Citrus Sinensis ID: 042404

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-
Protein Sequence
NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIFIQN
Secondary Structure (PSIPRED)
ccEEEEEEEccccccccccccccccccccEEEEEcEEEcccccccccccccEEEEEEEEEcHHHHHHHHHccccccEEEEEEEEccccEEEccccEEEEEEEEEEEEEEEEccccccEEEccEEcccccccccccccHHHHHHHcccccEEEEEEEEEEEEEEEEccccccccEEcccEEEEEEEEEcccccHHHHHHHHHHHccccccEEEEEcccccccccccccccccccccccccccccEEEEEEEEEEccccHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHHcccccccccEEEEEEc
Secondary Structure Prediction (SSPRO)
cccEEEEEEEccccccEccccEEcccccEEEEEEEEEccccccccccccccEEEEEEEEccHHHHHHHHHcccHHHEEEEEEcccEEEEEEccccEEEEEEcccccEEEccccHHHEEEEEHcccccccccccccccHHHHHHHcccccHHEEEEEcHHHHHHcccccccccccccHHccEEEEEEEccccHHHHHHHHHHHHcccccEEEEEEEccccccccccccccHcccccccHHHHHHcEEEEEEcccccHHHHHHHHHHHHcccHHEEEEEEccccccccHHHHHHHHHHccccccccEEEEEcc
Coil and Loop (DISEMBL)
NDIRELVLELgegewfrvpsclfncrkltrlelfrcefdppltftgfpclrslnlhqvlvAPEAIESLISscplleslslsyfdsldlnicapelkylylegefkdihlestpLLVSMSIAMYMTDDIAEhfeqssscnflkilggvphleKLVGYIYFTKYlsigddpgrlpityNHLKVIELYQVSFEDMKEILVVIRLItnspnlkelhisgssntlaaieapdldfwekechadcsfkqlklvkmtdisgvpHEMELIKFLlsnspvleimsitpctfvtERKVNMLIELVRFIRASPRAEIIFIQN
Flexible Loop (DISEMBL)
NDIRELvlelgegewfrvpsCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVrfiraspraeiifiqn
Low Complexity Region (SEG)
NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIEslisscplleslslsyfdsldlNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIFIQN
Disordered region (IsUnstruct)
****ELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIFI**
Disordered Region (DISOPRED)
NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIFIQN
Disordered Region (DISEMBL)
NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIFIQN
Disordered Region (DISPRO)
NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIFIQN
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIFIQN
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	311	2.2.26 [Sep-21-2011]
Q9FZ70	416	F-box/FBD/LRR-repeat prot	yes	no	0.990	0.740	0.620	1e-103
Q9LJF9	434	F-box/FBD/LRR-repeat prot	no	no	0.942	0.675	0.279	6e-14
Q9FNJ4	443	Putative F-box/FBD/LRR-re	no	no	0.948	0.665	0.252	3e-07
Q9LQM1	422	Probable FBD-associated F	no	no	0.948	0.699	0.236	2e-06
Q9FFW2	410	FBD-associated F-box prot	no	no	0.845	0.641	0.255	3e-06
Q9FFW4	379	Putative FBD-associated F	no	no	0.694	0.569	0.237	4e-06
Q9M8L5	464	F-box/FBD/LRR-repeat prot	no	no	0.385	0.258	0.318	5e-06
Q9FJU3	402	Putative FBD-associated F	no	no	0.675	0.522	0.283	5e-06
Q9SV82	409	FBD-associated F-box prot	no	no	0.900	0.684	0.240	6e-06
Q9FM94	421	FBD-associated F-box prot	no	no	0.897	0.662	0.227	2e-05

>sp|Q9FZ70|FDL1_ARATH F-box/FBD/LRR-repeat protein At1g13570 OS=Arabidopsis thaliana GN=At1g13570 PE=2 SV=1

 Score =  374 bits (959), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 193/311 (62%), Positives = 242/311 (77%), Gaps = 3/311 (0%)

Query: 1   NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV 60
           N I+ELVL+LGEGE FRVP+CLFNC KLT LEL  CEFDPP  F GF  L+SLNLHQ+LV
Sbjct: 109 NGIKELVLKLGEGE-FRVPACLFNCLKLTCLELCHCEFDPPQYFKGFSYLKSLNLHQILV 167

Query: 61  APEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSI 120
           APE IESLIS CPLLE LSLSYFDSL L+I AP L YLYL+GEFKDI LE+TP LV++S+
Sbjct: 168 APEVIESLISGCPLLEFLSLSYFDSLVLSISAPNLMYLYLDGEFKDIFLENTPKLVAISV 227

Query: 121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK 180
           +MYM +D+ + FEQSS  N +K LGGVP LEKLVGYIYFTKYLSIGDDPGRLP+TY HLK
Sbjct: 228 SMYMHEDVTD-FEQSSDYNLVKFLGGVPLLEKLVGYIYFTKYLSIGDDPGRLPLTYIHLK 286

Query: 181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCS 240
            IELYQV FED  E+LV++RL+T+SPNLKEL +S S      +E    D +E++ + D  
Sbjct: 287 TIELYQVCFEDADEVLVLLRLVTHSPNLKELKVSASPVQPFPLEEEGFDLFERD-YFDYK 345

Query: 241 FKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRA 300
              L+ VK+TD SG+ +E+E I+FLL  SPVLE ++++      + K++M+IEL+R+ R 
Sbjct: 346 LPSLESVKITDASGIRYELEFIRFLLGTSPVLETVTVSSSLSDKDAKMDMVIELLRYPRV 405

Query: 301 SPRAEIIFIQN 311
           SPRA+++F+Q+
Sbjct: 406 SPRAQLLFLQD 416

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LJF9|FDL44_ARATH F-box/FBD/LRR-repeat protein At3g26920 OS=Arabidopsis thaliana GN=At3g26920 PE=2 SV=3

 Score = 78.6 bits (192), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 93/333 (27%), Positives = 159/333 (47%), Gaps = 40/333 (12%)

Query: 2   DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEF-DPPLTFTGFPCLRSLNLHQV-L 59
            +R+LVL++  G+WF+ P+ L+N   L  LEL+ C   D P        LR+LNLH+V  
Sbjct: 117 QLRKLVLKVYSGDWFKFPTSLYNSETLETLELYHCILIDVPFP-VCLKSLRTLNLHEVEF 175

Query: 60  VAPEAIESLISSCPLLESLSLSYFDSLDLN-----ICAPELKYLYLEGEFKD---IHLES 111
           V  E++ +L++ C  LE+L +    + DLN     I  P L+ L +  E+ +   + + +
Sbjct: 176 VNDESVVNLLAGCISLENLVIH--QTTDLNVKTFTIAVPSLQRLTVIVEYYEEFSVFVVN 233

Query: 112 TPLLVSMSIAMYMTDD-------IAEHFEQS----SSCNFLKILGGVPHLEKLVGYIYFT 160
           TP L  + I   + DD         E  E S    S   F  ILG +  +++L   +   
Sbjct: 234 TPSLKYLKIEGIIVDDRTCIIENTPELVEASIIDVSFKVFESILGSLASVQRLSLKVSLV 293

Query: 161 KYLSIGDDPGRLPI--TYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN 218
           +  S+       PI  T+ HL  +EL   S    K   ++  ++  SPNL+ L I    +
Sbjct: 294 EIFSLP------PISNTFYHLTYLEL---STYKPKWWNLLTLMLDTSPNLQVLKI---FD 341

Query: 219 TLAAIEAPDLDFW-EKECHADCSFKQLKLVKMTDISG-VPHEMELIKFLLSNSPVLEIMS 276
            + + E    + W E +   +C    L+    T   G + +E+EL K++L N+  L+  +
Sbjct: 342 FMTSQEQRPWEKWNEPKNVPECLLLHLETFVWTCYEGKLENEIELAKYILRNARRLKKAT 401

Query: 277 ITPCTFVTERKVNMLIELVRFIRASPRAEIIFI 309
            +      +++V M+ EL   +RAS   +++FI
Sbjct: 402 FSIIEINPDKRVEMVGELKSVVRASNSCQLVFI 434

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FNJ4|FDL32_ARATH Putative F-box/FBD/LRR-repeat protein At5g22670 OS=Arabidopsis thaliana GN=At5g22670 PE=4 SV=1

 Score = 56.6 bits (135), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 88/348 (25%), Positives = 148/348 (42%), Gaps = 53/348 (15%)

Query: 1   NDIRELVLELGEGEWFR-----VPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNL 55
           N ++  V  L  G W       +P  L+ C  L  L L      P       P L++++L
Sbjct: 105 NAVKRKVQHLDIGRWSYLGQELIPHSLYTCETLVSLRLHNVSL-PDFDHVSLPRLKTMHL 163

Query: 56  HQVLVAPEAI-ESLISSCPLLESLSLSY-----FDSLDLNICAPELKYLYLEGE-FKDIH 108
              +   +A+ E+LISSCP+LE L++S         L +   + +   L L+G+ + DI 
Sbjct: 164 IDNIYPNDALLENLISSCPVLEDLNVSRDVENIVKVLRVRSLSLKSLILALDGDRYGDIE 223

Query: 109 LESTPLLVSMSIAMYMT--DDIAEHFEQSSSCNFLKILGGVPH-----------LEKLVG 155
            +S  +++      Y++  DD ++ F  SS  +  K+   V             L + V 
Sbjct: 224 DDSWEVVIDAPRLSYLSLRDDQSKSFVLSSVTSPAKVDIDVTFDVVRSVLKNFLLTRSVV 283

Query: 156 YIYFTKYLSIGDDPGRLPITYNHLKVIELYQV-----SFEDMKEILVVI---------RL 201
             +FT+  S+ D    + ++   LKV+  Y        F +M +   V            
Sbjct: 284 RNFFTRLSSVRD----MTMSGTTLKVLSRYMRHEPLPQFPNMIQFYAVFCNSDLEKLPNF 339

Query: 202 ITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKM-TDISGVPHEME 260
           + + PNLK L +      L   +  DL          C    L+ V++ T ISG   EM+
Sbjct: 340 LESCPNLKSLVLE-----LEVFKKNDLLILSSSI-PKCLRSSLEHVEIHTPISGAEAEMK 393

Query: 261 LIKFLLSNSPVLEIMSIT-PCTFVTERKVNMLIELVRFIRASPRAEII 307
           L+K+ L NS VL+  ++   C  + E  + +  EL+RF R S   E++
Sbjct: 394 LVKYFLENSAVLKKFTLQLGCKRMDEESI-IFKELLRFRRCSASCEVV 440

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQM1|FBD39_ARATH Probable FBD-associated F-box protein At1g32375 OS=Arabidopsis thaliana GN=At1g32375 PE=4 SV=2

 Score = 53.1 bits (126), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 78/330 (23%), Positives = 139/330 (42%), Gaps = 35/330 (10%)

Query: 3   IRELVLEL----GEGEWFRVPSCLFNC-RKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQ 57
           +REL++E+     +     +P  L+ C R L  L+L         +   FP L++L+L  
Sbjct: 103 LRELIIEIDKSNSDNSSVVLPRSLYTCCRMLVTLKLNNAVLVDATSSFSFPSLKTLSLVS 162

Query: 58  V-LVAPEAIESLISSCPLLESLSLS---YFDSLDLNICAPELKYLYL-EGEFKDIHLE-- 110
           +     E I+ L+S+CP+LE L +    Y +     +    LK L L E E   I+ +  
Sbjct: 163 MKFPGDELIKMLLSNCPVLEDLVVKRCPYDNVTTFTVRVSSLKCLVLHETELASINADCG 222

Query: 111 ---STPLLVSMSI-----AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTK- 161
               TP L  + I        + ++      +++ CN         H ++L+G I   K 
Sbjct: 223 FVIDTPSLECLDIEDGRGGFCVIENNMTKVVKANVCN------SYVHTQQLMGSISSVKR 276

Query: 162 -YLSIGDDPGRLPI--TYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN 218
            Y+ I       P+   ++ L  + +     E +  ++ V+R   +SP L+EL +    N
Sbjct: 277 LYVCIPSSKDAYPVGSVFHCLVRLTICTCETEWLNLLMCVLR---DSPKLRELKL--VKN 331

Query: 219 TLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSIT 278
            +     P   + E     +C    L+ ++     G   E E+  F+L +   L+ ++I+
Sbjct: 332 HVYRSHQPRPCWNEPSAVPECLLTSLETLEWVKYEGTEEEKEVAAFILRSGSCLKKVTIS 391

Query: 279 PCTFVTERKVNMLIELVRFIRASPRAEIIF 308
             +    +K  ML EL    R SP  +I F
Sbjct: 392 SKSTDINKKFEMLKELSLLFRRSPTCQIAF 421

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FFW2|FBD17_ARATH FBD-associated F-box protein At5g38590 OS=Arabidopsis thaliana GN=At5g38590 PE=2 SV=1

 Score = 52.8 bits (125), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 78/305 (25%), Positives = 137/305 (44%), Gaps = 42/305 (13%)

Query: 20  SCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQV-LVAPEAIESLISSCPLLESL 78
           S  F C+ L  L+L         +    P L++L L  V  V  ++++ L+S CP+LE L
Sbjct: 121 SSFFACKSLVTLKLRSVTLRDIPSMVCLPSLKTLLLDNVSFVEGKSLQELLSICPVLEDL 180

Query: 79  SL---SYFDSLDLNICAPEL--KYLYLEGEF-KDIHLESTPLLVSMSIAMYMTDDIAEHF 132
           S+    Y ++ +L I  P L    LY+  E+  D +   TP L  + +            
Sbjct: 181 SVYCDDYENTKELTIVVPSLLSLSLYIPDEWLLDGYWIDTPSLEYLKL------------ 228

Query: 133 EQSSSCNFLKILGGVPHL------------EKLVGYIYFTKYLSIGDDPGRLP-ITYNHL 179
           E  +SC+ L ++  +P L            + ++  I   K+L+I    G      +N L
Sbjct: 229 EDWNSCDHLSLIKNMPKLREAYVDAKCFLPKSVIESITSVKHLTICSKDGYGDGFVFNQL 288

Query: 180 KVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHA-D 238
           + + L  V   D   +L   +L+ +SPNL+ L IS   + +  +    LD W +     +
Sbjct: 289 EHLTLC-VCRGDSPSLLG--QLLKDSPNLRILEISVMEDHVDDV-GISLDGWNQPSSVPE 344

Query: 239 CSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITP--C-TFVTERKVNMLIELV 295
           C    L++ K     G P + ++  ++L N+  L+  +I    C  FVT+R+  M+ EL+
Sbjct: 345 CLLSSLQIFKWPQYLGRPEDRDIAVYILKNARHLKKTTILADRCERFVTQRR--MIKELL 402

Query: 296 RFIRA 300
           + + A
Sbjct: 403 QALPA 407

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FFW4|FBD16_ARATH Putative FBD-associated F-box protein At5g38570 OS=Arabidopsis thaliana GN=At5g38570 PE=4 SV=2

 Score = 52.4 bits (124), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 62/261 (23%), Positives = 123/261 (47%), Gaps = 45/261 (17%)

Query: 65  IESLISSCPLLESLSLSYF--DSL-DLNICAPELK----YLYLEGEFKDIHLESTPLLVS 117
           ++ LIS CP+LE LSL +   D+L +  +  P L+    +L+         ++ TP L  
Sbjct: 131 LQQLISGCPVLEDLSLRFCCNDNLREFTVIIPSLQSLSLFLFGNSNLNRYKID-TPSLKY 189

Query: 118 MSIAMYMTDDIAEHFEQSSSCNFLKILGGVP---HLEKLVGYIYFTKYLSI--------G 166
           + +  +   +  EH+  ++     +    V    HL+ L+G I   K+L+I        G
Sbjct: 190 LKLEDW---NDPEHYSWTNMPKLREAYVDVESSNHLKTLIGSITSVKHLTICCLEDYLYG 246

Query: 167 DDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAP 226
           D        +NHL+ ++L    F+      ++ +L+  SPNL+ L I         ++  
Sbjct: 247 DG-----FIFNHLEHLKLCMCPFDSSN---LLGQLLKGSPNLQVLDI-------FEMKRN 291

Query: 227 DLDFWEKECHA-DCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTE 285
           D+  W +     +C    LK++  +   G P + ++  ++L N+  L+       TF+T+
Sbjct: 292 DIVCWNQPSSVLECLLSSLKILNWSAYFGRPQDRDIAVYILKNACHLKT-----ATFLTD 346

Query: 286 RKVNML--IELVRFIRASPRA 304
           +++N +  +++++ +R SPRA
Sbjct: 347 KRINDVRRLKMIKELRLSPRA 367

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M8L5|FDL13_ARATH F-box/FBD/LRR-repeat protein At1g80470 OS=Arabidopsis thaliana GN=At1g80470 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 42/132 (31%), Positives = 65/132 (49%), Gaps = 12/132 (9%)

Query: 12  EGEWFRVPSCLFNCRKLTRLELFRCEFDPP-LTFTGFPCLRSLNLHQVLVAPEAI-ESLI 69
           E +  R+P  L++C  L  L L+   FD P       PCL++++L  V    E I  +LI
Sbjct: 127 EDDSVRMPVSLYSCATLVNLTLYSVVFDAPRAQLVSLPCLKTMHLEAVKFDGETILGTLI 186

Query: 70  SSCPLLESLSLSYFDS---LDLNICAPELKYLYLEG------EFKDIHLE-STPLLVSMS 119
           SSC  L+ L++   D     D+++ +P L+   LE       E +D ++E  TP L  MS
Sbjct: 187 SSCSFLDELTIITHDHDELGDVSVRSPSLRRFKLESMREDYDECEDPNVEVDTPGLEYMS 246

Query: 120 IAMYMTDDIAEH 131
           I  Y ++    H
Sbjct: 247 ITDYQSESFIIH 258

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJU3|FBD28_ARATH Putative FBD-associated F-box protein At5g56690 OS=Arabidopsis thaliana GN=At5g56690 PE=4 SV=1

 Score = 52.0 bits (123), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 66/233 (28%), Positives = 102/233 (43%), Gaps = 23/233 (9%)

