------l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~   83 (179)
T d2ff4a2          15 KTAGVHAAAAGRFEQASRHLSAALREW---RGPV--------LDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRA   83 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC---CSST--------TGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC---cccc--------cccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCc
Confidence            334457788899999999998873221   1110        00000011111111112 33445788899999999999


Q ss_pred             HHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHH-----cCCCCChhh
Q 038429          171 AMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEV-----ENVKPDEVT  222 (258)
Q Consensus       171 ~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~t  222 (258)
                      ++|...++...+  | +...|..++.+|.+.|+..+|++.|+++..     .|+.|+..+
T Consensus        84 ~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          84 SAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             hHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            999999998764  4 778999999999999999999999998743     599998766

>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=97.58  E-value=1.8e-05  Score=61.83  Aligned_cols=188  Identities=8%  Similarity=-0.046  Sum_probs=132.9

Q ss_pred             ccchhhHHHHHHHHHhhccCcchhhhhh-hhhhhhccCCCChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHH
Q 038429           33 LTNQKQLKRIHAQMLSTDFFFDPYSASK-LFTPCALSTFSSLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSF  108 (258)
Q Consensus        33 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~-li~~~~~~~~~~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~  108 (258)
                      .++.+++...+..+.... +++...+.. ....+...+  ..+.|...++...+   .+..+|+.+...+.+.|++++|.
T Consensus       122 ~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~--~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~  198 (334)
T d1dcea1         122 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAV--APAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (334)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCC--CHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             cccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhcc--ccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHH
Confidence            346788998999888875 334555443 445666677  99999999988765   46788999999999999888776


Q ss_pred             HHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCCCC
Q 038429          109 MIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGKKD  184 (258)
Q Consensus       109 ~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  184 (258)
                      ..+... .+.  .|+   .......+...+..+.+...+...    +++...+..+...+...|+.++|...+....+.+
T Consensus       199 ~~~~~~-~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  272 (334)
T d1dcea1         199 PQGRLP-ENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELEPEN  272 (334)
T ss_dssp             SCCSSC-HHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHh-HHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            555433 111  111   112233344455666666665555    6667788888889999999999999999887754


Q ss_pred             ---hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChh-hHHHHHHHHh
Q 038429          185 ---VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEV-TMVVVLSACA  231 (258)
Q Consensus       185 ---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-t~~~li~~~~  231 (258)
                         ...|..+...+...|+.++|...+++..+.  .|+.. .|..|-..+.
T Consensus       273 p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         273 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHh
Confidence               456777888999999999999999998774  57544 4455544443

>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=97.57  E-value=0.00056  Score=46.78  Aligned_cols=117  Identities=12%  Similarity=0.050  Sum_probs=80.3

Q ss_pred             hhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcC
Q 038429           89 YTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCG  168 (258)
Q Consensus        89 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g  168 (258)
                      ..+......+.+.|++.+|+..|.+...-...                .............-.....+|+.+..+|.+.|
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~   81 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIH----------------TEEWDDQILLDKKKNIEISCNLNLATCYNKNK   81 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTT----------------CTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc----------------hhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhc
Confidence            34555667788899999999999887322111                11111100000001234467888999999999


Q ss_pred             CHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhH
Q 038429          169 DLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTM  223 (258)
Q Consensus       169 ~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~  223 (258)
                      ++++|.+.+....+  | +..+|..+..++...|++++|...|++..+.  .|+....
T Consensus        82 ~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~~~  137 (153)
T d2fbna1          82 DYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDI  137 (153)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHH
T ss_pred             ccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHH
Confidence            99999999987643  4 7788999999999999999999999888774  4655443

>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=97.48  E-value=0.00021  Score=47.48  Aligned_cols=89  Identities=11%  Similarity=0.005  Sum_probs=47.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcC---CCC--C-hhhHHHHHHH
Q 038429          159 SLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVEN---VKP--D-EVTMVVVLSA  229 (258)
Q Consensus       159 ~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~p--~-~~t~~~li~~  229 (258)
                      .+-+.|.+.|++++|.+.|.+..+  | +...|..+-.+|.+.|++++|+..+++..+..   ..+  . ..+|..+-..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            344555566666666666654432  2 45556666666666666666666666654321   000  0 1244555555


Q ss_pred             HhccCChhHHHHHHHHHH
Q 038429          230 CAKKRDLEFGIWVSSHIE  247 (258)
Q Consensus       230 ~~~~g~~~~a~~~~~~m~  247 (258)
                      +...+++++|.+.|....
T Consensus        89 ~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHH
Confidence            556666666666665544

>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=97.31  E-value=0.021  Score=44.11  Aligned_cols=131  Identities=11%  Similarity=-0.002  Sum_probs=57.3