Query: 3   IREL-VLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQV-LV 60
           +REL +L      +    S L+ C+ L  L+ F    D P T    P LR+L L +V  +
Sbjct: 110 VRELSILAYYRNNYALSSSSLYTCKSLVTLKGFNIRVDVPPTVCLLPSLRTLELKRVRYL 169

Query: 61  APEAIESLISSCPLLESLSLSYFDSLDLN---ICAPELKYLYL---EGEFKDIHLESTPL 114
             +++  L+S CP+LE LS+   D+ +L    +  P L+ L L    G   D ++  TP 
Sbjct: 170 NEDSLRMLLSFCPVLEYLSIERHDNDNLRGLVVDVPSLRRLSLTSYTGCSSDDYVIVTPS 229

Query: 115 L-------VSMSIAMYMTDDIAEHFEQSSSC--NFLKILGGVPHLEKLVGYIYFTKYLSI 165
           L           I+ Y  + I E  E   S   N  K+      ++ L   + F      
Sbjct: 230 LKYFKAFDYRSEISSYKIEKIPELEEADISIERNPEKLFVYFKSIKCLSLQVDFNSKEEP 289

Query: 166 GDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN 218
           G D G   I +NHL+ +  Y     D     ++ RL+ +SP L+ L IS S +
Sbjct: 290 GYDSG---IVFNHLEELTPY---INDANWSKLLFRLLNDSPKLRVLEISNSKS 336

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SV82|FBD40_ARATH FBD-associated F-box protein At4g10400 OS=Arabidopsis thaliana GN=At4g10400 PE=2 SV=2

 Score = 51.6 bits (122), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 72/299 (24%), Positives = 133/299 (44%), Gaps = 19/299 (6%)

Query: 18  VPSCLFNCRKLTRLEL-FRCEFDPPLTFTGFPCLRSLNLHQVLVAPE-AIESLISSCPLL 75
           +PS L+ C+ L  L+L      D P      P L++L L  V    + +++ L+ +CP+L
Sbjct: 121 LPSSLYTCKSLVILKLDGGVLLDVP-RMVCLPSLKTLELKGVRYFKQGSLQRLLCNCPVL 179

Query: 76  ESL--SLSYFDSL-DLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHF 132
           E L  +LS+ D++  L +  P L+ L L        +  TP L  +S  +   +D +  F
Sbjct: 180 EDLVVNLSHHDNMGKLTVIVPSLQRLSLSTPSSREFVIDTPSL--LSFQLVDRNDNSHTF 237

Query: 133 EQSSSCNFLKILGGVP--HLEKLVGYIYFTKYLSIGDDPGRLP-ITYNHLKVIELYQVSF 189
              +     +    VP   ++ L+G I   K L+I  + G      +NHL+ + L+    
Sbjct: 238 LIENMPKLREAYINVPFADIKSLIGSITSVKRLAISSEVGYGEGFIFNHLEELTLWNKYS 297

Query: 190 EDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKM 249
            ++     ++  + NSPNL+EL +   ++    +    L + +     +C    L+    
Sbjct: 298 SNL-----LVWFLKNSPNLRELMLVSETDDHENLGM--LSWNQPSIVPECMLSSLQKFTW 350

Query: 250 TDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIF 308
               G P + ++  ++L N+  L   +I   T +   K+ M+ EL    +AS   E+ F
Sbjct: 351 FKYLGRPQDRDIAVYILKNACRLRTATIKSDTRLFT-KLEMITELRLSSQASSTCELNF 408

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FM94|FBD21_ARATH FBD-associated F-box protein At5g56370 OS=Arabidopsis thaliana GN=At5g56370 PE=2 SV=1

 Score = 50.1 bits (118), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 72/316 (22%), Positives = 139/316 (43%), Gaps = 37/316 (11%)

Query: 17  RVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVL-VAPEAIESLISSCPLL 75
           R+P  LF C  LT L+L             F  L++L+L  V+ +  E  + L+SSCP+L
Sbjct: 118 RLPQSLFTCGTLTVLKLKNVSLKDVQFPVCFKLLKTLHLEYVIFLDKETPQKLLSSCPIL 177

Query: 76  ESLSLS-----YFDSLDLNICAPEL-KYLYLEGEFKDIHLESTPL-LVSMSIAMY--MTD 126
           E   L+       + +  ++  P L +++Y  G   ++ + +  L  + +S   Y  M  
Sbjct: 178 EVFDLTRDDDDVDNVMSFSVMVPSLQRFIYCGGSGAELVMNTPSLKYLKLSGCGYECMIG 237

Query: 127 DIAEHFEQ--SSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPIT--YNHLKVI 182
           ++ E  E     +C+   IL  +  +++L+        L +  +P  LP    ++ L+ +
Sbjct: 238 NLPEIVEAHVEVACSTDDILTSLASVKRLL--------LCLPTEP-ELPTGTIFHQLEHL 288

Query: 183 ELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFK 242
           E          E  +++ ++ +SP L+ L ++ +       ++  +  WE+      +  
Sbjct: 289 EFCSCC----TEWDILMFMLKHSPKLRSLKLNETHGYTIVSQSDPMFHWEEPSSVPETLM 344

Query: 243 -QLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTER---------KVNMLI 292
             L+ ++  +  G+  E EL  FLL +S  L+I + +P      R         K  +L+
Sbjct: 345 FVLETLEWRNYRGLKMENELASFLLKHSRRLKIATFSPADCKQVRIELRTTVGMKYRILM 404

Query: 293 ELVRFIRASPRAEIIF 308
           EL R  R S   E++F
Sbjct: 405 ELARLPRGSAECELVF 420

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	311
255546959	421	ubiquitin-protein ligase, putative [Rici	1.0	0.738	0.794	1e-140
224111790	420	predicted protein [Populus trichocarpa]	0.996	0.738	0.777	1e-137
449478326	418	PREDICTED: LOW QUALITY PROTEIN: F-box/FB	0.987	0.734	0.714	1e-124
449434694	418	PREDICTED: F-box/FBD/LRR-repeat protein	0.987	0.734	0.714	1e-124
356498124	421	PREDICTED: F-box/FBD/LRR-repeat protein	1.0	0.738	0.704	1e-122
356499986	421	PREDICTED: F-box/FBD/LRR-repeat protein	0.990	0.731	0.711	1e-122
297738232	394	unnamed protein product [Vitis vinifera]	0.993	0.784	0.689	1e-120
359473651	414	PREDICTED: F-box/FBD/LRR-repeat protein	0.993	0.746	0.689	1e-120
297849756	416	F-box family protein [Arabidopsis lyrata	0.990	0.740	0.649	1e-106
15222887	416	F-box/FBD/LRR-repeat protein containing	0.990	0.740	0.620	1e-101

>gi|255546959|ref|XP_002514537.1| ubiquitin-protein ligase, putative [Ricinus communis] gi|223546141|gb|EEF47643.1| ubiquitin-protein ligase, putative [Ricinus communis]

 Score =  504 bits (1297), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 247/311 (79%), Positives = 282/311 (90%)

Query: 1   NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV 60
           +DI+ELVLELGEGEWFRVPSCLFNC+KLTRLEL RCEFDPP  F GF CL+SLNL+QVLV
Sbjct: 111 SDIKELVLELGEGEWFRVPSCLFNCKKLTRLELTRCEFDPPPNFKGFLCLKSLNLYQVLV 170

Query: 61  APEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSI 120
           APEAIESLIS CPLLESLSLSYFDSL LN+ AP LKYL LEGEFKDI LE+TPLLV+MSI
Sbjct: 171 APEAIESLISGCPLLESLSLSYFDSLVLNVRAPNLKYLCLEGEFKDICLENTPLLVAMSI 230

Query: 121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK 180
           AMYMT+DIAEHFEQSSSCNF+K LGGVP LE+L+G+IYFTKYLSIGD PGR PITY+ LK
Sbjct: 231 AMYMTEDIAEHFEQSSSCNFIKFLGGVPRLERLIGHIYFTKYLSIGDYPGRHPITYSCLK 290

Query: 181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCS 240
           VIELYQVSFEDMKEI VV+RLITNSPNLKEL ISGSSNTLAA+EAPDLDFW KEC  +C+
Sbjct: 291 VIELYQVSFEDMKEIHVVLRLITNSPNLKELQISGSSNTLAAVEAPDLDFWLKECPRNCT 350

Query: 241 FKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRA 300
           F++L +VK+TD+SGVP EME IKFLL+NSPVLE+MSITPC +V + +VNML+EL++F R+
Sbjct: 351 FEKLGVVKLTDMSGVPQEMEFIKFLLANSPVLEMMSITPCVYVMDGRVNMLVELLKFRRS 410

Query: 301 SPRAEIIFIQN 311
           S +AEI+FIQ+
Sbjct: 411 SAQAEILFIQD 421

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224111790|ref|XP_002315980.1| predicted protein [Populus trichocarpa] gi|222865020|gb|EEF02151.1| predicted protein [Populus trichocarpa]

 Score =  494 bits (1272), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 241/310 (77%), Positives = 273/310 (88%)

Query: 1   NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV 60
           +DI+ELVLELGEGEWFRVPSCLFNC+KLT LELFRCEFDPP TF GF CLRSL+LHQVLV
Sbjct: 111 SDIKELVLELGEGEWFRVPSCLFNCKKLTCLELFRCEFDPPPTFKGFLCLRSLSLHQVLV 170

Query: 61  APEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSI 120
           APEAIESLIS CPLLESL+LSYFDSL LNI AP LKYL LEGEF DI LE+TPLLV+MS+
Sbjct: 171 APEAIESLISGCPLLESLALSYFDSLALNIRAPNLKYLCLEGEFTDICLENTPLLVAMSV 230

Query: 121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK 180
           AMYM D++AE FEQSS CNF+K LGGVP LE+L G+IYFTKYLSIGD PG L ITY+HLK
Sbjct: 231 AMYMNDEMAECFEQSSKCNFIKFLGGVPRLERLAGHIYFTKYLSIGDYPGSLAITYSHLK 290

Query: 181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCS 240
           +IELYQVSFEDMKEI VV+RLI NSPNLKEL ISGSS  +A++EAP+L+FW KEC  DC+
Sbjct: 291 IIELYQVSFEDMKEIRVVLRLIMNSPNLKELRISGSSTAVASVEAPNLEFWAKECPKDCT 350

Query: 241 FKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRA 300
           FKQLK+VKMTD+SGVPHEME +KFLL+NSPVLE MSITPC +V + ++NMLI+LVRF RA
Sbjct: 351 FKQLKVVKMTDMSGVPHEMEFMKFLLANSPVLETMSITPCVYVMDGRLNMLIQLVRFRRA 410

Query: 301 SPRAEIIFIQ 310
           S  AEIIF +
Sbjct: 411 SAEAEIIFTR 420

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449478326|ref|XP_004155285.1| PREDICTED: LOW QUALITY PROTEIN: F-box/FBD/LRR-repeat protein At1g13570-like [Cucumis sativus]

 Score =  451 bits (1159), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 220/308 (71%), Positives = 265/308 (86%), Gaps = 1/308 (0%)

Query: 3   IRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAP 62
           IREL++ELG+GEWFRV SCLFNC KLT LEL+RCE DPP TF GF CL+SL LHQVL+AP
Sbjct: 111 IRELIIELGDGEWFRVHSCLFNCSKLTLLELYRCELDPPPTFKGFLCLKSLKLHQVLIAP 170

Query: 63  EAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAM 122
           E IESLIS+CPLLESL+LSYFDSL LNICAP LKYLYLEGEF+DI L++TPLLVS+S+A+
Sbjct: 171 EDIESLISNCPLLESLALSYFDSLVLNICAPNLKYLYLEGEFRDICLQNTPLLVSISVAL 230

Query: 123 YMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVI 182
           YM D+ +E F   S CN+ K LGGVP+LEKL G++YFTKYLSIG+   ++PI+Y +LK I
Sbjct: 231 YMNDE-SEPFGDLSDCNYEKFLGGVPYLEKLTGHVYFTKYLSIGNSARKMPISYIYLKSI 289

Query: 183 ELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFK 242
           EL+QVSFEDM EILVV+RLIT+SPNL+EL ISGSSN +AA EAPDLDFWE EC ++ +F 
Sbjct: 290 ELHQVSFEDMNEILVVLRLITSSPNLEELQISGSSNPVAASEAPDLDFWENECPSNLTFG 349

Query: 243 QLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASP 302
           +L++VK TD+SGVPHEME IK+LL N PVLEIMSI PC +VT+R++NMLIEL++F RASP
Sbjct: 350 KLRVVKATDMSGVPHEMEFIKYLLRNCPVLEIMSIRPCVYVTDRRLNMLIELLKFRRASP 409

Query: 303 RAEIIFIQ 310
            AEI+FIQ
Sbjct: 410 EAEILFIQ 417

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449434694|ref|XP_004135131.1| PREDICTED: F-box/FBD/LRR-repeat protein At1g13570-like [Cucumis sativus]

 Score =  451 bits (1159), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 220/308 (71%), Positives = 265/308 (86%), Gaps = 1/308 (0%)

Query: 3   IRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAP 62
           IREL++ELG+GEWFRV SCLFNC KLT LEL+RCE DPP TF GF CL+SL LHQVL+AP
Sbjct: 111 IRELIIELGDGEWFRVHSCLFNCSKLTLLELYRCELDPPPTFKGFLCLKSLKLHQVLIAP 170

Query: 63  EAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAM 122
           E IESLIS+CPLLESL+LSYFDSL LNICAP LKYLYLEGEF+DI L++TPLLVS+S+A+
Sbjct: 171 EDIESLISNCPLLESLALSYFDSLVLNICAPNLKYLYLEGEFRDICLQNTPLLVSISVAL 230

Query: 123 YMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVI 182
           YM D+ +E F   S CN+ K LGGVP+LEKL G++YFTKYLSIG+   ++PI+Y +LK I
Sbjct: 231 YMNDE-SEPFGDLSDCNYEKFLGGVPYLEKLTGHVYFTKYLSIGNSARKMPISYIYLKSI 289

Query: 183 ELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFK 242
           EL+QVSFEDM EILVV+RLIT+SPNL+EL ISGSSN +AA EAPDLDFWE EC ++ +F 
Sbjct: 290 ELHQVSFEDMNEILVVLRLITSSPNLEELQISGSSNPVAASEAPDLDFWENECPSNLTFG 349

Query: 243 QLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASP 302
           +L++VK TD+SGVPHEME IK+LL N PVLEIMSI PC +VT+R++NMLIEL++F RASP
Sbjct: 350 KLRVVKATDMSGVPHEMEFIKYLLRNCPVLEIMSIRPCVYVTDRRLNMLIELLKFRRASP 409

Query: 303 RAEIIFIQ 310
            AEI+FIQ
Sbjct: 410 EAEILFIQ 417

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356498124|ref|XP_003517903.1| PREDICTED: F-box/FBD/LRR-repeat protein At1g13570-like [Glycine max]

 Score =  445 bits (1145), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 219/311 (70%), Positives = 260/311 (83%)

Query: 1   NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV 60
           NDI+ELV+ELGEGE+FR+PS LFNC KLTRL+L RCEFDPP +F GF CLRSLNLHQVL+
Sbjct: 111 NDIKELVMELGEGEFFRIPSSLFNCGKLTRLDLSRCEFDPPHSFKGFVCLRSLNLHQVLI 170

Query: 61  APEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSI 120
           +P+AIESLIS CPLLESLSLSYFD+L L ICAP LKYLYLEGEFKDI LE TPLLV ++I
Sbjct: 171 SPDAIESLISRCPLLESLSLSYFDNLALTICAPNLKYLYLEGEFKDICLEDTPLLVEITI 230

Query: 121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK 180
           AMYMTDDIAEHFEQ S+CNF+K LGGVP+LEKLVG IYFTKYLSIG D    P+ YN+L+
Sbjct: 231 AMYMTDDIAEHFEQISNCNFVKFLGGVPNLEKLVGLIYFTKYLSIGIDFVHPPMMYNNLE 290

Query: 181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCS 240
            IELYQV+FEDM EILV++RLIT+SPNLKEL ISGSSN   +++ PDLDFWEKEC +D +
Sbjct: 291 TIELYQVNFEDMVEILVILRLITSSPNLKELQISGSSNIPVSVDTPDLDFWEKECLSDST 350

Query: 241 FKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRA 300
             +LK VK++++ G  HE+E+IK+LL +SPVLE +SI PC F  E  + MLIELV+  RA
Sbjct: 351 LNKLKTVKLSEMGGWLHEIEIIKYLLGHSPVLETLSIIPCVFDVENNLKMLIELVKCQRA 410

Query: 301 SPRAEIIFIQN 311
           S RAE+IF + 
Sbjct: 411 STRAEVIFTRQ 421

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356499986|ref|XP_003518816.1| PREDICTED: F-box/FBD/LRR-repeat protein At1g13570-like [Glycine max]

 Score =  444 bits (1143), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 219/308 (71%), Positives = 257/308 (83%)

Query: 1   NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV 60
           NDI+ELV+ELGEGE+FR+PS LFNC KLTRLEL RCE DPP +F GF  LRSLNLHQVL+
Sbjct: 111 NDIKELVMELGEGEFFRIPSNLFNCGKLTRLELSRCELDPPHSFKGFAGLRSLNLHQVLI 170

Query: 61  APEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSI 120
           +P+A+ESLIS CPLLESLSL+YFD+L L ICAP LKYLYLEGEFKDI LE TPLLV +SI
Sbjct: 171 SPDAVESLISRCPLLESLSLAYFDNLALTICAPNLKYLYLEGEFKDICLEDTPLLVEISI 230

Query: 121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK 180
           AMYMTDDIAEHFEQSS+CNF+K LGGVP+LEKLVG IYFTKYLSIG D    P+ Y++L+
Sbjct: 231 AMYMTDDIAEHFEQSSNCNFVKFLGGVPNLEKLVGLIYFTKYLSIGIDSVHPPMMYHNLE 290

Query: 181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCS 240
            IELYQV+FEDM EILV++RLIT+SPNLKEL ISGSSN   A++ PDLDFWEKEC +D +
Sbjct: 291 SIELYQVNFEDMVEILVILRLITSSPNLKELQISGSSNIPVAVDTPDLDFWEKECLSDST 350

Query: 241 FKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRA 300
             +LK VK++++ G PHE+E IK+LL  SPVLE +SI PC F  E  + MLIELV+  RA
Sbjct: 351 LNKLKTVKLSEMGGWPHEIEFIKYLLGRSPVLETLSIIPCVFDMENNLKMLIELVKCRRA 410

Query: 301 SPRAEIIF 308
           S RAE+IF
Sbjct: 411 STRAEVIF 418

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297738232|emb|CBI27433.3| unnamed protein product [Vitis vinifera]

 Score =  438 bits (1127), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 213/309 (68%), Positives = 257/309 (83%)

Query: 1   NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV 60
           ND++E++LELGE EWF VPSCLF+C+KLTRLEL RCE  PP TF GF  L+ LNLHQV +
Sbjct: 84  NDVKEILLELGECEWFTVPSCLFSCQKLTRLELVRCELHPPPTFKGFLHLKILNLHQVSI 143

Query: 61  APEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSI 120
             EAI+SL+SSCPLLE LSLSYFDSL LNI AP LKYL+LEGEFK+I LE+TP LVS+++
Sbjct: 144 TCEAIQSLVSSCPLLECLSLSYFDSLALNISAPNLKYLFLEGEFKEICLENTPGLVSVTV 203

Query: 121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK 180
           AMYM+DD+ EHFEQSSSCNF+K  GG PHLE+L+G+IYFTK+LSIG++ GR PITY+HLK
Sbjct: 204 AMYMSDDVVEHFEQSSSCNFIKFFGGAPHLERLIGHIYFTKFLSIGNELGRHPITYHHLK 263

Query: 181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCS 240
            IELYQVSFED+KEILV++RLI  SPNL+EL ISGSSNT  + E  DLDFWE EC  DC+
Sbjct: 264 NIELYQVSFEDIKEILVILRLIIYSPNLEELQISGSSNTSVSPEVLDLDFWENECPLDCA 323

Query: 241 FKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRA 300
           FK L+ VKMTDISG+PHEM  IKFLL NSP+LEIMSITP  +  E +++M+ EL+ F R 
Sbjct: 324 FKCLQTVKMTDISGLPHEMRFIKFLLENSPILEIMSITPSVYAIEGRMHMVTELLEFRRV 383

Query: 301 SPRAEIIFI 309
           SP+A+I F+
Sbjct: 384 SPQAKIKFV 392

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473651|ref|XP_002270150.2| PREDICTED: F-box/FBD/LRR-repeat protein At1g13570-like [Vitis vinifera]

 Score =  437 bits (1125), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 213/309 (68%), Positives = 257/309 (83%)

Query: 1   NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV 60
           ND++E++LELGE EWF VPSCLF+C+KLTRLEL RCE  PP TF GF  L+ LNLHQV +
Sbjct: 104 NDVKEILLELGECEWFTVPSCLFSCQKLTRLELVRCELHPPPTFKGFLHLKILNLHQVSI 163

Query: 61  APEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSI 120
             EAI+SL+SSCPLLE LSLSYFDSL LNI AP LKYL+LEGEFK+I LE+TP LVS+++
Sbjct: 164 TCEAIQSLVSSCPLLECLSLSYFDSLALNISAPNLKYLFLEGEFKEICLENTPGLVSVTV 223

Query: 121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK 180
           AMYM+DD+ EHFEQSSSCNF+K  GG PHLE+L+G+IYFTK+LSIG++ GR PITY+HLK
Sbjct: 224 AMYMSDDVVEHFEQSSSCNFIKFFGGAPHLERLIGHIYFTKFLSIGNELGRHPITYHHLK 283

Query: 181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCS 240
            IELYQVSFED+KEILV++RLI  SPNL+EL ISGSSNT  + E  DLDFWE EC  DC+
Sbjct: 284 NIELYQVSFEDIKEILVILRLIIYSPNLEELQISGSSNTSVSPEVLDLDFWENECPLDCA 343

Query: 241 FKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRA 300
           FK L+ VKMTDISG+PHEM  IKFLL NSP+LEIMSITP  +  E +++M+ EL+ F R 
Sbjct: 344 FKCLQTVKMTDISGLPHEMRFIKFLLENSPILEIMSITPSVYAIEGRMHMVTELLEFRRV 403

Query: 301 SPRAEIIFI 309
           SP+A+I F+
Sbjct: 404 SPQAKIKFV 412

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297849756|ref|XP_002892759.1| F-box family protein [Arabidopsis lyrata subsp. lyrata] gi|297338601|gb|EFH69018.1| F-box family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  392 bits (1006), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 202/311 (64%), Positives = 244/311 (78%), Gaps = 3/311 (0%)

Query: 1   NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV 60
           N I+ELVLELGEGE FRVPSCLFNC KLTRLEL  CEFDPP  F GF  L+SLNLHQ+LV
Sbjct: 109 NGIKELVLELGEGE-FRVPSCLFNCLKLTRLELCHCEFDPPQYFKGFSSLKSLNLHQILV 167

Query: 61  APEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSI 120
           APE IESLIS CPLLE LSLSYFDSL L+I AP L YLYL+GEFKDI LE+TP LV++S+
Sbjct: 168 APEVIESLISGCPLLEFLSLSYFDSLVLSISAPNLMYLYLDGEFKDIFLENTPKLVAISV 227

Query: 121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK 180
           +MYM +D+ + FEQSS  N +K LGGVP LEKLVGYIYFTKYLSIGDDPGRLPITY HLK
Sbjct: 228 SMYMHEDVTD-FEQSSDYNLVKFLGGVPLLEKLVGYIYFTKYLSIGDDPGRLPITYIHLK 286

Query: 181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCS 240
            IELYQVSFED  EILV++RL+T+SPNLKEL +S S   L  +E    D +E++ + D  
Sbjct: 287 TIELYQVSFEDANEILVLLRLVTHSPNLKELKVSASPIQLFPLEEEGFDLFERD-YFDYK 345

Query: 241 FKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRA 300
              L+ VKMTD+SG+ +E+E I+FLL  SPVLE + ++      E K++M+IEL+R+ R 
Sbjct: 346 LPSLETVKMTDVSGIRNELEFIRFLLGTSPVLETVVVSSSLIDKEAKMDMVIELLRYPRV 405

Query: 301 SPRAEIIFIQN 311
           SPRA+ +F+Q+
Sbjct: 406 SPRAQFLFLQD 416

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15222887|ref|NP_172814.1| F-box/FBD/LRR-repeat protein containing protein [Arabidopsis thaliana] gi|75263255|sp|Q9FZ70.1|FDL1_ARATH RecName: Full=F-box/FBD/LRR-repeat protein At1g13570 gi|9802755|gb|AAF99824.1|AC027134_6 Unknown protein [Arabidopsis thaliana] gi|111074352|gb|ABH04549.1| At1g13570 [Arabidopsis thaliana] gi|332190914|gb|AEE29035.1| F-box/FBD/LRR-repeat protein containing protein [Arabidopsis thaliana]

 Score =  374 bits (959), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 193/311 (62%), Positives = 242/311 (77%), Gaps = 3/311 (0%)

Query: 1   NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV 60
           N I+ELVL+LGEGE FRVP+CLFNC KLT LEL  CEFDPP  F GF  L+SLNLHQ+LV
Sbjct: 109 NGIKELVLKLGEGE-FRVPACLFNCLKLTCLELCHCEFDPPQYFKGFSYLKSLNLHQILV 167

Query: 61  APEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSI 120
           APE IESLIS CPLLE LSLSYFDSL L+I AP L YLYL+GEFKDI LE+TP LV++S+
Sbjct: 168 APEVIESLISGCPLLEFLSLSYFDSLVLSISAPNLMYLYLDGEFKDIFLENTPKLVAISV 227

Query: 121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK 180
           +MYM +D+ + FEQSS  N +K LGGVP LEKLVGYIYFTKYLSIGDDPGRLP+TY HLK
Sbjct: 228 SMYMHEDVTD-FEQSSDYNLVKFLGGVPLLEKLVGYIYFTKYLSIGDDPGRLPLTYIHLK 286

Query: 181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCS 240
            IELYQV FED  E+LV++RL+T+SPNLKEL +S S      +E    D +E++ + D  
Sbjct: 287 TIELYQVCFEDADEVLVLLRLVTHSPNLKELKVSASPVQPFPLEEEGFDLFERD-YFDYK 345

Query: 241 FKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRA 300
              L+ VK+TD SG+ +E+E I+FLL  SPVLE ++++      + K++M+IEL+R+ R 
Sbjct: 346 LPSLESVKITDASGIRYELEFIRFLLGTSPVLETVTVSSSLSDKDAKMDMVIELLRYPRV 405

Query: 301 SPRAEIIFIQN 311
           SPRA+++F+Q+
Sbjct: 406 SPRAQLLFLQD 416

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	311
TAIR|locus:2010032	416	AT1G13570 "AT1G13570" [Arabido	0.990	0.740	0.559	1.6e-86
TAIR|locus:2082657	373	AT3G54910 "AT3G54910" [Arabido	0.475	0.396	0.286	5.5e-08
TAIR|locus:2162499	443	AT5G22670 "AT5G22670" [Arabido	0.649	0.455	0.269	0.00016
TAIR|locus:2096039	437	AT3G62430 "AT3G62430" [Arabido	0.392	0.279	0.253	0.00024
TAIR|locus:2159883	379	AT5G38570 "AT5G38570" [Arabido	0.453	0.372	0.259	0.00025
TAIR|locus:505006162	422	AT1G32375 "AT1G32375" [Arabido	0.498	0.367	0.237	0.00045

TAIR|locus:2010032 AT1G13570 "AT1G13570" [Arabidopsis thaliana (taxid:3702)]

 Score = 865 (309.6 bits), Expect = 1.6e-86, P = 1.6e-86
 Identities = 174/311 (55%), Positives = 223/311 (71%)

Query:     1 NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV 60
             N I+ELVL+LGEGE FRVP+CLFNC KLT LEL  CEFDPP  F GF  L+SLNLHQ+LV
Sbjct:   109 NGIKELVLKLGEGE-FRVPACLFNCLKLTCLELCHCEFDPPQYFKGFSYLKSLNLHQILV 167

Query:    61 APEAIEXXXXXXXXXXXXXXXXXXXXXXNICAPELKYLYLEGEFKDIHLESTPLLVSMSI 120
             APE IE                      +I AP L YLYL+GEFKDI LE+TP LV++S+
Sbjct:   168 APEVIESLISGCPLLEFLSLSYFDSLVLSISAPNLMYLYLDGEFKDIFLENTPKLVAISV 227

Query:   121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK 180
             +MYM +D+ + FEQSS  N +K LGGVP LEKLVGYIYFTKYLSIGDDPGRLP+TY HLK
Sbjct:   228 SMYMHEDVTD-FEQSSDYNLVKFLGGVPLLEKLVGYIYFTKYLSIGDDPGRLPLTYIHLK 286

Query:   181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCS 240
              IELYQV FED  E+LV++RL+T+SPNLKEL +S S      +E    D +E++ + D  
Sbjct:   287 TIELYQVCFEDADEVLVLLRLVTHSPNLKELKVSASPVQPFPLEEEGFDLFERD-YFDYK 345

Query:   241 FKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRA 300
                L+ VK+TD SG+ +E+E I+FLL  SPVLE ++++      + K++M+IEL+R+ R 
Sbjct:   346 LPSLESVKITDASGIRYELEFIRFLLGTSPVLETVTVSSSLSDKDAKMDMVIELLRYPRV 405

Query:   301 SPRAEIIFIQN 311
             SPRA+++F+Q+
Sbjct:   406 SPRAQLLFLQD 416

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2082657 AT3G54910 "AT3G54910" [Arabidopsis thaliana (taxid:3702)]

 Score = 128 (50.1 bits), Expect = 5.5e-08, Sum P(2) = 5.5e-08
 Identities = 47/164 (28%), Positives = 78/164 (47%)

Query:   150 LEKLVGYIYFTKYLSIGD----DPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNS 205
             ++ L+G I   K LSI      D G     +N LK ++L +       ++LV  RL+ +S
Sbjct:   220 IKSLIGSITSVKRLSICSQAMYDGG---FVFNQLKHLKLCRCKGHS-SDLLV--RLLKDS 273

Query:   206 PNLKELHISGSSNTLAAIEAPDLDFWEKECHA-DCSFKQLKLVKMTDISGVPHEMELIKF 264
              NL+ L +S     +   E  D+ +W +     +C    L+ + ++   G P E +L  +
Sbjct:   274 SNLQALDLS----EMDYHENHDILYWHQPSTVPECMLLSLQTLNLSAYRGTPEERDLAVY 329

Query:   265 LLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIF 308
              L N+  L+  +I  C F  ER  +ML EL    RAS   +++F
Sbjct:   330 FLKNAVHLKTTTIKSCVFDDER-FDMLKELALSSRASTTCQLVF 372

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2162499 AT5G22670 "AT5G22670" [Arabidopsis thaliana (taxid:3702)]

 Score = 110 (43.8 bits), Expect = 0.00016, Sum P(2) = 0.00016
 Identities = 61/226 (26%), Positives = 98/226 (43%)

Query:    90 ICAPELKYLYL-EGEFKDIHLES--TPLLVSMSIAMYMTDDIAEHFEQSSSC--NFLKIL 144
             I AP L YL L + + K   L S  +P  V + +   +   + ++F  + S   NF   L
Sbjct:   231 IDAPRLSYLSLRDDQSKSFVLSSVTSPAKVDIDVTFDVVRSVLKNFLLTRSVVRNFFTRL 290

Query:   145 GGVPHLEKLVGYI-YFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLIT 203
               V  +      +   ++Y+    +P  LP   N   +I+ Y V      E L     + 
Sbjct:   291 SSVRDMTMSGTTLKVLSRYMR--HEP--LPQFPN---MIQFYAVFCNSDLEKLP--NFLE 341

Query:   204 NSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKM-TDISGVPHEMELI 262
             + PNLK L +      L   +  DL          C    L+ V++ T ISG   EM+L+
Sbjct:   342 SCPNLKSLVLE-----LEVFKKNDLLILSSSI-PKCLRSSLEHVEIHTPISGAEAEMKLV 395

Query:   263 KFLLSNSPVLEIMSIT-PCTFVTERKVNMLIELVRFIRASPRAEII 307
             K+ L NS VL+  ++   C  + E  + +  EL+RF R S   E++
Sbjct:   396 KYFLENSAVLKKFTLQLGCKRMDEESI-IFKELLRFRRCSASCEVV 440

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2096039 AT3G62430 "AT3G62430" [Arabidopsis thaliana (taxid:3702)]

 Score = 92 (37.4 bits), Expect = 0.00024, Sum P(3) = 0.00024
 Identities = 36/142 (25%), Positives = 67/142 (47%)

Query:   172 LPITYN--HLKVIELYQVSFEDMKEILVVIRLITNSPNLKEL-----HISGSSNTLAAIE 224
             +P+  N  HL V     + ++D++ +L        SPNLK L     H  G  +  +  E
Sbjct:   304 VPVFENLFHLSVSTHDAICWDDLRILL------EKSPNLKTLTIEALHYHGYGDENSVCE 357

Query:   225 APDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVT 284
               D   +   C        ++++K+T+  G   EME ++++L N   L ++ I   T   
Sbjct:   358 CLDGYSFLLSC-------PIEILKITEFGGEIEEMEQVEYVLENLLCLVLLEIHVKTKKI 410

Query:   285 ERKVNMLIELVRFIRASPRAEI 306
             +RK+ +L +L+   RAS + ++
Sbjct:   411 DRKLQILADLLMLPRASSKCKV 432

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2159883 AT5G38570 "AT5G38570" [Arabidopsis thaliana (taxid:3702)]

 Score = 117 (46.2 bits), Expect = 0.00025, P = 0.00025
 Identities = 42/162 (25%), Positives = 81/162 (50%)

Query:   149 HLEKLVGYIYFTKYLSIGDDPGRL---PITYNHLKVIELYQVSFEDMKEILVVIRLITNS 205
             HL+ L+G I   K+L+I      L      +NHL+ ++L    F D   +L   +L+  S
Sbjct:   221 HLKTLIGSITSVKHLTICCLEDYLYGDGFIFNHLEHLKLCMCPF-DSSNLLG--QLLKGS 277

Query:   206 PNLKELHISGSSNTLAAIEAPDLDFWEKECHA-DCSFKQLKLVKMTDISGVPHEMELIKF 264
             PNL+ L I         ++  D+  W +     +C    LK++  +   G P + ++  +
Sbjct:   278 PNLQVLDIF-------EMKRNDIVCWNQPSSVLECLLSSLKILNWSAYFGRPQDRDIAVY 330

Query:   265 LLSNSPVLEIMSITPCTFVTERKVNML--IELVRFIRASPRA 304
             +L N+  L+       TF+T++++N +  +++++ +R SPRA
Sbjct:   331 ILKNACHLKT-----ATFLTDKRINDVRRLKMIKELRLSPRA 367

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:505006162 AT1G32375 "AT1G32375" [Arabidopsis thaliana (taxid:3702)]

 Score = 101 (40.6 bits), Expect = 0.00045, Sum P(2) = 0.00045
 Identities = 39/164 (23%), Positives = 71/164 (43%)

Query:   149 HLEKLVGYIYFTK--YLSIGDDPGRLPI--TYNHLKVIELYQVSFEDMKEILVVIRLITN 204
             H ++L+G I   K  Y+ I       P+   ++ L  + +     E +  ++ V+R   +
Sbjct:   263 HTQQLMGSISSVKRLYVCIPSSKDAYPVGSVFHCLVRLTICTCETEWLNLLMCVLR---D 319

Query:   205 SPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKF 264
             SP L+EL +    N +     P   + E     +C    L+ ++     G   E E+  F
Sbjct:   320 SPKLRELKLV--KNHVYRSHQPRPCWNEPSAVPECLLTSLETLEWVKYEGTEEEKEVAAF 377

Query:   265 LLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIF 308
             +L +   L+ ++I+  +    +K  ML EL    R SP  +I F
Sbjct:   378 ILRSGSCLKKVTISSKSTDINKKFEMLKELSLLFRRSPTCQIAF 421

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9FZ70	FDL1_ARATH	No assigned EC number	0.6205	0.9903	0.7403	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00101276 hypothetical protein (420 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	311
smart00579	72	smart00579, FBD, domain in FBox and BRCT domain co	1e-08
pfam08387	51	pfam08387, FBD, FBD	0.001