Q ss_pred             CCCceeeecCCCccCcccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHH
Q 038429           15 PNPTTLTVNNGHQRHPHFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTL   94 (258)
Q Consensus        15 p~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~l   94 (258)
                      |+......+..   .|.+.|.++.|..++..+..         |..++..+.+.+  +++.|..++...  .+..+|..+
T Consensus        12 ~n~~d~~~i~~---~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~--~~~~avd~~~k~--~~~~~~k~~   75 (336)
T d1b89a_          12 PNNAHIQQVGD---RCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLG--EYQAAVDGARKA--NSTRTWKEV   75 (336)
T ss_dssp             C-------------------CTTTHHHHHHHTTC---------HHHHHHHHHTTT--CHHHHHHHHHHH--TCHHHHHHH
T ss_pred             CCcCCHHHHHH---HHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhc--cHHHHHHHHHHc--CCHHHHHHH
Confidence            34343344444   77788888999888874432         445555555555  666665555433  234455555


Q ss_pred             HHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc----cCchhHHHHHHHHHHhc
Q 038429           95 IRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF----EDDLVISNSLIHFYAVC  167 (258)
Q Consensus        95 i~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~li~~~~~~  167 (258)
                      ...+.+..+..-+     .+ ...+...+......++..|-..|.+++...+++..    ..+...++-++..|++.
T Consensus        76 ~~~l~~~~e~~la-----~i-~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QM-CGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHHTTCHHHH-----HH-TTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTT
T ss_pred             HHHHHhCcHHHHH-----HH-HHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHh
Confidence            5555554433221     11 11122233333444555555555555554444433    33444455555555554

>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=97.26  E-value=0.016  Score=42.76  Aligned_cols=213  Identities=13%  Similarity=-0.013  Sum_probs=136.7

Q ss_pred             ccccchhhHHHHHHHHHhhccCcchhhhhhhhhhhhc----cCCCChHHHHHHhccCCC-CChhhHHHHHHHHhc----C
Q 038429           31 HFLTNQKQLKRIHAQMLSTDFFFDPYSASKLFTPCAL----STFSSLEYARKMFDQIPQ-PNLYTWNTLIRAYSS----S  101 (258)
Q Consensus        31 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~  101 (258)
                      -..++.++|.++|....+.|   +...+-.|-..|..    ..  +...+...+..... .+...+..+...+..    .
T Consensus        13 ~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~--d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~   87 (265)
T d1ouva_          13 YKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEK--NLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVS   87 (265)
T ss_dssp             HHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSC
T ss_pred             HHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcch--hHHHHHHhhcccccccccchhhccccccccccccc
Confidence            34679999999999998877   34444444444443    34  88888888876543 455555555555543    4


Q ss_pred             CChhhHHHHHHHhHhcCCCCCCcchHHHHHHHh--cCcCCcchhhhhhhcc--cCchhHHHHHHHHHHh----cCCHHHH
Q 038429          102 DEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAA--ARPVQFRVGQAIHGMF--EDDLVISNSLIHFYAV----CGDLAMA  173 (258)
Q Consensus       102 g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~--~~~~~~~~~li~~~~~----~g~~~~a  173 (258)
                      .+.+.|...++.. ...|.......+ ......  ........+...+...  ..+...+..|...|..    ..+...+
T Consensus        88 ~~~~~a~~~~~~a-~~~g~~~a~~~l-~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~  165 (265)
T d1ouva_          88 QNTNKALQYYSKA-CDLKYAEGCASL-GGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDAGRGTPKDLKKA  165 (265)
T ss_dssp             CCHHHHHHHHHHH-HHTTCHHHHHHH-HHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             hhhHHHHHHHhhh-hhhhhhhHHHhh-cccccCCCcccchhHHHHHHhhhhhcccccchhhhhhhhhccCCCcccccccc
Confidence            6778888888887 555532221111 111111  2223344444555444  5677788888888876    4567777


Q ss_pred             HHHHHhcCCC-ChhhHHHHHHHHHc----CCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCChhHHHHHHH
Q 038429          174 YCVFVMIGKK-DVVSWNSMISGFVE----GGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK----KRDLEFGIWVSS  244 (258)
Q Consensus       174 ~~~~~~m~~~-~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~g~~~~a~~~~~  244 (258)
                      ...++...++ +......+-..|..    .++.++|..+|++..+.|   +...+..|-..|.+    ..+.++|.+.|+
T Consensus       166 ~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~  242 (265)
T d1ouva_         166 LASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFK  242 (265)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHH
T ss_pred             hhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHH
Confidence            7777765443 55555555444443    568999999999988876   35566666666654    348999999999


Q ss_pred             HHHHcCCcc
Q 038429          245 HIEKNGIKM  253 (258)
Q Consensus       245 ~m~~~g~~p  253 (258)
                      +..+.|-.+
T Consensus       243 kAa~~g~~~  251 (265)
T d1ouva_         243 KGCKLGAKG  251 (265)
T ss_dssp             HHHHHTCHH
T ss_pred             HHHHCcCHH
Confidence            998887543

>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=97.22  E-value=0.0017  Score=45.17  Aligned_cols=93  Identities=8%  Similarity=-0.114  Sum_probs=65.0