>gnl|CDD|214730 smart00579, FBD, domain in FBox and BRCT domain containing plant proteins

 Score = 51.0 bits (123), Expect = 1e-08
 Identities = 22/71 (30%), Positives = 40/71 (56%)

Query: 239 CSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFI 298
           C    L+++++    G   E EL+K+ L N+P L+ ++I+  T   E K+ +L EL+   
Sbjct: 2   CLLSSLEVLEIKGYRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLP 61

Query: 299 RASPRAEIIFI 309
           RAS   ++ F+
Sbjct: 62  RASSSCQVQFL 72

Length = 72

>gnl|CDD|203925 pfam08387, FBD, FBD

 Score = 35.6 bits (83), Expect = 0.001
 Identities = 14/39 (35%), Positives = 22/39 (56%)

Query: 239 CSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSI 277
           C    L+ V+     G   E+EL K++L N+ VL+ M+I
Sbjct: 11  CLLSSLETVEWRGYRGEEEELELAKYILENARVLKKMTI 49

This region is found in F-box (pfam00646) and other domain containing plant proteins; it is repeated in two family members. Its precise function is unknown, but it is thought to be associated with nuclear processes. In fact, several family members are annotated as being similar to transcription factors. Length = 51

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	311
smart00579	72	FBD domain in FBox and BRCT domain containing plan	99.53
PF08387	51	FBD: FBD; InterPro: IPR013596 This region is found	99.28
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.11
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.05
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.68
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.67
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.65
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.6
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.47
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.46
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.42
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.33
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	98.12
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.07
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.06
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.05
KOG0617	264	consensus Ras suppressor protein (contains leucine	97.98
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.93
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	97.84
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.81
KOG4341	483	consensus F-box protein containing LRR [General fu	97.8
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	97.74
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.74
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	97.7
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	97.65
KOG0617	264	consensus Ras suppressor protein (contains leucine	97.6
KOG4237	498	consensus Extracellular matrix protein slit, conta	97.58
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.55
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.47
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.45
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	97.44
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.42
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	97.35
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.23
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	97.09
PF07723	26	LRR_2: Leucine Rich Repeat; InterPro: IPR013101 Le	97.0
PLN03150	623	hypothetical protein; Provisional	96.98
KOG4341	483	consensus F-box protein containing LRR [General fu	96.98
KOG0472	565	consensus Leucine-rich repeat protein [Function un	96.97
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	96.77
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	96.63
KOG4237	498	consensus Extracellular matrix protein slit, conta	96.39
KOG0472	565	consensus Leucine-rich repeat protein [Function un	96.23
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	95.97
PLN03150	623	hypothetical protein; Provisional	95.91
KOG2982	418	consensus Uncharacterized conserved protein [Funct	95.86
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	95.75
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	95.43
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	95.09
KOG2123	388	consensus Uncharacterized conserved protein [Funct	94.86
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	94.85
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	94.82
KOG1947	482	consensus Leucine rich repeat proteins, some prote	94.43
KOG1947	482	consensus Leucine rich repeat proteins, some prote	94.07
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	93.84
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	93.45
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	93.1
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	92.55
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	92.42
PRK15386	426	type III secretion protein GogB; Provisional	92.29
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	89.27
KOG2123	388	consensus Uncharacterized conserved protein [Funct	89.17
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	89.1
KOG3864	221	consensus Uncharacterized conserved protein [Funct	87.75
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	86.11
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	85.94
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	85.83
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	85.37
KOG3864	221	consensus Uncharacterized conserved protein [Funct	82.42
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	81.09
PF08387	51	FBD: FBD; InterPro: IPR013596 This region is found	80.93
PRK15386	426	type III secretion protein GogB; Provisional	80.79

>smart00579 FBD domain in FBox and BRCT domain containing plant proteins

Probab=99.53  E-value=3.2e-14  Score=96.55  Aligned_cols=71  Identities=30%  Similarity=0.562  Sum_probs=64.3

Q ss_pred             ccccceeEEEEEeecCCcchHHHHHHHHccCcccceEEEEeccccchhHHHHHHHHhhcccCCcccEEEEe
Q 042404          239 CSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELVRFIRASPRAEIIFI  309 (311)
Q Consensus       239 ~~~~~Lk~v~i~~~~g~~~~~~l~~~ll~~a~~Le~l~i~~~~~~~~~~~~~~~~l~~~~~~s~~~~~~~~  309 (311)
                      |..++|+.|+|.+|.|.+.|+++++||++||+.||+|+|..+....++..++.++|..++|||+.|+|.|.
T Consensus         2 cl~~~Lk~v~i~~f~g~~~e~~~~~~il~~a~~Lk~~~i~~~~~~~~~~~~i~~~L~~~~~aS~~c~i~~~   72 (72)
T smart00579        2 CLLSSLEVLEIKGYRGTEEEKELVKYFLENAPCLKKLTISVETSDDDEKLEILKELLSLPRASSSCQVQFL   72 (72)
T ss_pred             cchheEEEEEEEeccCcHHHHHHHHHHHhcchhheEEEEEeecCCccHHHHHHHHHHhCcCCCCceEEEeC
Confidence            67789999999999999999999999999999999999998765445557788999999999999999984

>PF08387 FBD: FBD; InterPro: IPR013596 This region is found in F-box (IPR001810 from INTERPRO) and other domain containing plant proteins; it is repeated in two family members

Probab=99.28  E-value=4.3e-12  Score=79.23  Aligned_cols=49  Identities=37%  Similarity=0.800  Sum_probs=44.7

Q ss_pred             hh-cccccCcccccceeEEEEEeecCCcchHHHHHHHHccCcccceEEEE
Q 042404          230 FW-EKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSIT  278 (311)
Q Consensus       230 ~~-~~~~~~~~~~~~Lk~v~i~~~~g~~~~~~l~~~ll~~a~~Le~l~i~  278 (311)
                      +| +...+|+|..+|||.|++.||.|.+.|+++++||++||+.||+|+|.
T Consensus         1 ~W~~~~~~p~Cl~s~Lk~v~~~~f~g~~~e~~f~~yil~na~~Lk~m~i~   50 (51)
T PF08387_consen    1 FWIEPSSVPECLLSHLKFVEIKGFRGEENELEFAKYILENAPVLKKMTIS   50 (51)
T ss_pred             CCCCCCCCccchhheeEEEEEEeeeCcHHHHHHHHHHHhhhhhhcEEEEE
Confidence            47 34456899999999999999999999999999999999999999996

Its precise function is unknown, but it is thought to be associated with nuclear processes []. In fact, several family members are annotated as being similar to transcription factors.

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=99.11  E-value=9.6e-11  Score=118.22  Aligned_cols=107  Identities=21%  Similarity=0.217  Sum_probs=52.9

Q ss_pred             ecCCCcc-cCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee----EEEe
Q 042404           17 RVPSCLF-NCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD----LNIC   91 (311)
Q Consensus        17 ~lp~~~~-~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~----~~i~   91 (311)
                      .+|..++ .+++|++|+|++|.+........+++|++|+|+++.+... ++..+..+++|+.|++.+|....    ....
T Consensus       108 ~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~-~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~  186 (968)
T PLN00113        108 PIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGE-IPNDIGSFSSLKVLDLGGNVLVGKIPNSLTN  186 (968)
T ss_pred             cCChHHhccCCCCCEEECcCCccccccCccccCCCCEEECcCCccccc-CChHHhcCCCCCEEECccCcccccCChhhhh
Confidence            3454444 5555666666555543111123455666666666655432 33335566666666666664322    1123


Q ss_pred             CCCceEEEeecee-e-e--eeecCCCCcceeEEEEEE
Q 042404           92 APELKYLYLEGEF-K-D--IHLESTPLLVSMSIAMYM  124 (311)
Q Consensus        92 ~~~L~~L~i~~~~-~-~--~~i~~~p~L~~l~l~~~~  124 (311)
                      .++|++|.+.++. . .  -.+..+++|+.++++.+.
T Consensus       187 l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~  223 (968)
T PLN00113        187 LTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNN  223 (968)
T ss_pred             CcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCc
Confidence            3556666665542 1 1  123355566666655443

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=99.05  E-value=1.6e-10  Score=116.59  Aligned_cols=16  Identities=13%  Similarity=0.158  Sum_probs=11.0

Q ss_pred             HccCcccceEEEEecc
Q 042404          266 LSNSPVLEIMSITPCT  281 (311)
Q Consensus       266 l~~a~~Le~l~i~~~~  281 (311)
                      +.+.+.|+.+.+....
T Consensus       400 ~~~~~~L~~L~L~~n~  415 (968)
T PLN00113        400 LGACRSLRRVRLQDNS  415 (968)
T ss_pred             HhCCCCCCEEECcCCE
Confidence            3567888888876543

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=98.68  E-value=1.1e-08  Score=90.09  Aligned_cols=256  Identities=16%  Similarity=0.077  Sum_probs=150.8

Q ss_pred             cccCCCCcEEEccceeeCC------CCCCCCCCcccEEEeeeeeeC--hH---HHHHHHhcCcccccccccccccee---
Q 042404           22 LFNCRKLTRLELFRCEFDP------PLTFTGFPCLRSLNLHQVLVA--PE---AIESLISSCPLLESLSLSYFDSLD---   87 (311)
Q Consensus        22 ~~~~~~L~~L~L~~~~l~~------~~~~~~l~~L~~L~L~~~~~~--~~---~l~~ll~~cp~Le~L~l~~c~~~~---   87 (311)
                      +.....|++|++.++.+..      +..+..++.|++|.+.++.+.  ..   .+...+..+++|+.|++.+|....   
T Consensus        19 ~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~   98 (319)
T cd00116          19 LPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGC   98 (319)
T ss_pred             HHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHH
Confidence            3445669999999988742      223446778999999888766  22   344556678899999999886531   


Q ss_pred             -----EEEeCCCceEEEeece-eee-----e--eecCC-CCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEE
Q 042404           88 -----LNICAPELKYLYLEGE-FKD-----I--HLEST-PLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKL  153 (311)
Q Consensus        88 -----~~i~~~~L~~L~i~~~-~~~-----~--~i~~~-p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L  153 (311)
                           +.-. ++|++|.+.++ +..     +  .+... ++|++++++.+...+.       ....+...+..++.++.|
T Consensus        99 ~~~~~l~~~-~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~-------~~~~~~~~~~~~~~L~~L  170 (319)
T cd00116          99 GVLESLLRS-SSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGA-------SCEALAKALRANRDLKEL  170 (319)
T ss_pred             HHHHHHhcc-CcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCch-------HHHHHHHHHHhCCCcCEE
Confidence                 1112 66999999885 221     1  23345 8899999988764320       112335556777889999


Q ss_pred             EEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcc
Q 042404          154 VGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEK  233 (311)
Q Consensus       154 ~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~  233 (311)
                      ++..+.+..-.....+..+ ..+++|++|.+....+. ..+...+...+..+|+|+.|++..+.....     .......
T Consensus       171 ~l~~n~l~~~~~~~l~~~l-~~~~~L~~L~L~~n~i~-~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~-----~~~~l~~  243 (319)
T cd00116         171 NLANNGIGDAGIRALAEGL-KANCNLEVLDLNNNGLT-DEGASALAETLASLKSLEVLNLGDNNLTDA-----GAAALAS  243 (319)
T ss_pred             ECcCCCCchHHHHHHHHHH-HhCCCCCEEeccCCccC-hHHHHHHHHHhcccCCCCEEecCCCcCchH-----HHHHHHH
Confidence            9987654320000001111 13468999998433232 234556777788899999999987643210     0000000


Q ss_pred             cccCcccccceeEEEEEeecCC-cchHHHHHHHHccCcccceEEEEeccccchhHHHHHHHHh
Q 042404          234 ECHADCSFKQLKLVKMTDISGV-PHEMELIKFLLSNSPVLEIMSITPCTFVTERKVNMLIELV  295 (311)
Q Consensus       234 ~~~~~~~~~~Lk~v~i~~~~g~-~~~~~l~~~ll~~a~~Le~l~i~~~~~~~~~~~~~~~~l~  295 (311)
                       . .......|+.+.+.+..-. .....+++. +.+.+.|+.+.+.....+.++..+..+.+.
T Consensus       244 -~-~~~~~~~L~~L~l~~n~i~~~~~~~l~~~-~~~~~~L~~l~l~~N~l~~~~~~~~~~~~~  303 (319)
T cd00116         244 -A-LLSPNISLLTLSLSCNDITDDGAKDLAEV-LAEKESLLELDLRGNKFGEEGAQLLAESLL  303 (319)
T ss_pred             -H-HhccCCCceEEEccCCCCCcHHHHHHHHH-HhcCCCccEEECCCCCCcHHHHHHHHHHHh
Confidence             0 0002367888887764322 222344444 444488999888877655554444444444

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=98.67  E-value=4e-10  Score=101.89  Aligned_cols=247  Identities=17%  Similarity=0.139  Sum_probs=123.1

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChH-HHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPE-AIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~-~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|...++..... .++.+..+|..|+|+.|+++  ++..|..+|.|+.|+|..+.+.-- .+.  +.+.|.|+.|
T Consensus       174 ni~~L~La~N~It~l~~-~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~irive~lt--FqgL~Sl~nl  250 (873)
T KOG4194|consen  174 NIKKLNLASNRITTLET-GHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRIVEGLT--FQGLPSLQNL  250 (873)
T ss_pred             CceEEeecccccccccc-ccccccchheeeecccCcccccCHHHhhhcchhhhhhccccceeeehhhh--hcCchhhhhh
Confidence            67888887665421221 23445568888888888876  233566688888888888776431 121  4466666666


Q ss_pred             cccccccee----EEE------------------------eCCCceEEEeece-eeeeee---cCCCCcceeEEEEEEcc
Q 042404           79 SLSYFDSLD----LNI------------------------CAPELKYLYLEGE-FKDIHL---ESTPLLVSMSIAMYMTD  126 (311)
Q Consensus        79 ~l~~c~~~~----~~i------------------------~~~~L~~L~i~~~-~~~~~i---~~~p~L~~l~l~~~~~~  126 (311)
                      .+..++..+    ..-                        ...+|+.|.++.+ ..+|.+   ..+++|+.++++.+...
T Consensus       251 klqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~  330 (873)
T KOG4194|consen  251 KLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRIT  330 (873)
T ss_pred             hhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccc
Confidence            666543211    111                        1224455554442 122222   35777777777776655


Q ss_pred             ccchh-hc-----------ccccch-HHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHH
Q 042404          127 DIAEH-FE-----------QSSSCN-FLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMK  193 (311)
Q Consensus       127 ~~~~~-~~-----------~~~~~~-~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~  193 (311)
                      ++++. +.           ...... -..-+.++++|+.|+|+.+.+.+...+ .- ....-+++|+.|.+.+.....  
T Consensus       331 ~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IED-aa-~~f~gl~~LrkL~l~gNqlk~--  406 (873)
T KOG4194|consen  331 RLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIED-AA-VAFNGLPSLRKLRLTGNQLKS--  406 (873)
T ss_pred             cCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEec-ch-hhhccchhhhheeecCceeee--
Confidence            44321 10           000000 122345566677777776665432211 10 011125566666663211111  


Q ss_pred             HHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEe--ecCCcchHHHHHHHHccCcc
Q 042404          194 EILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTD--ISGVPHEMELIKFLLSNSPV  271 (311)
Q Consensus       194 ~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~--~~g~~~~~~l~~~ll~~a~~  271 (311)
                         .-..-+..++.||.|++..+.-...          +.   ..+..-+||++.|..  |-.+++-.=++..+.++-..
T Consensus       407 ---I~krAfsgl~~LE~LdL~~NaiaSI----------q~---nAFe~m~Lk~Lv~nSssflCDCql~Wl~qWl~~~~lq  470 (873)
T KOG4194|consen  407 ---IPKRAFSGLEALEHLDLGDNAIASI----------QP---NAFEPMELKELVMNSSSFLCDCQLKWLAQWLYRRKLQ  470 (873)
T ss_pred             ---cchhhhccCcccceecCCCCcceee----------cc---cccccchhhhhhhcccceEEeccHHHHHHHHHhcccc
Confidence               1123456677777777764432111          00   011122667666653  44555544455566555433

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.65  E-value=1.2e-09  Score=91.40  Aligned_cols=168  Identities=23%  Similarity=0.262  Sum_probs=118.8

Q ss_pred             cccCCCCcEEEccceeeCCCC--CCCCCCcccEEEeeeee-eChHHHHHHHhcCcccccccccccccee------EEEeC
Q 042404           22 LFNCRKLTRLELFRCEFDPPL--TFTGFPCLRSLNLHQVL-VAPEAIESLISSCPLLESLSLSYFDSLD------LNICA   92 (311)
Q Consensus        22 ~~~~~~L~~L~L~~~~l~~~~--~~~~l~~L~~L~L~~~~-~~~~~l~~ll~~cp~Le~L~l~~c~~~~------~~i~~   92 (311)
                      +..|++|+.|.|.++.+.+|-  .++.-.+|+.|+|+.+. ++...+.-++++|..|.+|.|+.|....      +.--+
T Consensus       206 Ls~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~his  285 (419)
T KOG2120|consen  206 LSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVAHIS  285 (419)
T ss_pred             HHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHhhhc
Confidence            456889999999999887643  24566889999999887 7777899999999999999999998654      22345


Q ss_pred             CCceEEEeeceeee-----e--eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeec
Q 042404           93 PELKYLYLEGEFKD-----I--HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSI  165 (311)
Q Consensus        93 ~~L~~L~i~~~~~~-----~--~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~  165 (311)
                      ++|+.|++.|+...     +  -...+|+|.+++++++....          ......+.+++.|+.|+++-+..     
T Consensus       286 e~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~----------~~~~~~~~kf~~L~~lSlsRCY~-----  350 (419)
T KOG2120|consen  286 ETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLK----------NDCFQEFFKFNYLQHLSLSRCYD-----  350 (419)
T ss_pred             hhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccC----------chHHHHHHhcchheeeehhhhcC-----
Confidence            89999999997322     1  13479999999999876542          23344556889999999874421     