Q ss_pred             HHHHHHHhcCcCCcchhhhhhhcc-------------------cCchhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-C
Q 038429          127 LPFVIKAAARPVQFRVGQAIHGMF-------------------EDDLVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-D  184 (258)
Q Consensus       127 ~~~ll~~~~~~~~~~~a~~~~~~~-------------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~  184 (258)
                      +...-+.+.+.|++++|...|...                   ..-..+|+.+..+|.+.|++++|+..++...+  | +
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~   95 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNN   95 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccccc
Confidence            344455677788888888877655                   01124566777778888888888888876543  4 6


Q ss_pred             hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChh
Q 038429          185 VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEV  221 (258)
Q Consensus       185 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  221 (258)
                      +..|..+..+|...|++++|...|++..+.  .|+..
T Consensus        96 ~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~  130 (170)
T d1p5qa1          96 EKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNK  130 (170)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCH
T ss_pred             hhhhHHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCH
Confidence            677777888888888888888888887764  45433

>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=97.21  E-value=0.00097  Score=46.42  Aligned_cols=91  Identities=9%  Similarity=-0.036  Sum_probs=60.1

Q ss_pred             HHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC-------------cchHHHHHHHhcCcCCcchhhhhhhcc----cCch
Q 038429           92 NTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN-------------EFTLPFVIKAAARPVQFRVGQAIHGMF----EDDL  154 (258)
Q Consensus        92 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~-------------~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~  154 (258)
                      ...-..+.+.|++++|+..|.+...-.+..+.             ..+|+.+..+|.+.|+++.|...++..    +.++
T Consensus        17 ~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~   96 (170)
T d1p5qa1          17 KERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNE   96 (170)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccccch
Confidence            33444555556666666666554222111111             124556667777888888888777777    5577


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK  182 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  182 (258)
                      ..|..+..+|...|++++|...|+...+
T Consensus        97 ~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          97 KGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            7888899999999999999999988754

>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=97.05  E-value=0.0022  Score=43.66  Aligned_cols=93  Identities=9%  Similarity=-0.105  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCC--------C-----------ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCC
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGK--------K-----------DVVSWNSMISGFVEGGFFEKAIELYREMEVENV  216 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~--------~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  216 (258)
                      .+..--..+.+.|++++|...|....+        +           ...+|+.+..+|.+.|++++|++.+++..+.. 
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-   97 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-   97 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-
Confidence            344455677788888888888875431        1           12467788889999999999999999988753 


Q ss_pred             CCChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          217 KPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       217 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      +.+..+|..+..++...|++++|...|+...+.
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            336789999999999999999999999998765

>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=97.05  E-value=0.0017  Score=44.96  Aligned_cols=112  Identities=10%  Similarity=-0.021  Sum_probs=79.7

Q ss_pred             hHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHhcC
Q 038429           90 TWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAVCG  168 (258)
Q Consensus        90 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~~g  168 (258)
                      .+......+.+.|++++|+..|.+....          .........   .    .-...+ +.....|+.+-.+|.+.|
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~----------~~~~~~~~~---~----~~~~~~~~~~~~~~~nla~~~~~~~   91 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRY----------VEGSRAAAE---D----ADGAKLQPVALSCVLNIGACKLKMS   91 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH----------HHHHHHHSC---H----HHHGGGHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh----------hhhhhhhhh---h----HHHHHhChhhHHHHHHHHHHHHhhc
Confidence            4566777888899999999999876220          000000000   0    000112 445667888899999999


Q ss_pred             CHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh
Q 038429          169 DLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE  220 (258)
Q Consensus       169 ~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  220 (258)
                      ++++|+..+....+  | +...|..+-.+|...|++++|...|++..+.  .|+.
T Consensus        92 ~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n  144 (169)
T d1ihga1          92 DWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APED  144 (169)
T ss_dssp             CHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             ccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCC
Confidence            99999999987754  4 7778999999999999999999999998874  4554

>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=96.93  E-value=0.0013  Score=43.38  Aligned_cols=91  Identities=8%  Similarity=0.035  Sum_probs=56.1

Q ss_pred             HHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCH
Q 038429           91 WNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDL  170 (258)
Q Consensus        91 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~  170 (258)
                      +-.+-..+.+.|++++|+..|.+... .+                               +.+...|..+-.+|.+.|++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~-~~-------------------------------p~~~~~~~~~a~~~~~~~~~   54 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKE-LD-------------------------------PTNMTYITNQAAVYFEKGDY   54 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH-HC-------------------------------TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH-hC-------------------------------cccHHHHHhHHHHHHHcCch
Confidence            44455666677777777777766622 11                               23455666667777777777


Q ss_pred             HHHHHHHHhcCC--C-Ch-------hhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          171 AMAYCVFVMIGK--K-DV-------VSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       171 ~~a~~~~~~m~~--~-~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      ++|.+.++...+  | +.       .+|..+-..+...+++++|...|++-..
T Consensus        55 ~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          55 NKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence            777777766543  1 11       2455555666677777888887776554

>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=96.91  E-value=0.0039  Score=43.05  Aligned_cols=92  Identities=4%  Similarity=-0.038  Sum_probs=72.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCC------------------C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCC
Q 038429          157 SNSLIHFYAVCGDLAMAYCVFVMIGK------------------K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVK  217 (258)
Q Consensus       157 ~~~li~~~~~~g~~~~a~~~~~~m~~------------------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  217 (258)
                      +......+.+.|++++|.+.|.+..+                  | ....|+.+-.++.+.|++++|+..+++..+.. +
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p  108 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  108 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-h
Confidence            34455667778888888887765531                  1 44567778888999999999999999988753 2


Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHHc
Q 038429          218 PDEVTMVVVLSACAKKRDLEFGIWVSSHIEKN  249 (258)
Q Consensus       218 p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  249 (258)
                      -+...|..+..++.+.|++++|.+.|+...+.
T Consensus       109 ~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1         109 SNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            35678999999999999999999999998764

>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=96.89  E-value=0.038  Score=42.58  Aligned_cols=134  Identities=10%  Similarity=0.017  Sum_probs=89.7

Q ss_pred             cchhhhhhhhhhhhccCCCChHHHHHHhccCCCCChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHH
Q 038429           53 FDPYSASKLFTPCALSTFSSLEYARKMFDQIPQPNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIK  132 (258)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~  132 (258)
                      |+..-...+...|.+.|  .++.|..++..+.     -|.-++..+.+.++++.|.+++...       -+..+|..+..
T Consensus        12 ~n~~d~~~i~~~c~~~~--lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~-------~~~~~~k~~~~   77 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEK--MYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCF   77 (336)
T ss_dssp             C------------------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCC--CHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHc-------CCHHHHHHHHH
Confidence            45555566777788888  9999999988664     4667888899999999998888766       25568989999


Q ss_pred             HhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcC---CCChhhHHHHHHHHHcCCC
Q 038429          133 AAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIG---KKDVVSWNSMISGFVEGGF  200 (258)
Q Consensus       133 ~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~g~  200 (258)
                      +|.+......+..+-.....+......++..|-..|.+++...+++...   .++...++-++..|++.+.
T Consensus        78 ~l~~~~e~~la~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~~  148 (336)
T d1b89a_          78 ACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKP  148 (336)
T ss_dssp             HHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCH
T ss_pred             HHHhCcHHHHHHHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhCh
Confidence            9888776655433322223444455679999999999999999998653   3477789999999998753

>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=96.78  E-value=0.0002  Score=53.95  Aligned_cols=31  Identities=19%  Similarity=0.217  Sum_probs=18.1

Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      +.|...+..+...|+..|++++|.+.|+...
T Consensus        27 P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~   57 (264)
T d1zbpa1          27 PKDASLRSSFIELLCIDGDFERADEQLMQSI   57 (264)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3344555666666666666666666665554

>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=96.77  E-value=0.004  Score=42.96  Aligned_cols=139  Identities=10%  Similarity=-0.050  Sum_probs=90.1

Q ss_pred             hhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc-cCchhHHHHHHHHHHh
Q 038429           88 LYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF-EDDLVISNSLIHFYAV  166 (258)
Q Consensus        88 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~li~~~~~  166 (258)
                      ...+......+.+.|++.+|+..|..........++                ...  ...... .....+|+.+-.+|.+
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~----------------~~~--~~~~~~~~~~~~~~~Nla~~~~~   76 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYG----------------LSE--KESKASESFLLAAFLNLAMCYLK   76 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCS----------------CCH--HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhc----------------cch--hhhhhcchhHHHHHHhHHHHHHH
Confidence            345667778899999999999999876221111111                000  000011 1224567778889999


Q ss_pred             cCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH-hccCCh-hHHHH
Q 038429          167 CGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSAC-AKKRDL-EFGIW  241 (258)
Q Consensus       167 ~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~-~~~g~~-~~a~~  241 (258)
                      .|++++|+..++...+  | +...|..+..++...|++++|...|++....  .|+.......+..+ .+.+.. +...+
T Consensus        77 l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~~~~~~~~e~~kk  154 (168)
T d1kt1a1          77 LREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIFMCQKKAKEHNERDRR  154 (168)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHhHHHHHHH
Confidence            9999999999987654  4 7788999999999999999999999998874  56554443333333 333333 23444


Q ss_pred             HHHHH
Q 038429          242 VSSHI  246 (258)
Q Consensus       242 ~~~~m  246 (258)
                      ++..|
T Consensus       155 ~~~~~  159 (168)
T d1kt1a1         155 TYANM  159 (168)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            54444

>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=96.72  E-value=0.0067  Score=41.78  Aligned_cols=93  Identities=10%  Similarity=-0.131  Sum_probs=55.0

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC-------C-----------ChhhHHHHHHHHhcCCChhhHHHHHHHhHh
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ-------P-----------NLYTWNTLIRAYSSSDEPIQSFMIFLQLVY  116 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-------~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  116 (258)
                      ...+...-..+.+.|  ++++|...|+....       .           ....|+.+..+|.+.|++++|+..++....
T Consensus        15 a~~~~e~G~~~~~~~--~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~   92 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGG--KYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG   92 (168)
T ss_dssp             HHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhh
Confidence            344556667788888  99999998865321       0           112234444444555555555555544411


Q ss_pred             cCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 038429          117 NSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAVCGDLAMAYCVFVMIG  181 (258)
Q Consensus       117 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  181 (258)
                      ..                                +.+...|..+..+|...|++++|.+.|....
T Consensus        93 l~--------------------------------p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al  125 (168)
T d1kt1a1          93 LD--------------------------------SANEKGLYRRGEAQLLMNEFESAKGDFEKVL  125 (168)
T ss_dssp             HC--------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cc--------------------------------cchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            10                                4455566667777777777777777777664

>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=96.65  E-value=0.0013  Score=44.49  Aligned_cols=75  Identities=12%  Similarity=0.069  Sum_probs=47.1

Q ss_pred             CHHHHHHHHHhcCC--C-ChhhHHHHHHHHHcCC-----------ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccC
Q 038429          169 DLAMAYCVFVMIGK--K-DVVSWNSMISGFVEGG-----------FFEKAIELYREMEVENVKPDEVTMVVVLSACAKKR  234 (258)
Q Consensus       169 ~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~~g-----------~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g  234 (258)
                      .+++|...|+...+  | +..+|..+-.+|...|           .+++|.+.|++..+  +.|+..+|..-+..+    
T Consensus        56 ~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~----  129 (145)
T d1zu2a1          56 MIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT----  129 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH----
Confidence            34555555554432  3 4455655555554433           35778888887776  468888777666655    


Q ss_pred             ChhHHHHHHHHHHHcCC
Q 038429          235 DLEFGIWVSSHIEKNGI  251 (258)
Q Consensus       235 ~~~~a~~~~~~m~~~g~  251 (258)
                        .+|.+++.+..+.|+
T Consensus       130 --~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         130 --AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             --HTHHHHHHHHHHSSS
T ss_pred             --HHHHHHHHHHHHHhc
Confidence              467788888877775

>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=96.63  E-value=0.014  Score=39.51  Aligned_cols=93  Identities=9%  Similarity=-0.077  Sum_probs=67.0

Q ss_pred             HHHHH--HHHHHhcCCHHHHHHHHHhcCC-----CC----------hhhHHHHHHHHHcCCChHHHHHHHHHHHHc----
Q 038429          156 ISNSL--IHFYAVCGDLAMAYCVFVMIGK-----KD----------VVSWNSMISGFVEGGFFEKAIELYREMEVE----  214 (258)
Q Consensus       156 ~~~~l--i~~~~~~g~~~~a~~~~~~m~~-----~~----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----  214 (258)
                      +|..+  ...+.+.|++++|+..|++..+     |+          ...|+.+-.+|...|++++|...+++....    
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            45555  4556677899999988876642     21          356888888999999999999888876542    


Q ss_pred             -CCCCC-----hhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 038429          215 -NVKPD-----EVTMVVVLSACAKKRDLEFGIWVSSHIEK  248 (258)
Q Consensus       215 -~~~p~-----~~t~~~li~~~~~~g~~~~a~~~~~~m~~  248 (258)
                       ...++     ...|..+-.+|...|++++|...|++..+
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence             12222     22466778889999999999999998653

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.52  E-value=0.037  Score=35.76  Aligned_cols=68  Identities=21%  Similarity=0.065  Sum_probs=56.5

Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHcCCc
Q 038429          184 DVVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIK  252 (258)
Q Consensus       184 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  252 (258)
                      +..-++..+..+...|+-+.-.++++.+.+ +-+|+....-.+-.+|.+.|+..++.+++.+.-+.|++
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            344567778888999999999999988766 34678888889999999999999999999999998864

>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=96.50  E-value=0.003  Score=43.02  Aligned_cols=105  Identities=11%  Similarity=-0.086  Sum_probs=60.7

Q ss_pred             hhHHHH--HHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcccCchhHHHHHHHHHHh
Q 038429           89 YTWNTL--IRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMFEDDLVISNSLIHFYAV  166 (258)
Q Consensus        89 ~~~~~l--i~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~  166 (258)
                      .+|..+  ...+.+.|++++|+..|++...-..-.|+......                    -......|+.+-.+|.+
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~--------------------~~~~a~~~~nlg~~~~~   67 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDH--------------------AGFDAFCHAGLAEALAG   67 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCH--------------------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhccc--------------------chhHHHHHHHHHHHHHH
Confidence            345555  44555668888888888776321111122110000                    00123456677777777


Q ss_pred             cCCHHHHHHHHHhcCC---------C-----ChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 038429          167 CGDLAMAYCVFVMIGK---------K-----DVVSWNSMISGFVEGGFFEKAIELYREMEV  213 (258)
Q Consensus       167 ~g~~~~a~~~~~~m~~---------~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  213 (258)
                      .|++++|.+-+++..+         +     ....|+.+-.+|...|++++|+..|++..+
T Consensus        68 lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          68 LRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777766655431         1     122466677788888888888888877653

>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=96.34  E-value=0.0011  Score=54.64  Aligned_cols=110  Identities=8%  Similarity=-0.119  Sum_probs=63.0