Q ss_pred             CCCCCCC--CccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcce
Q 042404          166 GDDPGRL--PITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKE  210 (311)
Q Consensus       166 ~~~~~~~--~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~  210 (311)
                       ..|..+  ....|.|..|.+.+. ..+.    .+.-+.+.||+|+.
T Consensus       351 -i~p~~~~~l~s~psl~yLdv~g~-vsdt----~mel~~e~~~~lki  391 (419)
T KOG2120|consen  351 -IIPETLLELNSKPSLVYLDVFGC-VSDT----TMELLKEMLSHLKI  391 (419)
T ss_pred             -CChHHeeeeccCcceEEEEeccc-cCch----HHHHHHHhCccccc
Confidence             111111  123577888888432 2221    44567788998763

>PLN03210 Resistant to P

Probab=98.60  E-value=6e-08  Score=99.21  Aligned_cols=105  Identities=20%  Similarity=0.149  Sum_probs=50.8

Q ss_pred             eecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee-EE---E
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD-LN---I   90 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~-~~---i   90 (311)
                      ..+|..+ ...+|+.|+|.++.+. .|.+...+++|+.|+|+++..-.. ++. ++.+++|+.|++.+|..+. +.   -
T Consensus       602 ~~lP~~f-~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~-ip~-ls~l~~Le~L~L~~c~~L~~lp~si~  678 (1153)
T PLN03210        602 RCMPSNF-RPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKE-IPD-LSMATNLETLKLSDCSSLVELPSSIQ  678 (1153)
T ss_pred             CCCCCcC-CccCCcEEECcCccccccccccccCCCCCEEECCCCCCcCc-CCc-cccCCcccEEEecCCCCccccchhhh
Confidence            3455543 4466666666666554 334445566666666665431111 111 3456666666666665433 11   1


Q ss_pred             eCCCceEEEeecee--eeeee-cCCCCcceeEEEEE
Q 042404           91 CAPELKYLYLEGEF--KDIHL-ESTPLLVSMSIAMY  123 (311)
Q Consensus        91 ~~~~L~~L~i~~~~--~~~~i-~~~p~L~~l~l~~~  123 (311)
                      ..++|+.|.+.+|.  ..+.. ..+++|+.+.++++
T Consensus       679 ~L~~L~~L~L~~c~~L~~Lp~~i~l~sL~~L~Lsgc  714 (1153)
T PLN03210        679 YLNKLEDLDMSRCENLEILPTGINLKSLYRLNLSGC  714 (1153)
T ss_pred             ccCCCCEEeCCCCCCcCccCCcCCCCCCCEEeCCCC
Confidence            23455666665542  11111 14455555555443

syringae 6; Provisional

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=98.47  E-value=6.5e-08  Score=87.95  Aligned_cols=183  Identities=16%  Similarity=0.085  Sum_probs=108.9

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLS   79 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~   79 (311)
                      ++|+|+|+..+.. ..--.+++..+.|+.|+|++|.+.  .+.++..++.|+.|+|+++.++.-+-+ -+.....||.|.
T Consensus       270 kme~l~L~~N~l~-~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~-sf~~L~~Le~Ln  347 (873)
T KOG4194|consen  270 KMEHLNLETNRLQ-AVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEG-SFRVLSQLEELN  347 (873)
T ss_pred             ccceeecccchhh-hhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccccCChh-HHHHHHHhhhhc
Confidence            5667777665431 122356777888888888887664  244566677888888888776542122 144567778888


Q ss_pred             ccccccee----EEEeCCCceEEEeeceeee-------eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCC
Q 042404           80 LSYFDSLD----LNICAPELKYLYLEGEFKD-------IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVP  148 (311)
Q Consensus        80 l~~c~~~~----~~i~~~~L~~L~i~~~~~~-------~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~  148 (311)
                      |..+..-.    ......+|+.|++..+--.       ..+..+|+|+++.+.++....+           -.+-+.+++
T Consensus       348 Ls~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~gNqlk~I-----------~krAfsgl~  416 (873)
T KOG4194|consen  348 LSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTGNQLKSI-----------PKRAFSGLE  416 (873)
T ss_pred             ccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecCceeeec-----------chhhhccCc
Confidence            77665321    2223346777777664222       2345688888888887765422           134467888


Q ss_pred             cceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHh
Q 042404          149 HLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLIT  203 (311)
Q Consensus       149 ~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~  203 (311)
                      .|+.|+|..+.+-.+....    .. ++ +|++|.+...++--.-.+.+++..+.
T Consensus       417 ~LE~LdL~~NaiaSIq~nA----Fe-~m-~Lk~Lv~nSssflCDCql~Wl~qWl~  465 (873)
T KOG4194|consen  417 ALEHLDLGDNAIASIQPNA----FE-PM-ELKELVMNSSSFLCDCQLKWLAQWLY  465 (873)
T ss_pred             ccceecCCCCcceeecccc----cc-cc-hhhhhhhcccceEEeccHHHHHHHHH
Confidence            9999999888776654322    22 22 67777774333221124456655554

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=98.46  E-value=1.8e-08  Score=88.68  Aligned_cols=261  Identities=20%  Similarity=0.071  Sum_probs=152.6

Q ss_pred             CceEEEEEeCCC---eeeecCCCcccCCCCcEEEccceeeCC-C-------CCCCCCCcccEEEeeeeeeCh---HHHHH
Q 042404            2 DIRELVLELGEG---EWFRVPSCLFNCRKLTRLELFRCEFDP-P-------LTFTGFPCLRSLNLHQVLVAP---EAIES   67 (311)
Q Consensus         2 ~v~~L~l~~~~~---~~~~lp~~~~~~~~L~~L~L~~~~l~~-~-------~~~~~l~~L~~L~L~~~~~~~---~~l~~   67 (311)
                      ++++|++.-+..   ....++..+...++|+.|+++++.+.. +       ..+..+++|+.|+++++.+..   ..+..
T Consensus        24 ~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~  103 (319)
T cd00116          24 CLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLES  103 (319)
T ss_pred             hccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHHHH
Confidence            367777764432   123466667777889999998876541 1       224457799999999888764   23444


Q ss_pred             HHhcCcccccccccccccee-----E---EEeC-CCceEEEeecee-e-----ee--eecCCCCcceeEEEEEEccccch
Q 042404           68 LISSCPLLESLSLSYFDSLD-----L---NICA-PELKYLYLEGEF-K-----DI--HLESTPLLVSMSIAMYMTDDIAE  130 (311)
Q Consensus        68 ll~~cp~Le~L~l~~c~~~~-----~---~i~~-~~L~~L~i~~~~-~-----~~--~i~~~p~L~~l~l~~~~~~~~~~  130 (311)
                      +..+ ++|++|++.+|...+     +   .... ++|+.|.+.++. .     .+  .+..+++|+.++++.+...+.  
T Consensus       104 l~~~-~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~--  180 (319)
T cd00116         104 LLRS-SSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDA--  180 (319)
T ss_pred             Hhcc-CcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchH--
Confidence            4444 669999998886431     1   1122 788999998862 2     11  234567899998877654310  


Q ss_pred             hhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHH-hcCCCcc
Q 042404          131 HFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLI-TNSPNLK  209 (311)
Q Consensus       131 ~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l-~~~p~L~  209 (311)
                           ....+...+...++|+.|++..+.+.......... ....+++|++|.+....+.+ .++..+...+ ...+.|+
T Consensus       181 -----~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~-~~~~~~~L~~L~ls~n~l~~-~~~~~l~~~~~~~~~~L~  253 (319)
T cd00116         181 -----GIRALAEGLKANCNLEVLDLNNNGLTDEGASALAE-TLASLKSLEVLNLGDNNLTD-AGAAALASALLSPNISLL  253 (319)
T ss_pred             -----HHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHH-HhcccCCCCEEecCCCcCch-HHHHHHHHHHhccCCCce
Confidence                 00122333456679999999877654221111111 12247889999984322222 1222333222 2358999


Q ss_pred             eEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEeec-CCcchHHHHHHHHccCcccceEEEEec
Q 042404          210 ELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDIS-GVPHEMELIKFLLSNSPVLEIMSITPC  280 (311)
Q Consensus       210 ~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~~~-g~~~~~~l~~~ll~~a~~Le~l~i~~~  280 (311)
                      .|++..+.....       .........+ .+.+|+.+.+.+-. +.+....+++-+..+.+.|+.+.|...
T Consensus       254 ~L~l~~n~i~~~-------~~~~l~~~~~-~~~~L~~l~l~~N~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (319)
T cd00116         254 TLSLSCNDITDD-------GAKDLAEVLA-EKESLLELDLRGNKFGEEGAQLLAESLLEPGNELESLWVKDD  317 (319)
T ss_pred             EEEccCCCCCcH-------HHHHHHHHHh-cCCCccEEECCCCCCcHHHHHHHHHHHhhcCCchhhcccCCC
Confidence            999987753211       1100000011 13678887776532 334457788888889899999887643

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=98.42  E-value=2.5e-08  Score=87.48  Aligned_cols=102  Identities=17%  Similarity=0.168  Sum_probs=71.6

Q ss_pred             cCCCCcEEEccceeeCCCCC---CCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEe----CCCce
Q 042404           24 NCRKLTRLELFRCEFDPPLT---FTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNIC----APELK   96 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~~~~~---~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~----~~~L~   96 (311)
                      .+++|+.|+|+.|.+..|.+   ...+++|++|.|..|.+++.++..++..||.|+.|.+.++....+...    ..+|+
T Consensus       170 qLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~  249 (505)
T KOG3207|consen  170 QLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQ  249 (505)
T ss_pred             hcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHh
Confidence            35788888898888764432   236899999999999999999999999999999999998853221111    23677


Q ss_pred             EEEeece----eeee-eecCCCCcceeEEEEEEc
Q 042404           97 YLYLEGE----FKDI-HLESTPLLVSMSIAMYMT  125 (311)
Q Consensus        97 ~L~i~~~----~~~~-~i~~~p~L~~l~l~~~~~  125 (311)
                      .|++.++    ++.. .+...|.|..+.++.+..
T Consensus       250 ~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi  283 (505)
T KOG3207|consen  250 ELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGI  283 (505)
T ss_pred             hccccCCcccccccccccccccchhhhhccccCc
Confidence            7777763    2222 234666666666655544

>PLN03210 Resistant to P

Probab=98.33  E-value=3.9e-07  Score=93.37  Aligned_cols=104  Identities=16%  Similarity=0.098  Sum_probs=47.1

Q ss_pred             ecCCCcccC-CCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee---EEEe
Q 042404           17 RVPSCLFNC-RKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD---LNIC   91 (311)
Q Consensus        17 ~lp~~~~~~-~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~---~~i~   91 (311)
                      .+|..+... .+|+.|.+.++.+. .|..+ .+.+|+.|++.++.+..  ++.-+..+++|+.|++.+|..+.   -...
T Consensus       579 ~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f-~~~~L~~L~L~~s~l~~--L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~  655 (1153)
T PLN03210        579 HLPEGFDYLPPKLRLLRWDKYPLRCMPSNF-RPENLVKLQMQGSKLEK--LWDGVHSLTGLRNIDLRGSKNLKEIPDLSM  655 (1153)
T ss_pred             ecCcchhhcCcccEEEEecCCCCCCCCCcC-CccCCcEEECcCccccc--cccccccCCCCCEEECCCCCCcCcCCcccc
Confidence            344444443 24555555555443 23333 34555555555554332  21223345555666555554332   1112


Q ss_pred             CCCceEEEeeceee--e--eeecCCCCcceeEEEEE
Q 042404           92 APELKYLYLEGEFK--D--IHLESTPLLVSMSIAMY  123 (311)
Q Consensus        92 ~~~L~~L~i~~~~~--~--~~i~~~p~L~~l~l~~~  123 (311)
                      .++|+.|.+.+|..  .  ..+..+++|+.+++..+
T Consensus       656 l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c  691 (1153)
T PLN03210        656 ATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRC  691 (1153)
T ss_pred             CCcccEEEecCCCCccccchhhhccCCCCEEeCCCC
Confidence            34555555555421  1  12334555555555443

syringae 6; Provisional

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=98.12  E-value=4.6e-08  Score=89.72  Aligned_cols=181  Identities=17%  Similarity=0.150  Sum_probs=103.9

Q ss_pred             eecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChH----------------------HHHHHHhcC
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPE----------------------AIESLISSC   72 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~----------------------~l~~ll~~c   72 (311)
                      ..+|..++.+.-|..|+|++|.+. .|..+..-.++-.|+|+++.++.-                      .++--+...
T Consensus        93 sGiP~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL  172 (1255)
T KOG0444|consen   93 SGIPTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRL  172 (1255)
T ss_pred             CCCCchhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHH
Confidence            467777777777777777777764 454454555666777776665421                      111113334


Q ss_pred             cccccccccccccee--E--EEeCCCceEEEeecee---ee--eeecCCCCcceeEEEEEEccccchhhcccccchHHHH
Q 042404           73 PLLESLSLSYFDSLD--L--NICAPELKYLYLEGEF---KD--IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKI  143 (311)
Q Consensus        73 p~Le~L~l~~c~~~~--~--~i~~~~L~~L~i~~~~---~~--~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~  143 (311)
                      ..|++|.|+++.-..  +  -.+..+|..|.+++..   ..  -++.++.+|..++++.+...            .+.+.
T Consensus       173 ~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp------------~vPec  240 (1255)
T KOG0444|consen  173 SMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLP------------IVPEC  240 (1255)
T ss_pred             hhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccccCCC------------cchHH
Confidence            445555555443211  1  1123455566666531   11  23556667777776665543            23555


Q ss_pred             hcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCc
Q 042404          144 LGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTL  220 (311)
Q Consensus       144 l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~  220 (311)
                      +-.+++|++|.|+++.++.+..+.     . .-.+|++|.+..   +   .+..++.-+-+.|.|++|++..++...
T Consensus       241 ly~l~~LrrLNLS~N~iteL~~~~-----~-~W~~lEtLNlSr---N---QLt~LP~avcKL~kL~kLy~n~NkL~F  305 (1255)
T KOG0444|consen  241 LYKLRNLRRLNLSGNKITELNMTE-----G-EWENLETLNLSR---N---QLTVLPDAVCKLTKLTKLYANNNKLTF  305 (1255)
T ss_pred             HhhhhhhheeccCcCceeeeeccH-----H-HHhhhhhhcccc---c---hhccchHHHhhhHHHHHHHhccCcccc
Confidence            667888999999988877655421     1 245666666622   1   233566667777788877777665443

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.07  E-value=4.1e-07  Score=76.41  Aligned_cols=142  Identities=23%  Similarity=0.232  Sum_probs=98.6

Q ss_pred             CCceEEEEEeCCC-eeeecCCCcccCCCCcEEEccceeeCCCCC---C-CCCCcccEEEeeeee--eChHHHHHHHhcCc
Q 042404            1 NDIRELVLELGEG-EWFRVPSCLFNCRKLTRLELFRCEFDPPLT---F-TGFPCLRSLNLHQVL--VAPEAIESLISSCP   73 (311)
Q Consensus         1 ~~v~~L~l~~~~~-~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~---~-~~l~~L~~L~L~~~~--~~~~~l~~ll~~cp   73 (311)
                      +++++|+|.++.. ..+.+---+.+|+.|..|+|+.|.+..+..   . .--+.|+.|+|+++.  +...++.-+...||
T Consensus       234 ~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp  313 (419)
T KOG2120|consen  234 SNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCP  313 (419)
T ss_pred             ccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCC
Confidence            3677777776643 112222334578999999999887642211   1 124789999999886  55668888899999


Q ss_pred             ccccccccccccee-----EEEeCCCceEEEeeceee-----eeeecCCCCcceeEEEEEEccccchhhcccccchHHHH
Q 042404           74 LLESLSLSYFDSLD-----LNICAPELKYLYLEGEFK-----DIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKI  143 (311)
Q Consensus        74 ~Le~L~l~~c~~~~-----~~i~~~~L~~L~i~~~~~-----~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~  143 (311)
                      +|.+|+|++|..+.     .....+.|+++.++.|+.     -+.+..+|+|+++++.++..+.           ++.-+
T Consensus       314 ~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLdv~g~vsdt-----------~mel~  382 (419)
T KOG2120|consen  314 NLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLDVFGCVSDT-----------TMELL  382 (419)
T ss_pred             ceeeeccccccccCchHHHHHHhcchheeeehhhhcCCChHHeeeeccCcceEEEEeccccCch-----------HHHHH
Confidence            99999999997654     334567899999999853     2567799999999998876542           33444


Q ss_pred             hcCCCcceEE
Q 042404          144 LGGVPHLEKL  153 (311)
Q Consensus       144 l~~l~~l~~L  153 (311)
                      ...+|+++.=
T Consensus       383 ~e~~~~lkin  392 (419)
T KOG2120|consen  383 KEMLSHLKIN  392 (419)
T ss_pred             HHhCcccccc
Confidence            4566665543

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=98.06  E-value=2.1e-07  Score=81.86  Aligned_cols=102  Identities=22%  Similarity=0.164  Sum_probs=78.5

Q ss_pred             ccCCCCcEEEccceeeCCCC---CCCCCCcccEEEeeeeeeC-hHHHHHHHhcCcccccccccccccee-----EEEeCC
Q 042404           23 FNCRKLTRLELFRCEFDPPL---TFTGFPCLRSLNLHQVLVA-PEAIESLISSCPLLESLSLSYFDSLD-----LNICAP   93 (311)
Q Consensus        23 ~~~~~L~~L~L~~~~l~~~~---~~~~l~~L~~L~L~~~~~~-~~~l~~ll~~cp~Le~L~l~~c~~~~-----~~i~~~   93 (311)
                      .+.++|+...|..+.+..+.   ....|++++.|+|+.+-+. +..+.++....|+||.|.++.+....     ..-..+
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~  197 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLS  197 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhh
Confidence            34678999999998877544   3457999999999998864 57788888999999999999876322     444667