Q ss_pred             CcchHHHHHHHhcCcCCcchhhhhhhcc-cCc-hhHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhhHHHHHHHHHc
Q 038429          123 NEFTLPFVIKAAARPVQFRVGQAIHGMF-EDD-LVISNSLIHFYAVCGDLAMAYCVFVMIGK--K-DVVSWNSMISGFVE  197 (258)
Q Consensus       123 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~-~~~~~~~li~~~~~  197 (258)
                      +...+..+-..+.+.|+.+.|...+... .++ ..++..+-..+...|++++|...|.+..+  | +...|+.|-..+..
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~  198 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASS  198 (497)
T ss_dssp             ------------------------CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            3455666777777778887777766655 322 24677778888888999999988887643  5 55788888888888


Q ss_pred             CCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhcc
Q 038429          198 GGFFEKAIELYREMEVENVKPDEVTMVVVLSACAKK  233 (258)
Q Consensus       198 ~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~  233 (258)
                      .|+..+|...|.+-.... .|-..++..|...+.+.
T Consensus       199 ~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         199 KGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             TTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            899999988888877653 35566777777766544

>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=96.11  E-value=0.0031  Score=47.17  Aligned_cols=114  Identities=11%  Similarity=-0.043  Sum_probs=55.2

Q ss_pred             hcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc---cC-chhHHHHHHHHHHhcCCHHHHH
Q 038429           99 SSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF---ED-DLVISNSLIHFYAVCGDLAMAY  174 (258)
Q Consensus        99 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~-~~~~~~~li~~~~~~g~~~~a~  174 (258)
                      .+.|++++|+..+++.++..  +-|...+..+...++..|++++|...++..   .| +...+..+...+...+..+++.
T Consensus         7 L~~G~l~eAl~~l~~al~~~--P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS--PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHHH
Confidence            34566666666666552211  234455666666666666666666665555   22 2334444444443333333322


Q ss_pred             HHHHhc---CCC-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHc
Q 038429          175 CVFVMI---GKK-DVVSWNSMISGFVEGGFFEKAIELYREMEVE  214 (258)
Q Consensus       175 ~~~~~m---~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  214 (258)
                      .-...-   ..| +...+......+...|+.++|.+++++..+.
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            211110   011 2222333344556667777777777766553

>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=95.84  E-value=0.0022  Score=52.72  Aligned_cols=122  Identities=7%  Similarity=-0.144  Sum_probs=68.8

Q ss_pred             ChHHHHHHhccCCC---CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCC-cchHHHHHHHhcCcCCcchhhhhh
Q 038429           72 SLEYARKMFDQIPQ---PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPN-EFTLPFVIKAAARPVQFRVGQAIH  147 (258)
Q Consensus        72 ~~~~a~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~  147 (258)
                      .++.+...+....+   .+...+..+-..+.+.|+.++|...+....+     ++ ..++..+-..+...|++++|...+
T Consensus       101 ~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~-----~~~~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1         101 FYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCS-----YICQHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHTC-------------------------------CCHHHH-----HHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhC-----CCHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            34444444443322   4556677777777788888888776655411     11 246777888888999999999999


Q ss_pred             hcc----cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC---CCChhhHHHHHHHHHcC
Q 038429          148 GMF----EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG---KKDVVSWNSMISGFVEG  198 (258)
Q Consensus       148 ~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~  198 (258)
                      ...    +.+...|+.|-..|...|+..+|...|.+..   .|-..+++.|...+.+.
T Consensus       176 ~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         176 RHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHh
Confidence            888    6666799999999999999999999997654   36667788887776543

>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=95.10  E-value=0.015  Score=38.96  Aligned_cols=69  Identities=12%  Similarity=-0.010  Sum_probs=41.7

Q ss_pred             hhhhhhhcc----cCchhHHHHHHHHHHhcC-----------CHHHHHHHHHhcC--CCChhhHHHHHHHHHcCCChHHH
Q 038429          142 VGQAIHGMF----EDDLVISNSLIHFYAVCG-----------DLAMAYCVFVMIG--KKDVVSWNSMISGFVEGGFFEKA  204 (258)
Q Consensus       142 ~a~~~~~~~----~~~~~~~~~li~~~~~~g-----------~~~~a~~~~~~m~--~~~~~~~~~li~~~~~~g~~~~a  204 (258)
                      +|...++..    +.+..+|+.+-.+|...|           .+++|.+.|+...  .|+...|..-+..+      .+|
T Consensus        59 ~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~------~ka  132 (145)
T d1zu2a1          59 EAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT------AKA  132 (145)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH------HTH
T ss_pred             HHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHH------HHH
Confidence            344444444    445556666666666544           3577888887664  47666666555543      456


Q ss_pred             HHHHHHHHHcCC
Q 038429          205 IELYREMEVENV  216 (258)
Q Consensus       205 ~~~~~~m~~~~~  216 (258)
                      ..++.+..+.|+
T Consensus       133 ~~~~~e~~k~~~  144 (145)
T d1zu2a1         133 PQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHSSS
T ss_pred             HHHHHHHHHHhc
Confidence            777777766654