Q ss_pred             CceEEEeece-eee----eeecCCCCcceeEEEEEE
Q 042404           94 ELKYLYLEGE-FKD----IHLESTPLLVSMSIAMYM  124 (311)
Q Consensus        94 ~L~~L~i~~~-~~~----~~i~~~p~L~~l~l~~~~  124 (311)
                      +|+.|.+.+| +..    ......|+|+.+++..+.
T Consensus       198 ~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~  233 (505)
T KOG3207|consen  198 HLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANE  233 (505)
T ss_pred             hhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhccc
Confidence            8999999987 332    123488999999998774

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.05  E-value=8.2e-07  Score=70.54  Aligned_cols=78  Identities=27%  Similarity=0.296  Sum_probs=22.9

Q ss_pred             ceEEEEEeCCCeeeecCCCcc-cCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            3 IRELVLELGEGEWFRVPSCLF-NCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         3 v~~L~l~~~~~~~~~lp~~~~-~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      +++|+|+.....  .+ ..+. .+.+|+.|+|++|.+....++..+++|++|.++++.++.-. +.+..+||+|++|.+.
T Consensus        21 ~~~L~L~~n~I~--~I-e~L~~~l~~L~~L~Ls~N~I~~l~~l~~L~~L~~L~L~~N~I~~i~-~~l~~~lp~L~~L~L~   96 (175)
T PF14580_consen   21 LRELNLRGNQIS--TI-ENLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSIS-EGLDKNLPNLQELYLS   96 (175)
T ss_dssp             ------------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-C-HHHHHH-TT--EEE-T
T ss_pred             cccccccccccc--cc-cchhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccc-cchHHhCCcCCEEECc
Confidence            455666555331  11 2344 35677788888877765556667778888888877765421 1223457777777777


Q ss_pred             ccc
Q 042404           82 YFD   84 (311)
Q Consensus        82 ~c~   84 (311)
                      ++.
T Consensus        97 ~N~   99 (175)
T PF14580_consen   97 NNK   99 (175)
T ss_dssp             TS-
T ss_pred             CCc
Confidence            654

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=97.98  E-value=1e-07  Score=73.87  Aligned_cols=159  Identities=22%  Similarity=0.229  Sum_probs=104.6

Q ss_pred             CCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCCceEE
Q 042404           20 SCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYL   98 (311)
Q Consensus        20 ~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~L~~L   98 (311)
                      +.++++++.++|.|+++.++ .|+.++.+.+|+.|+++++.+++  ++.-+++.|.|+.|.+...+-             
T Consensus        27 ~gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~--lp~~issl~klr~lnvgmnrl-------------   91 (264)
T KOG0617|consen   27 PGLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEE--LPTSISSLPKLRILNVGMNRL-------------   91 (264)
T ss_pred             ccccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhh--cChhhhhchhhhheecchhhh-------------
Confidence            34788899999999999886 56778899999999999997654  455577888888887774321             


Q ss_pred             EeeceeeeeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccc
Q 042404           99 YLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNH  178 (311)
Q Consensus        99 ~i~~~~~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~  178 (311)
                      .    .....++..|.|+.+++.++...+.          .+..-+-.+..++-|++..+..++     .|..++ ++.+
T Consensus        92 ~----~lprgfgs~p~levldltynnl~e~----------~lpgnff~m~tlralyl~dndfe~-----lp~dvg-~lt~  151 (264)
T KOG0617|consen   92 N----ILPRGFGSFPALEVLDLTYNNLNEN----------SLPGNFFYMTTLRALYLGDNDFEI-----LPPDVG-KLTN  151 (264)
T ss_pred             h----cCccccCCCchhhhhhccccccccc----------cCCcchhHHHHHHHHHhcCCCccc-----CChhhh-hhcc
Confidence            0    0112346788888888887765431          011112244556777776664443     233333 3555


Q ss_pred             cceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCC
Q 042404          179 LKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNT  219 (311)
Q Consensus       179 L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~  219 (311)
                      |+-|.+   .-+   ++-.++.-++....|++|+|+++...
T Consensus       152 lqil~l---rdn---dll~lpkeig~lt~lrelhiqgnrl~  186 (264)
T KOG0617|consen  152 LQILSL---RDN---DLLSLPKEIGDLTRLRELHIQGNRLT  186 (264)
T ss_pred             eeEEee---ccC---chhhCcHHHHHHHHHHHHhcccceee
Confidence            555554   222   34577888888899999999987654

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.93  E-value=4.2e-06  Score=71.85  Aligned_cols=189  Identities=20%  Similarity=0.261  Sum_probs=115.6

Q ss_pred             CCcccCCCCcEEEccceeeC-----CCC-------CCCCCCcccEEEeeeeeeCh---HHHHHHHhcCcccccccccccc
Q 042404           20 SCLFNCRKLTRLELFRCEFD-----PPL-------TFTGFPCLRSLNLHQVLVAP---EAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        20 ~~~~~~~~L~~L~L~~~~l~-----~~~-------~~~~l~~L~~L~L~~~~~~~---~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ..+.+-+.|+.-+++.....     .|+       ++..+|.|++|+|+.+.+..   +.+..++++|..|++|.|..|.
T Consensus        52 ~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~G  131 (382)
T KOG1909|consen   52 KVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCG  131 (382)
T ss_pred             HHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCC
Confidence            44455567777777754322     122       23467899999999999875   4678889999999999999996


Q ss_pred             cee-----------------EEEeCCCceEEEeece-eee-------eeecCCCCcceeEEEEEEccccchhhcccccch
Q 042404           85 SLD-----------------LNICAPELKYLYLEGE-FKD-------IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCN  139 (311)
Q Consensus        85 ~~~-----------------~~i~~~~L~~L~i~~~-~~~-------~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~  139 (311)
                      .-.                 ..-+.|.||.+....+ +..       -.+...|.|+.+.+..+....       .....
T Consensus       132 lg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~-------eG~~a  204 (382)
T KOG1909|consen  132 LGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRP-------EGVTA  204 (382)
T ss_pred             CChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccC-------chhHH
Confidence            311                 2334567888877764 111       123456788888776654321       01122


Q ss_pred             HHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHH-hcCCCcceEEEEecc
Q 042404          140 FLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLI-TNSPNLKELHISGSS  217 (311)
Q Consensus       140 ~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l-~~~p~L~~L~i~~~~  217 (311)
                      ...-+..+++|+.|++.-++.+.-.. .........+++|+.|.+.. +.-...+...+..-+ +..|.|+.|.+.++.
T Consensus       205 l~eal~~~~~LevLdl~DNtft~egs-~~LakaL~s~~~L~El~l~d-cll~~~Ga~a~~~al~~~~p~L~vl~l~gNe  281 (382)
T KOG1909|consen  205 LAEALEHCPHLEVLDLRDNTFTLEGS-VALAKALSSWPHLRELNLGD-CLLENEGAIAFVDALKESAPSLEVLELAGNE  281 (382)
T ss_pred             HHHHHHhCCcceeeecccchhhhHHH-HHHHHHhcccchheeecccc-cccccccHHHHHHHHhccCCCCceeccCcch
Confidence            34446788888888888776542110 00111122477788888833 332323444444443 457888888887664

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=97.84  E-value=1e-07  Score=87.48  Aligned_cols=202  Identities=16%  Similarity=0.171  Sum_probs=102.3

Q ss_pred             ceEEEEEeCCCeeeecCCCcc-cCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccc
Q 042404            3 IRELVLELGEGEWFRVPSCLF-NCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSL   80 (311)
Q Consensus         3 v~~L~l~~~~~~~~~lp~~~~-~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l   80 (311)
                      .-.|.|....+  -.+|.+++ +.+.|-.|+|++|++. .|+-...+.+|++|.|+++.+..-.+.+ +-+..+|+.|++
T Consensus       128 ~iVLNLS~N~I--etIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQ-LPsmtsL~vLhm  204 (1255)
T KOG0444|consen  128 SIVLNLSYNNI--ETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQ-LPSMTSLSVLHM  204 (1255)
T ss_pred             cEEEEcccCcc--ccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhc-Cccchhhhhhhc
Confidence            33445444443  46777765 5788888899988885 5566777888888888888665443433 223444555555


Q ss_pred             ccccc-ee---EEE-eCCCceEEEeece-eeee--eecCCCCcceeEEEEEEccccch------hhcc-----cccchHH
Q 042404           81 SYFDS-LD---LNI-CAPELKYLYLEGE-FKDI--HLESTPLLVSMSIAMYMTDDIAE------HFEQ-----SSSCNFL  141 (311)
Q Consensus        81 ~~c~~-~~---~~i-~~~~L~~L~i~~~-~~~~--~i~~~p~L~~l~l~~~~~~~~~~------~~~~-----~~~~~~~  141 (311)
                      ++-.- ..   -.+ +..+|+.+.++.+ .+.+  .+...++|+++.++++...+...      +.+.     ..-..+.
T Consensus       205 s~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~LP  284 (1255)
T KOG0444|consen  205 SNTQRTLDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTVLP  284 (1255)
T ss_pred             ccccchhhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceeeeeccHHHHhhhhhhccccchhccch
Confidence            54210 00   111 1124555555443 1211  23356666666666554332210      0000     0001223


Q ss_pred             HHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          142 KILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       142 ~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      .-+..+++|+.|....+.+.+   ...|++++ ++.+|+.+...   .+   .++.++.-+..|+.|++|.+..+.
T Consensus       285 ~avcKL~kL~kLy~n~NkL~F---eGiPSGIG-KL~~Levf~aa---nN---~LElVPEglcRC~kL~kL~L~~Nr  350 (1255)
T KOG0444|consen  285 DAVCKLTKLTKLYANNNKLTF---EGIPSGIG-KLIQLEVFHAA---NN---KLELVPEGLCRCVKLQKLKLDHNR  350 (1255)
T ss_pred             HHHhhhHHHHHHHhccCcccc---cCCccchh-hhhhhHHHHhh---cc---ccccCchhhhhhHHHHHhcccccc
Confidence            444566777777776665443   22344333 34444433331   11   123455566667777777666443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.81  E-value=3.6e-06  Score=70.88  Aligned_cols=186  Identities=18%  Similarity=0.156  Sum_probs=106.8

Q ss_pred             CceEEEEEeCCC-eeeecCCCcccCCCCcEEEccceeeCCC-CCC-CCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEG-EWFRVPSCLFNCRKLTRLELFRCEFDPP-LTF-TGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~-~~~~lp~~~~~~~~L~~L~L~~~~l~~~-~~~-~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      +|+++||..... +|..+-+-+-.++.|+.|+|+.|.+..+ ... ....+|++|.|.+..+.+......+...|.+++|
T Consensus        72 ~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtel  151 (418)
T KOG2982|consen   72 DVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTEL  151 (418)
T ss_pred             hhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhhhh
Confidence            567777765542 4444444444677888888888877532 222 2456888888888888887788888888888888


Q ss_pred             ccccccceeEEEeCCCceEEEeec-eeeeeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEee
Q 042404           79 SLSYFDSLDLNICAPELKYLYLEG-EFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYI  157 (311)
Q Consensus        79 ~l~~c~~~~~~i~~~~L~~L~i~~-~~~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~  157 (311)
                      +++.+          ++|-+.+.. |...+    .|.+..+....|....+         .+.-++-...|++..+-++.
T Consensus       152 HmS~N----------~~rq~n~Dd~c~e~~----s~~v~tlh~~~c~~~~w---------~~~~~l~r~Fpnv~sv~v~e  208 (418)
T KOG2982|consen  152 HMSDN----------SLRQLNLDDNCIEDW----STEVLTLHQLPCLEQLW---------LNKNKLSRIFPNVNSVFVCE  208 (418)
T ss_pred             hhccc----------hhhhhcccccccccc----chhhhhhhcCCcHHHHH---------HHHHhHHhhcccchheeeec
Confidence            88864          344444333 11111    11222222222211100         01123334568888888888


Q ss_pred             eEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          158 YFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      +.++......-    ...||.+.-|.+...+..+   |.+ ..-|..+|.|..|.+.-++.
T Consensus       209 ~PlK~~s~ek~----se~~p~~~~LnL~~~~ids---was-vD~Ln~f~~l~dlRv~~~Pl  261 (418)
T KOG2982|consen  209 GPLKTESSEKG----SEPFPSLSCLNLGANNIDS---WAS-VDALNGFPQLVDLRVSENPL  261 (418)
T ss_pred             Ccccchhhccc----CCCCCcchhhhhccccccc---HHH-HHHHcCCchhheeeccCCcc
Confidence            87775443211    1235555556663322333   323 35578899999999886543

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=97.80  E-value=2.8e-06  Score=74.53  Aligned_cols=263  Identities=18%  Similarity=0.201  Sum_probs=153.8

Q ss_pred             ceEEEEEeCCC-eeeecCCCcccCCCCcEEEccceee-CCC---CCCCCCCcccEEEeeeee-eChHHHHHHHhcCcccc
Q 042404            3 IRELVLELGEG-EWFRVPSCLFNCRKLTRLELFRCEF-DPP---LTFTGFPCLRSLNLHQVL-VAPEAIESLISSCPLLE   76 (311)
Q Consensus         3 v~~L~l~~~~~-~~~~lp~~~~~~~~L~~L~L~~~~l-~~~---~~~~~l~~L~~L~L~~~~-~~~~~l~~ll~~cp~Le   76 (311)
                      +|+|.++.++. +.-.+=....+|++++.|.+.+|.. ++-   +....++.|+.|.|..|. +++..+..+-.+||+|+
T Consensus       140 lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~  219 (483)
T KOG4341|consen  140 LKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKLK  219 (483)
T ss_pred             cccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhHH
Confidence            56677766542 1122333445799999999999873 321   113468999999999965 78888888888999999


Q ss_pred             cccccccccee------EEEeCCCceEEEeeceeee----e-ee-cCCCCcceeEEEEEEccc-cc--------h--hh-
Q 042404           77 SLSLSYFDSLD------LNICAPELKYLYLEGEFKD----I-HL-ESTPLLVSMSIAMYMTDD-IA--------E--HF-  132 (311)
Q Consensus        77 ~L~l~~c~~~~------~~i~~~~L~~L~i~~~~~~----~-~i-~~~p~L~~l~l~~~~~~~-~~--------~--~~-  132 (311)
                      +|.++.|....      +.-....++.+...||...    + .+ ..++.+.++++..+.... .+        .  .+ 
T Consensus       220 ~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l  299 (483)
T KOG4341|consen  220 YLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHALQVL  299 (483)
T ss_pred             HhhhccCchhhcCcchHHhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccchHHHHHhhhhhHhhhh
Confidence            99999997543      2223334666655565321    1 11 144555555543332110 00        0  00 


Q ss_pred             c-----ccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCC
Q 042404          133 E-----QSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPN  207 (311)
Q Consensus       133 ~-----~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~  207 (311)
                      .     +..+..++.+..+.++|+.|.+....-  +.... -..+....+.|+.|.+.......  + ..+..+-.+||.
T Consensus       300 ~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~--fsd~~-ft~l~rn~~~Le~l~~e~~~~~~--d-~tL~sls~~C~~  373 (483)
T KOG4341|consen  300 CYSSCTDITDEVLWALGQHCHNLQVLELSGCQQ--FSDRG-FTMLGRNCPHLERLDLEECGLIT--D-GTLASLSRNCPR  373 (483)
T ss_pred             cccCCCCCchHHHHHHhcCCCceEEEeccccch--hhhhh-hhhhhcCChhhhhhcccccceeh--h-hhHhhhccCCch
Confidence            0     123345677777889999998876531  11100 01234457778888884432222  1 147778889999


Q ss_pred             cceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEeecCCcchHHHHHHHHccCcccceEEEEecc
Q 042404          208 LKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCT  281 (311)
Q Consensus       208 L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~~~g~~~~~~l~~~ll~~a~~Le~l~i~~~~  281 (311)
                      |++|.++.+..-..    ......+   ...|.+.+|..+++.+....   -+-+-..+.+++.||++.+...-
T Consensus       374 lr~lslshce~itD----~gi~~l~---~~~c~~~~l~~lEL~n~p~i---~d~~Le~l~~c~~Leri~l~~~q  437 (483)
T KOG4341|consen  374 LRVLSLSHCELITD----EGIRHLS---SSSCSLEGLEVLELDNCPLI---TDATLEHLSICRNLERIELIDCQ  437 (483)
T ss_pred             hccCChhhhhhhhh----hhhhhhh---hccccccccceeeecCCCCc---hHHHHHHHhhCcccceeeeechh
Confidence            99999985533211    0011111   13356777777777654433   23333445788899998877653

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=97.74  E-value=4e-07  Score=86.93  Aligned_cols=168  Identities=18%  Similarity=0.139  Sum_probs=85.3

Q ss_pred             CCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee---EEEeCCCceEEEee
Q 042404           26 RKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD---LNICAPELKYLYLE  101 (311)
Q Consensus        26 ~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~---~~i~~~~L~~L~i~  101 (311)
                      .+|++++++++.+. .|.....+++|+.+...++.+.  .+..-+....+|+.|.+..|+.-.   ....-.+|++|.+.
T Consensus       241 ~nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~N~l~--~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~  318 (1081)
T KOG0618|consen  241 LNLQYLDISHNNLSNLPEWIGACANLEALNANHNRLV--ALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQ  318 (1081)
T ss_pred             ccceeeecchhhhhcchHHHHhcccceEecccchhHH--hhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeeh
Confidence            46777777776654 3444556777777777766552  233334445556666665554211   11112244455444


Q ss_pred             ce----eeeeee-------------------------cCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceE
Q 042404          102 GE----FKDIHL-------------------------ESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEK  152 (311)
Q Consensus       102 ~~----~~~~~i-------------------------~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~  152 (311)
                      ..    +..-.+                         ...+.|..+++.++...           ...+..+.+..+|+.
T Consensus       319 ~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Lt-----------d~c~p~l~~~~hLKV  387 (1081)
T KOG0618|consen  319 SNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLT-----------DSCFPVLVNFKHLKV  387 (1081)
T ss_pred             hccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCccc-----------ccchhhhccccceee
Confidence            42    100000                         01222222222222221           244677788888888


Q ss_pred             EEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          153 LVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       153 L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      |.|.++.+..     .|.....++..|++|.+.+   +   .+..++.-+-+|+.|++|..+.+.
T Consensus       388 LhLsyNrL~~-----fpas~~~kle~LeeL~LSG---N---kL~~Lp~tva~~~~L~tL~ahsN~  441 (1081)
T KOG0618|consen  388 LHLSYNRLNS-----FPASKLRKLEELEELNLSG---N---KLTTLPDTVANLGRLHTLRAHSNQ  441 (1081)
T ss_pred             eeeccccccc-----CCHHHHhchHHhHHHhccc---c---hhhhhhHHHHhhhhhHHHhhcCCc
Confidence            8888886653     3332233566666666622   2   233555556666666666665543

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=97.74  E-value=7.6e-06  Score=53.21  Aligned_cols=35  Identities=34%  Similarity=0.562  Sum_probs=17.1

Q ss_pred             cCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeee
Q 042404           24 NCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQV   58 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~   58 (311)
                      .+++|++|++++|.+.  .+..+.++++|+.|+++++
T Consensus        23 ~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen   23 NLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             CCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            3455555555555443  2233445555555555444

...