>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=94.84  E-value=0.039  Score=33.70  Aligned_cols=64  Identities=16%  Similarity=0.033  Sum_probs=43.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhcCC---------CC-hhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCCCCh
Q 038429          155 VISNSLIHFYAVCGDLAMAYCVFVMIGK---------KD-VVSWNSMISGFVEGGFFEKAIELYREMEVENVKPDE  220 (258)
Q Consensus       155 ~~~~~li~~~~~~g~~~~a~~~~~~m~~---------~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  220 (258)
                      ..+-.+-..+.+.|++++|...|++..+         ++ ..+++.|-.++.+.|++++|+..+++..+.  .|+.
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l--~P~~   79 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEH   79 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh--CcCC
Confidence            3344566777788888888877765532         11 346777788888888888888888887764  4543

>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=94.43  E-value=0.56  Score=33.79  Aligned_cols=188  Identities=11%  Similarity=-0.048  Sum_probs=114.6

Q ss_pred             hhhhhhhhhhhhccCCCChHHHHHHhccCCC-CChhhHHHHHHHHhc----CCChhhHHHHHHHhHhcCCCCCCcchHHH
Q 038429           55 PYSASKLFTPCALSTFSSLEYARKMFDQIPQ-PNLYTWNTLIRAYSS----SDEPIQSFMIFLQLVYNSPYFPNEFTLPF  129 (258)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~~~a~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~p~~~~~~~  129 (258)
                      +..+..|-..+.+.+  ++++|.+.|++..+ .+..++-.|-..|..    ..+...|...+..- .+.+.+   .....
T Consensus         2 p~~~~~lG~~~~~~~--d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a-~~~~~~---~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEK--DFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKA-CDLNYS---NGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH-HHTTCH---HHHHH
T ss_pred             HHHHHHHHHHHHHCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhccc-cccccc---chhhc
Confidence            445555655666778  99999999987643 567777777777765    56788888888877 555422   22333


Q ss_pred             HHHHh----cCcCCcchhhhhhhcc--cCchhHHHHHHHHHHh----cCCHHHHHHHHHhcCC-CChhhHHHHHHHHHc-
Q 038429          130 VIKAA----ARPVQFRVGQAIHGMF--EDDLVISNSLIHFYAV----CGDLAMAYCVFVMIGK-KDVVSWNSMISGFVE-  197 (258)
Q Consensus       130 ll~~~----~~~~~~~~a~~~~~~~--~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~-~~~~~~~~li~~~~~-  197 (258)
                      +...+    ....+.+.|...++..  .-.......+...+..    ......+...+..... .+...+..|...|.. 
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~L~~~~~~~  155 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDAG  155 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             cccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcccccchhhhhhhhhccC
Confidence            32222    2334556666666655  2222233333333332    3456667776665443 466777777777765 


Q ss_pred             ---CCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCChhHHHHHHHHHHHcCC
Q 038429          198 ---GGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK----KRDLEFGIWVSSHIEKNGI  251 (258)
Q Consensus       198 ---~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~  251 (258)
                         ..+...+..+++...+.|   +......+-..+..    ..+++.|...|....+.|.
T Consensus       156 ~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~  213 (265)
T d1ouva_         156 RGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN  213 (265)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC
T ss_pred             CCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhcccC
Confidence               445667777777776654   34444444444433    5688889999988877663

>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=94.37  E-value=0.17  Score=30.59  Aligned_cols=63  Identities=6%  Similarity=-0.031  Sum_probs=49.5

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHHc---C--CCCC-hhhHHHHHHHHhccCChhHHHHHHHHHHHcCCccc
Q 038429          190 SMISGFVEGGFFEKAIELYREMEVE---N--VKPD-EVTMVVVLSACAKKRDLEFGIWVSSHIEKNGIKMD  254 (258)
Q Consensus       190 ~li~~~~~~g~~~~a~~~~~~m~~~---~--~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  254 (258)
                      .+-..+.+.|++++|...|++..+.   .  ..++ ..++..+-.++.+.|++++|...+++..+.  .|+
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l--~P~   78 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPE   78 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh--CcC
Confidence            4556778899999999999887653   1  1222 457889999999999999999999998765  354

>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=90.88  E-value=1.2  Score=28.50  Aligned_cols=132  Identities=11%  Similarity=-0.044  Sum_probs=86.2

Q ss_pred             ChHHHHHHhccCCC-CChhhHHHHHHHHhcCCChhhHHHHHHHhHhcCCCCCCcchHHHHHHHhcCcCCcchhhhhhhcc
Q 038429           72 SLEYARKMFDQIPQ-PNLYTWNTLIRAYSSSDEPIQSFMIFLQLVYNSPYFPNEFTLPFVIKAAARPVQFRVGQAIHGMF  150 (258)
Q Consensus        72 ~~~~a~~~~~~m~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  150 (258)
                      .+++..+++.+... .+..-||-+|--....-+-+-....++..=+-..+              ...+++......+-.+
T Consensus        17 ~ve~Gveii~k~~~ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl--------------s~C~Nlk~vv~C~~~~   82 (161)
T d1wy6a1          17 YIDEGVKIVLEITKSSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKSVVECGVIN   82 (161)
T ss_dssp             CHHHHHHHHHHHHHHSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHHHHHHHHHT
T ss_pred             hHHhHHHHHHHHcccCCccccceeeeecccccchHHHHHHHHHHhhhcCc--------------hhhhcHHHHHHHHHHh
Confidence            55555555554433 34445566665555555555555555544111111              1223333333444444