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=97.70  E-value=6.1e-05  Score=73.29  Aligned_cols=103  Identities=17%  Similarity=0.148  Sum_probs=56.9

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEe-C
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNIC-A   92 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~-~   92 (311)
                      ...+|..+.  ++|+.|+|++|.+. .|..+  +++|++|+++++.+..  ++.-+  .+.|+.|.+++|....+... .
T Consensus       190 LtsLP~~Ip--~~L~~L~Ls~N~LtsLP~~l--~~nL~~L~Ls~N~Lts--LP~~l--~~~L~~L~Ls~N~L~~LP~~l~  261 (754)
T PRK15370        190 LTTIPACIP--EQITTLILDNNELKSLPENL--QGNIKTLYANSNQLTS--IPATL--PDTIQEMELSINRITELPERLP  261 (754)
T ss_pred             cCcCCcccc--cCCcEEEecCCCCCcCChhh--ccCCCEEECCCCcccc--CChhh--hccccEEECcCCccCcCChhHh
Confidence            346676553  47888888888775 33322  4578888888876653  22211  24677777777653321100 1


Q ss_pred             CCceEEEeece-eeeeeecCCCCcceeEEEEEEc
Q 042404           93 PELKYLYLEGE-FKDIHLESTPLLVSMSIAMYMT  125 (311)
Q Consensus        93 ~~L~~L~i~~~-~~~~~i~~~p~L~~l~l~~~~~  125 (311)
                      .+|+.|.++++ ...+.-.-.++|+.++++.+..
T Consensus       262 s~L~~L~Ls~N~L~~LP~~l~~sL~~L~Ls~N~L  295 (754)
T PRK15370        262 SALQSLDLFHNKISCLPENLPEELRYLSVYDNSI  295 (754)
T ss_pred             CCCCEEECcCCccCccccccCCCCcEEECCCCcc
Confidence            35777777654 2222111224667776665543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=97.65  E-value=2.5e-05  Score=75.97  Aligned_cols=62  Identities=10%  Similarity=0.077  Sum_probs=34.7

Q ss_pred             CcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCC
Q 042404          148 PHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNT  219 (311)
Q Consensus       148 ~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~  219 (311)
                      ++|+.|++.++.+..     .|..+   ..+|+.|.+....+....  ..++.++..+|.+..|.+..++..
T Consensus       367 ~~L~~LdLs~N~Lt~-----LP~~l---~~sL~~LdLs~N~L~~LP--~sl~~~~~~~~~l~~L~L~~Npls  428 (754)
T PRK15370        367 PTITTLDVSRNALTN-----LPENL---PAALQIMQASRNNLVRLP--ESLPHFRGEGPQPTRIIVEYNPFS  428 (754)
T ss_pred             CCcCEEECCCCcCCC-----CCHhH---HHHHHHHhhccCCcccCc--hhHHHHhhcCCCccEEEeeCCCcc
Confidence            456777776664432     22111   235666666332222111  156777778899999998877653

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=97.60  E-value=2.2e-06  Score=66.50  Aligned_cols=69  Identities=26%  Similarity=0.366  Sum_probs=54.2

Q ss_pred             eeeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           14 EWFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        14 ~~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ....+|+.+....+|++|++.++.+. .|..++++|.|+.|++.-+++..  +++=+.++|.||.|++.+..
T Consensus        44 Kl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~--lprgfgs~p~levldltynn  113 (264)
T KOG0617|consen   44 KLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNI--LPRGFGSFPALEVLDLTYNN  113 (264)
T ss_pred             ceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhc--CccccCCCchhhhhhccccc
Confidence            34678999999999999999999886 57778889999999888665422  33336688999999998865

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=97.58  E-value=2.1e-05  Score=68.82  Aligned_cols=56  Identities=27%  Similarity=0.399  Sum_probs=41.6

Q ss_pred             EEEEEeCCCeeeecCCCcc-cCCCCcEEEccceeeC--CCCCCCCCCcccEEEeee-eeeCh
Q 042404            5 ELVLELGEGEWFRVPSCLF-NCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQ-VLVAP   62 (311)
Q Consensus         5 ~L~l~~~~~~~~~lp~~~~-~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~-~~~~~   62 (311)
                      +++|+-.++  ..+|...| ..++||+|+|+.|.+.  .|.+|.++++|.+|.+.+ +.|++
T Consensus        71 eirLdqN~I--~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~  130 (498)
T KOG4237|consen   71 EIRLDQNQI--SSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITD  130 (498)
T ss_pred             EEEeccCCc--ccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhh
Confidence            344444433  56776655 5899999999999876  577788999999999988 66653

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.55  E-value=3e-05  Score=74.71  Aligned_cols=199  Identities=24%  Similarity=0.312  Sum_probs=131.5

Q ss_pred             CcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee-----E-EE-------------eCCCceEEEeece--ee-
Q 042404           48 PCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD-----L-NI-------------CAPELKYLYLEGE--FK-  105 (311)
Q Consensus        48 ~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~-----~-~i-------------~~~~L~~L~i~~~--~~-  105 (311)
                      -++++.++.++......+.. +. +..|++|.|..+...+     . .+             +-.+|++|+++|.  +. 
T Consensus        60 f~ltki~l~~~~~~~~~~~~-l~-~~~L~sl~LGnl~~~k~~~~~~~~idi~~lL~~~Ln~~sr~nL~~LdI~G~~~~s~  137 (699)
T KOG3665|consen   60 FNLTKIDLKNVTLQHQTLEM-LR-KQDLESLKLGNLDKIKQDYLDDATIDIISLLKDLLNEESRQNLQHLDISGSELFSN  137 (699)
T ss_pred             heeEEeeccceecchhHHHH-Hh-hccccccCCcchHhhhhhhhhhhhccHHHHHHHHHhHHHHHhhhhcCccccchhhc
Confidence            35677777777666665553 33 3339999998775433     0 11             1247999999984  21 


Q ss_pred             ee--eec-CCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceE
Q 042404          106 DI--HLE-STPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVI  182 (311)
Q Consensus       106 ~~--~i~-~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L  182 (311)
                      .+  .++ .+|+|+++.+.+.....          .++..+..++|+|..|++++..++.++      ++ ..++||+.|
T Consensus       138 ~W~~kig~~LPsL~sL~i~~~~~~~----------~dF~~lc~sFpNL~sLDIS~TnI~nl~------GI-S~LknLq~L  200 (699)
T KOG3665|consen  138 GWPKKIGTMLPSLRSLVISGRQFDN----------DDFSQLCASFPNLRSLDISGTNISNLS------GI-SRLKNLQVL  200 (699)
T ss_pred             cHHHHHhhhCcccceEEecCceecc----------hhHHHHhhccCccceeecCCCCccCcH------HH-hccccHHHH
Confidence            22  122 79999999998765432          246778899999999999988766431      23 368899999


Q ss_pred             EEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEeecCCcchHHHH
Q 042404          183 ELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELI  262 (311)
Q Consensus       183 ~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~~~g~~~~~~l~  262 (311)
                      .+..+.+.+..+   +.. |-+..+|+.|+|+........  .....|.+..    -.+++|+.+   +..|..-..+++
T Consensus       201 ~mrnLe~e~~~~---l~~-LF~L~~L~vLDIS~~~~~~~~--~ii~qYlec~----~~LpeLrfL---DcSgTdi~~~~l  267 (699)
T KOG3665|consen  201 SMRNLEFESYQD---LID-LFNLKKLRVLDISRDKNNDDT--KIIEQYLECG----MVLPELRFL---DCSGTDINEEIL  267 (699)
T ss_pred             hccCCCCCchhh---HHH-HhcccCCCeeeccccccccch--HHHHHHHHhc----ccCccccEE---ecCCcchhHHHH
Confidence            997766666433   323 335889999999977654331  1122333221    135555555   455888888999


Q ss_pred             HHHHccCcccceEEEE
Q 042404          263 KFLLSNSPVLEIMSIT  278 (311)
Q Consensus       263 ~~ll~~a~~Le~l~i~  278 (311)
                      +.+++..+.|+.+.+.
T Consensus       268 e~ll~sH~~L~~i~~~  283 (699)
T KOG3665|consen  268 EELLNSHPNLQQIAAL  283 (699)
T ss_pred             HHHHHhCccHhhhhhh
Confidence            9999999999988854

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=97.47  E-value=1.1e-05  Score=64.14  Aligned_cols=78  Identities=24%  Similarity=0.288  Sum_probs=20.3

Q ss_pred             cccCCCCcEEEccceeeCCCCCCC-CCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE----EEeCCCce
Q 042404           22 LFNCRKLTRLELFRCEFDPPLTFT-GFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL----NICAPELK   96 (311)
Q Consensus        22 ~~~~~~L~~L~L~~~~l~~~~~~~-~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~----~i~~~~L~   96 (311)
                      +-++..++.|+|.++.++....++ .+.+|+.|+|++|.+..  ++. +..++.|++|.++++.-..+    .-..|+|+
T Consensus        15 ~~n~~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I~~--l~~-l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~   91 (175)
T PF14580_consen   15 YNNPVKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQITK--LEG-LPGLPRLKTLDLSNNRISSISEGLDKNLPNLQ   91 (175)
T ss_dssp             ---------------------S--TT-TT--EEE-TTS--S----TT-----TT--EEE--SS---S-CHHHHHH-TT--
T ss_pred             cccccccccccccccccccccchhhhhcCCCEEECCCCCCcc--ccC-ccChhhhhhcccCCCCCCccccchHHhCCcCC
Confidence            456678999999999988655565 58899999999998765  221 44688899998887653221    11235555


Q ss_pred             EEEeec
Q 042404           97 YLYLEG  102 (311)
Q Consensus        97 ~L~i~~  102 (311)
                      .|.+.+
T Consensus        92 ~L~L~~   97 (175)
T PF14580_consen   92 ELYLSN   97 (175)
T ss_dssp             EEE-TT
T ss_pred             EEECcC
Confidence            555554

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.45  E-value=0.00015  Score=62.60  Aligned_cols=97  Identities=18%  Similarity=0.225  Sum_probs=44.4

Q ss_pred             ccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEeec-C
Q 042404          176 YNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDIS-G  254 (311)
Q Consensus       176 f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~~~-g  254 (311)
                      .+.|+.+.+.. +.....++..+..-+..||+|+.|++..+.....     .......   .-+..++|+++.+.... -
T Consensus       184 ~~~leevr~~q-N~I~~eG~~al~eal~~~~~LevLdl~DNtft~e-----gs~~Lak---aL~s~~~L~El~l~dcll~  254 (382)
T KOG1909|consen  184 HPTLEEVRLSQ-NGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLE-----GSVALAK---ALSSWPHLRELNLGDCLLE  254 (382)
T ss_pred             ccccceEEEec-ccccCchhHHHHHHHHhCCcceeeecccchhhhH-----HHHHHHH---Hhcccchheeecccccccc
Confidence            34555555522 2112234445555566666666666665543321     0000000   11223455555544332 2


Q ss_pred             CcchHHHHHHHHccCcccceEEEEecc
Q 042404          255 VPHEMELIKFLLSNSPVLEIMSITPCT  281 (311)
Q Consensus       255 ~~~~~~l~~~ll~~a~~Le~l~i~~~~  281 (311)
                      +..-..+++.+-+.+|.|+.+.+-+++
T Consensus       255 ~~Ga~a~~~al~~~~p~L~vl~l~gNe  281 (382)
T KOG1909|consen  255 NEGAIAFVDALKESAPSLEVLELAGNE  281 (382)
T ss_pred             cccHHHHHHHHhccCCCCceeccCcch
Confidence            233455666666666666666555443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=97.44  E-value=0.00037  Score=67.90  Aligned_cols=100  Identities=20%  Similarity=0.200  Sum_probs=57.1

Q ss_pred             eeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCC
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPE   94 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~   94 (311)
                      ...+|.++..  +|+.|.+..|.++..+.  ..++|++|+|++|.++.  ++.   ..++|++|++..+....+....++
T Consensus       213 LtsLP~~l~~--~L~~L~L~~N~Lt~LP~--lp~~Lk~LdLs~N~Lts--LP~---lp~sL~~L~Ls~N~L~~Lp~lp~~  283 (788)
T PRK15387        213 LTTLPDCLPA--HITTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTS--LPV---LPPGLLELSIFSNPLTHLPALPSG  283 (788)
T ss_pred             CCcCCcchhc--CCCEEEccCCcCCCCCC--CCCCCcEEEecCCccCc--ccC---cccccceeeccCCchhhhhhchhh
Confidence            3467877653  78888888887763222  35788888888887653  222   246777777776643222111235


Q ss_pred             ceEEEeece-eeeeeecCCCCcceeEEEEEE
Q 042404           95 LKYLYLEGE-FKDIHLESTPLLVSMSIAMYM  124 (311)
Q Consensus        95 L~~L~i~~~-~~~~~i~~~p~L~~l~l~~~~  124 (311)
                      |+.|.+.++ ...+.. ..|+|+.++++.+.
T Consensus       284 L~~L~Ls~N~Lt~LP~-~p~~L~~LdLS~N~  313 (788)
T PRK15387        284 LCKLWIFGNQLTSLPV-LPPGLQELSVSDNQ  313 (788)
T ss_pred             cCEEECcCCccccccc-cccccceeECCCCc
Confidence            666666554 122211 34556666665544

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=97.42  E-value=0.00012  Score=47.44  Aligned_cols=58  Identities=28%  Similarity=0.394  Sum_probs=47.4

Q ss_pred             CCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           26 RKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        26 ~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ++|++|++++|.+.  ++..+.++++|++|+++++.+..- -+..+.++|+|++|.+.+|.
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i-~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSI-PPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEE-ETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCcc-CHHHHcCCCCCCEEeCcCCc
Confidence            47899999999886  345688999999999999988642 22347899999999999874

...

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=97.35  E-value=4e-05  Score=73.70  Aligned_cols=123  Identities=20%  Similarity=0.210  Sum_probs=66.0

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC------------------------CCCCCCCCCcccEEEeee
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD------------------------PPLTFTGFPCLRSLNLHQ   57 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~------------------------~~~~~~~l~~L~~L~L~~   57 (311)
                      +++.+++....  ...+|.++..|.+|+.|+...+++.                        .|+....+.+|++|+|+.
T Consensus       242 nl~~~dis~n~--l~~lp~wi~~~~nle~l~~n~N~l~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~  319 (1081)
T KOG0618|consen  242 NLQYLDISHNN--LSNLPEWIGACANLEALNANHNRLVALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQS  319 (1081)
T ss_pred             cceeeecchhh--hhcchHHHHhcccceEecccchhHHhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehh
Confidence            34455544432  3466777777777777766665432                        244455688999999999


Q ss_pred             eeeChH---H-------HHHHHhcCccccc--------------ccccccccee----EEEeCCCceEEEeece----ee
Q 042404           58 VLVAPE---A-------IESLISSCPLLES--------------LSLSYFDSLD----LNICAPELKYLYLEGE----FK  105 (311)
Q Consensus        58 ~~~~~~---~-------l~~ll~~cp~Le~--------------L~l~~c~~~~----~~i~~~~L~~L~i~~~----~~  105 (311)
                      +.+..-   .       +..+=..|-.|+.              |.+.++..-+    +-..+++||.|++..+    |+
T Consensus       320 N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fp  399 (1081)
T KOG0618|consen  320 NNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFP  399 (1081)
T ss_pred             ccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCC
Confidence            886531   0       1111111222222              2222221111    3345567777777664    33


Q ss_pred             eeeecCCCCcceeEEEEEEcc
Q 042404          106 DIHLESTPLLVSMSIAMYMTD  126 (311)
Q Consensus       106 ~~~i~~~p~L~~l~l~~~~~~  126 (311)
                      ...+...+.|++++++++...
T Consensus       400 as~~~kle~LeeL~LSGNkL~  420 (1081)
T KOG0618|consen  400 ASKLRKLEELEELNLSGNKLT  420 (1081)
T ss_pred             HHHHhchHHhHHHhcccchhh
Confidence            333446677777777776644

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.23  E-value=6e-05  Score=72.65  Aligned_cols=60  Identities=28%  Similarity=0.316  Sum_probs=47.6

Q ss_pred             CCCcEEEccceee-C--CCCC-CCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccc
Q 042404           26 RKLTRLELFRCEF-D--PPLT-FTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDS   85 (311)
Q Consensus        26 ~~L~~L~L~~~~l-~--~~~~-~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~   85 (311)
                      .+|++|+++|... .  .|.. ...||+|++|.+.+..+..+++.++..++|+|..|+|+++.-
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI  185 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNI  185 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCc
Confidence            5899999988543 1  2222 236999999999999988888999999999999999998763

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=97.09  E-value=0.00045  Score=67.33  Aligned_cols=70  Identities=17%  Similarity=0.089  Sum_probs=35.2

Q ss_pred             CCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCCceEEEeec
Q 042404           26 RKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEG  102 (311)
Q Consensus        26 ~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~L~~L~i~~  102 (311)
                      .+|+.|+|++|.+...+.  ..++|+.|+|++|.+..  ++.   .-+.|+.|.+.+|....+..-.++|+.|.+++
T Consensus       282 ~~L~~L~Ls~N~Lt~LP~--~p~~L~~LdLS~N~L~~--Lp~---lp~~L~~L~Ls~N~L~~LP~lp~~Lq~LdLS~  351 (788)
T PRK15387        282 SGLCKLWIFGNQLTSLPV--LPPGLQELSVSDNQLAS--LPA---LPSELCKLWAYNNQLTSLPTLPSGLQELSVSD  351 (788)
T ss_pred             hhcCEEECcCCccccccc--cccccceeECCCCcccc--CCC---CcccccccccccCccccccccccccceEecCC
Confidence            356667777766652221  24678888888776653  111   12345555555543221111112455555555

>PF07723 LRR_2: Leucine Rich Repeat; InterPro: IPR013101 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=97.00  E-value=0.00097  Score=34.91  Aligned_cols=25  Identities=40%  Similarity=0.842  Sum_probs=22.4

Q ss_pred             cccEEEeeeeeeChH-HHHHHHhcCc
Q 042404           49 CLRSLNLHQVLVAPE-AIESLISSCP   73 (311)
Q Consensus        49 ~L~~L~L~~~~~~~~-~l~~ll~~cp   73 (311)
                      +||+|+|..+.+.++ .++.++++||
T Consensus         1 sLKtL~L~~v~f~~~~~l~~LlS~CP   26 (26)
T PF07723_consen    1 SLKTLHLDSVVFSDEDSLERLLSGCP   26 (26)
T ss_pred             CCeEEEeeEEEECChhHHHHhhccCc
Confidence            589999999998765 7999999998

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This entry includes some LRRs that fail to be detected by IPR001611 from INTERPRO [, ].