Q ss_pred             cCchhHHHHHHHHHHhcCCHHHHHHHHHhcC---CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHcCCC
Q 038429          151 EDDLVISNSLIHFYAVCGDLAMAYCVFVMIG---KKDVVSWNSMISGFVEGGFFEKAIELYREMEVENVK  217 (258)
Q Consensus       151 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  217 (258)
                      ..+...++..++.+...|+-+.-.++++.+.   +++....-.+-.+|.+.|...++-+++.+.-+.|++
T Consensus        83 n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          83 NTLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            5556677888999999999999999988743   467778888889999999999999999999888864

>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=89.75  E-value=1.5  Score=27.89  Aligned_cols=81  Identities=6%  Similarity=-0.091  Sum_probs=46.2

Q ss_pred             CHHHHHHHHHhcCCC-ChhhHHHHHHHHHc----CCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCChhHH
Q 038429          169 DLAMAYCVFVMIGKK-DVVSWNSMISGFVE----GGFFEKAIELYREMEVENVKPDEVTMVVVLSACAK----KRDLEFG  239 (258)
Q Consensus       169 ~~~~a~~~~~~m~~~-~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~g~~~~a  239 (258)
                      +.++|.+.|+..-+. +......|-..|..    ..+.++|.++|++..+.|.   ......|-..|.+    ..+.++|
T Consensus        38 ~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~---~~a~~~Lg~~y~~G~gv~~d~~~A  114 (133)
T d1klxa_          38 NKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLND---QDGCLILGYKQYAGKGVVKNEKQA  114 (133)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             CHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhccCc---chHHHHHHHHHHcCCccCCCHHHH
Confidence            445555555543322 33333333333332    3467888888888777663   3334444444443    4578888


Q ss_pred             HHHHHHHHHcCCc
Q 038429          240 IWVSSHIEKNGIK  252 (258)
Q Consensus       240 ~~~~~~m~~~g~~  252 (258)
                      .++++...+.|..
T Consensus       115 ~~~~~~Aa~~G~~  127 (133)
T d1klxa_         115 VKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHTTCH
T ss_pred             HHHHHHHHHCCCH
Confidence            8888888877753

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=88.99  E-value=1.1  Score=27.18  Aligned_cols=30  Identities=7%  Similarity=0.079  Sum_probs=15.5

Q ss_pred             CChhhHHHHHHHHHcCCChHHHHHHHHHHH
Q 038429          183 KDVVSWNSMISGFVEGGFFEKAIELYREME  212 (258)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  212 (258)
                      |.+....+.+.+|.+-+++.-|.++|+..+
T Consensus        39 PeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          39 PEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444455555555555555555555554444

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.08  E-value=3.2  Score=26.41  Aligned_cols=65  Identities=11%  Similarity=0.153  Sum_probs=45.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCCC---hhhHHHHHHHHHcCCCh--HHHHHHHHHHHHcCCCCCh
Q 038429          156 ISNSLIHFYAVCGDLAMAYCVFVMIGKKD---VVSWNSMISGFVEGGFF--EKAIELYREMEVENVKPDE  220 (258)
Q Consensus       156 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~~~~~li~~~~~~g~~--~~a~~~~~~m~~~~~~p~~  220 (258)
                      -...+++-|...|+.++|.+.++++..|.   ...+..+..+.-+.+.-  +.+..++..+...|+-+..
T Consensus         9 k~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~~   78 (129)
T d2nsza1           9 EIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITID   78 (129)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHcCCchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCHH
Confidence            35678889999999999999999988763   23444555555555443  2356688888888754433

>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=81.09  E-value=4.6  Score=25.34  Aligned_cols=78  Identities=10%  Similarity=-0.168  Sum_probs=42.4

Q ss_pred             Ccchhhhhhhcc--cCchhHHHHHHHHHHh----cCCHHHHHHHHHhcCCC-ChhhHHHHHHHHHc----CCChHHHHHH
Q 038429          139 QFRVGQAIHGMF--EDDLVISNSLIHFYAV----CGDLAMAYCVFVMIGKK-DVVSWNSMISGFVE----GGFFEKAIEL  207 (258)
Q Consensus       139 ~~~~a~~~~~~~--~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~-~~~~~~~li~~~~~----~g~~~~a~~~  207 (258)
                      +.++|...++..  .-+...+..|-..|..    ..+.++|.+.|+...+. +......|-..|..    ..+.++|.++
T Consensus        38 ~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~  117 (133)
T d1klxa_          38 NKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKT  117 (133)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHH
Confidence            444444444444  3333444444444443    34678888888765442 44444444444433    3467777777


Q ss_pred             HHHHHHcCC
Q 038429          208 YREMEVENV  216 (258)
Q Consensus       208 ~~~m~~~~~  216 (258)
                      |++-.+.|.
T Consensus       118 ~~~Aa~~G~  126 (133)
T d1klxa_         118 FEKACRLGS  126 (133)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHCCC
Confidence            777766653