>PLN03150 hypothetical protein; Provisional

Probab=96.98  E-value=0.00043  Score=66.59  Aligned_cols=56  Identities=27%  Similarity=0.285  Sum_probs=32.4

Q ss_pred             CcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           28 LTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        28 L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ++.|+|+++.+.  .|..+..+++|+.|+|+++.+.+. ++..+..+++|+.|+|.++.
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~-iP~~~~~l~~L~~LdLs~N~  477 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGN-IPPSLGSITSLEVLDLSYNS  477 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCc-CChHHhCCCCCCEEECCCCC
Confidence            556666665553  344455666666666666655443 33345566666666666654

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=96.98  E-value=1.3e-05  Score=70.47  Aligned_cols=99  Identities=22%  Similarity=0.215  Sum_probs=73.4

Q ss_pred             CCCcEEEccceeeCCCC----CCCCCCcccEEEeeeee-eChHHHHHHHhcCcccccccccccccee------EEEeCCC
Q 042404           26 RKLTRLELFRCEFDPPL----TFTGFPCLRSLNLHQVL-VAPEAIESLISSCPLLESLSLSYFDSLD------LNICAPE   94 (311)
Q Consensus        26 ~~L~~L~L~~~~l~~~~----~~~~l~~L~~L~L~~~~-~~~~~l~~ll~~cp~Le~L~l~~c~~~~------~~i~~~~   94 (311)
                      ..|+.|.|.+++-....    ...++|+++.|.+.+|. +++..+..+-..|+.|++|.+..|..++      +.-.+|+
T Consensus       138 g~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~k  217 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRK  217 (483)
T ss_pred             cccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhh
Confidence            48999999998743211    24579999999999987 7888888888889999999999998665      3345789


Q ss_pred             ceEEEeeceee----ee--eecCCCCcceeEEEEEE
Q 042404           95 LKYLYLEGEFK----DI--HLESTPLLVSMSIAMYM  124 (311)
Q Consensus        95 L~~L~i~~~~~----~~--~i~~~p~L~~l~l~~~~  124 (311)
                      |+++++++|..    .+  ...++.+++.+...++.
T Consensus       218 L~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~  253 (483)
T KOG4341|consen  218 LKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCL  253 (483)
T ss_pred             HHHhhhccCchhhcCcchHHhccchhhhhhhhcccc
Confidence            99999998731    12  12356666666655543

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=96.97  E-value=4.6e-06  Score=72.96  Aligned_cols=178  Identities=17%  Similarity=0.095  Sum_probs=95.5

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEe--
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNIC--   91 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~--   91 (311)
                      ...+|.+++.|..|..|+.+++.+. .|++++++.+|..|.+.++.+..- .+..+. ...|++|+.....--.+.-+  
T Consensus       126 ~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n~l~~l-~~~~i~-m~~L~~ld~~~N~L~tlP~~lg  203 (565)
T KOG0472|consen  126 LKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEGNKLKAL-PENHIA-MKRLKHLDCNSNLLETLPPELG  203 (565)
T ss_pred             eeecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhccccchhhC-CHHHHH-HHHHHhcccchhhhhcCChhhc
Confidence            4567777777777777777766653 566666777777777777765432 122222 55666665543321111111  


Q ss_pred             -CCCceEEEeecee-ee-eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCC
Q 042404           92 -APELKYLYLEGEF-KD-IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDD  168 (311)
Q Consensus        92 -~~~L~~L~i~~~~-~~-~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~  168 (311)
                       ..+|..|.+..+- .. -.++++..|++++++.+...-           --.+.+..++++..|+++.+.++.     +
T Consensus       204 ~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~g~N~i~~-----------lpae~~~~L~~l~vLDLRdNklke-----~  267 (565)
T KOG0472|consen  204 GLESLELLYLRRNKIRFLPEFPGCSLLKELHVGENQIEM-----------LPAEHLKHLNSLLVLDLRDNKLKE-----V  267 (565)
T ss_pred             chhhhHHHHhhhcccccCCCCCccHHHHHHHhcccHHHh-----------hHHHHhcccccceeeecccccccc-----C
Confidence             1233334333321 00 145566667777665544321           113455678888888888777664     3


Q ss_pred             CCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          169 PGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       169 ~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      |..+. .+.+|..|++..   +   ++.+++.-+++. +|+.|.+++++.
T Consensus       268 Pde~c-lLrsL~rLDlSN---N---~is~Lp~sLgnl-hL~~L~leGNPl  309 (565)
T KOG0472|consen  268 PDEIC-LLRSLERLDLSN---N---DISSLPYSLGNL-HLKFLALEGNPL  309 (565)
T ss_pred             chHHH-HhhhhhhhcccC---C---ccccCCcccccc-eeeehhhcCCch
Confidence            33222 455566666521   1   223555556666 666666666554

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=96.77  E-value=0.00059  Score=40.90  Aligned_cols=35  Identities=23%  Similarity=0.369  Sum_probs=20.6

Q ss_pred             CCcEEEccceeeCCCCC-CCCCCcccEEEeeeeeeC
Q 042404           27 KLTRLELFRCEFDPPLT-FTGFPCLRSLNLHQVLVA   61 (311)
Q Consensus        27 ~L~~L~L~~~~l~~~~~-~~~l~~L~~L~L~~~~~~   61 (311)
                      +|++|+|+++.+...+. +.++++|+.|+++++.++
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~   37 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPIS   37 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCS
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCC
Confidence            56677777666653223 666777777777666554

...

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=96.63  E-value=0.00019  Score=60.83  Aligned_cols=180  Identities=19%  Similarity=0.192  Sum_probs=93.2

Q ss_pred             eecCCCcccCCCCcEEEccceeeCCCCCC-CCCCcccEEEeeeeeeChHH-H---------------------HHHHhcC
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFDPPLTF-TGFPCLRSLNLHQVLVAPEA-I---------------------ESLISSC   72 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~~~~~~-~~l~~L~~L~L~~~~~~~~~-l---------------------~~ll~~c   72 (311)
                      -.+|..+...++|..++++.|.-....++ ..=|.|.+++.++..+++.. +                     -..+.-.
T Consensus       204 ~~l~f~l~~f~~l~~~~~s~~~~~~i~~~~~~kptl~t~~v~~s~~~~~~~l~pe~~~~D~~~~E~~t~~G~~~~~~dTW  283 (490)
T KOG1259|consen  204 NRLSFNLNAFRNLKTLKFSALSTENIVDIELLKPTLQTICVHNTTIQDVPSLLPETILADPSGSEPSTSNGSALVSADTW  283 (490)
T ss_pred             cccccchHHhhhhheeeeeccchhheeceeecCchhheeeeecccccccccccchhhhcCccCCCCCccCCceEEecchH
Confidence            35777777889999999998864322222 24478899998887654310 0                     0001123


Q ss_pred             ccccccccccccc--ee-EEEeCCCceEEEeece-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCC
Q 042404           73 PLLESLSLSYFDS--LD-LNICAPELKYLYLEGE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGV  147 (311)
Q Consensus        73 p~Le~L~l~~c~~--~~-~~i~~~~L~~L~i~~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l  147 (311)
                      ..|++|+++++..  ++ -.--.|.++.|.++.+ ...+ .+..+++|+.++++++....            +..+-..+
T Consensus       284 q~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~------------~~Gwh~KL  351 (490)
T KOG1259|consen  284 QELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAE------------CVGWHLKL  351 (490)
T ss_pred             hhhhhccccccchhhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchhHh------------hhhhHhhh
Confidence            3455555554321  11 0001255555555543 1111 23355666666665544321            12222355


Q ss_pred             CcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          148 PHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       148 ~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      -++++|.+..+.++.++      ++. ++.+|..|.+.+   +...+++. ..-+++.|+||.+.+..++.
T Consensus       352 GNIKtL~La~N~iE~LS------GL~-KLYSLvnLDl~~---N~Ie~lde-V~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  352 GNIKTLKLAQNKIETLS------GLR-KLYSLVNLDLSS---NQIEELDE-VNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             cCEeeeehhhhhHhhhh------hhH-hhhhheeccccc---cchhhHHH-hcccccccHHHHHhhcCCCc
Confidence            56666666655544321      222 466677777632   22222222 24467788888888876654

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=96.39  E-value=0.00062  Score=59.83  Aligned_cols=66  Identities=24%  Similarity=0.201  Sum_probs=45.0

Q ss_pred             eeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccc
Q 042404           14 EWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSY   82 (311)
Q Consensus        14 ~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~   82 (311)
                      ....+|..+..-+  +.++|..|.+.  ++.+|..+++||.|+|+++.|+.-+- +.+.+.+.|-+|.+.+
T Consensus        57 GL~eVP~~LP~~t--veirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p-~AF~GL~~l~~Lvlyg  124 (498)
T KOG4237|consen   57 GLTEVPANLPPET--VEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAP-DAFKGLASLLSLVLYG  124 (498)
T ss_pred             CcccCcccCCCcc--eEEEeccCCcccCChhhccchhhhceecccccchhhcCh-HhhhhhHhhhHHHhhc
Confidence            3455666554444  44566666654  55678999999999999998876422 2356777777777766

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=96.23  E-value=0.00089  Score=59.07  Aligned_cols=246  Identities=17%  Similarity=0.143  Sum_probs=125.0

Q ss_pred             ceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcc---cccc
Q 042404            3 IRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPL---LESL   78 (311)
Q Consensus         3 v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~---Le~L   78 (311)
                      +..|||+-.  ....+|..+.-.++|.+|+++++.+. .|..++++ +|+.|.+.++.+..  +..-+-+|+.   |++|
T Consensus       254 l~vLDLRdN--klke~Pde~clLrsL~rLDlSNN~is~Lp~sLgnl-hL~~L~leGNPlrT--iRr~ii~~gT~~vLKyL  328 (565)
T KOG0472|consen  254 LLVLDLRDN--KLKEVPDEICLLRSLERLDLSNNDISSLPYSLGNL-HLKFLALEGNPLRT--IRREIISKGTQEVLKYL  328 (565)
T ss_pred             ceeeecccc--ccccCchHHHHhhhhhhhcccCCccccCCcccccc-eeeehhhcCCchHH--HHHHHHcccHHHHHHHH
Confidence            334444433  44688998888999999999999886 57778888 89999998886532  3333334443   3333


Q ss_pred             cc-cccccee---------------EEEe---CCCceEEEeece-eeee-----eecCCCCcceeEEEEEEccccchhhc
Q 042404           79 SL-SYFDSLD---------------LNIC---APELKYLYLEGE-FKDI-----HLESTPLLVSMSIAMYMTDDIAEHFE  133 (311)
Q Consensus        79 ~l-~~c~~~~---------------~~i~---~~~L~~L~i~~~-~~~~-----~i~~~p~L~~l~l~~~~~~~~~~~~~  133 (311)
                      .= ..|+++.               ...+   .-+.|.|.+.+. ...+     ....-.-+..+.++.+...+.+....
T Consensus       329 rs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~~qlt~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~  408 (565)
T KOG0472|consen  329 RSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSDKQLTLVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLV  408 (565)
T ss_pred             HHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccccccccCCHHHHHHhhhcceEEEecccchHhhhhhhhH
Confidence            21 1122210               1111   124566666662 1111     11111125555666555444332110


Q ss_pred             ------------ccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHH
Q 042404          134 ------------QSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRL  201 (311)
Q Consensus       134 ------------~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~  201 (311)
                                  ...-.-+...+..+++++.|+++.+.+..     .|..+.. ...|+.|.+   .++..   ..++.+
T Consensus       409 ~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN~Ln~-----LP~e~~~-lv~Lq~Lnl---S~NrF---r~lP~~  476 (565)
T KOG0472|consen  409 ELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNNLLND-----LPEEMGS-LVRLQTLNL---SFNRF---RMLPEC  476 (565)
T ss_pred             HHHHHHHHHHhhcCccccchHHHHhhhcceeeecccchhhh-----cchhhhh-hhhhheecc---ccccc---ccchHH
Confidence                        00001123445677778888877765542     3333332 233555555   23322   244555


Q ss_pred             HhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEeecCCcchHHHHHHHHccCcccceEEEEecc
Q 042404          202 ITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCT  281 (311)
Q Consensus       202 l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~~~g~~~~~~l~~~ll~~a~~Le~l~i~~~~  281 (311)
                      +.-...+|.+-.+.++-..     .          ++..+.+++.+...+.  ..+.++.+-=++.|+++|+.+.+.-.+
T Consensus       477 ~y~lq~lEtllas~nqi~~-----v----------d~~~l~nm~nL~tLDL--~nNdlq~IPp~LgnmtnL~hLeL~gNp  539 (565)
T KOG0472|consen  477 LYELQTLETLLASNNQIGS-----V----------DPSGLKNMRNLTTLDL--QNNDLQQIPPILGNMTNLRHLELDGNP  539 (565)
T ss_pred             HhhHHHHHHHHhccccccc-----c----------ChHHhhhhhhcceecc--CCCchhhCChhhccccceeEEEecCCc
Confidence            4444444444443222111     1          1111222333333333  235566777788899999999988765


Q ss_pred             c
Q 042404          282 F  282 (311)
Q Consensus       282 ~  282 (311)
                      .
T Consensus       540 f  540 (565)
T KOG0472|consen  540 F  540 (565)
T ss_pred             c
Confidence            4

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=95.97  E-value=0.0093  Score=47.94  Aligned_cols=97  Identities=19%  Similarity=0.275  Sum_probs=66.0

Q ss_pred             CCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeCh--HHHHHHHhcCcccccccccccccee-----EEEeCCCceEE
Q 042404           26 RKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAP--EAIESLISSCPLLESLSLSYFDSLD-----LNICAPELKYL   98 (311)
Q Consensus        26 ~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~--~~l~~ll~~cp~Le~L~l~~c~~~~-----~~i~~~~L~~L   98 (311)
                      .....++|+.|.+.....+..+++|.+|.|.++.+..  ..+..   ..|+|..|.+.++..-+     =-..+|+|++|
T Consensus        42 d~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~---~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~L  118 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDT---FLPNLKTLILTNNSIQELGDLDPLASCPKLEYL  118 (233)
T ss_pred             cccceecccccchhhcccCCCccccceEEecCCcceeeccchhh---hccccceEEecCcchhhhhhcchhccCCcccee
Confidence            3566778887776655567788888888888887764  22332   46888888888765322     12356788888


Q ss_pred             Eeece-------eeeeeecCCCCcceeEEEEEEc
Q 042404           99 YLEGE-------FKDIHLESTPLLVSMSIAMYMT  125 (311)
Q Consensus        99 ~i~~~-------~~~~~i~~~p~L~~l~l~~~~~  125 (311)
                      .+-++       +....+...|+|+.+++.....
T Consensus       119 tll~Npv~~k~~YR~yvl~klp~l~~LDF~kVt~  152 (233)
T KOG1644|consen  119 TLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKVTR  152 (233)
T ss_pred             eecCCchhcccCceeEEEEecCcceEeehhhhhH
Confidence            88874       2234566899999998766543

>PLN03150 hypothetical protein; Provisional

Probab=95.91  E-value=0.0053  Score=59.18  Aligned_cols=81  Identities=19%  Similarity=0.120  Sum_probs=64.9

Q ss_pred             ceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccc
Q 042404            3 IRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSL   80 (311)
Q Consensus         3 v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l   80 (311)
                      |+.|+|.-... .-.+|..+..+++|+.|+|++|.+.  .|..+..+++|+.|+|+++.+.+. ++..+..+++|+.|+|
T Consensus       420 v~~L~L~~n~L-~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~-iP~~l~~L~~L~~L~L  497 (623)
T PLN03150        420 IDGLGLDNQGL-RGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGS-IPESLGQLTSLRILNL  497 (623)
T ss_pred             EEEEECCCCCc-cccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCC-CchHHhcCCCCCEEEC
Confidence            44555543332 2468889999999999999999884  566788999999999999998765 5566789999999999


Q ss_pred             ccccc
Q 042404           81 SYFDS   85 (311)
Q Consensus        81 ~~c~~   85 (311)
                      .++..
T Consensus       498 s~N~l  502 (623)
T PLN03150        498 NGNSL  502 (623)
T ss_pred             cCCcc
Confidence            98864

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.86  E-value=0.0056  Score=52.12  Aligned_cols=101  Identities=22%  Similarity=0.245  Sum_probs=67.5

Q ss_pred             cCCCCcEEEccceeeCCCCC---C-CCCCcccEEEeeeeeeC-hHHHHHHHhcCcccccccccccccee----EEEeCCC
Q 042404           24 NCRKLTRLELFRCEFDPPLT---F-TGFPCLRSLNLHQVLVA-PEAIESLISSCPLLESLSLSYFDSLD----LNICAPE   94 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~~~~~---~-~~l~~L~~L~L~~~~~~-~~~l~~ll~~cp~Le~L~l~~c~~~~----~~i~~~~   94 (311)
                      +.+.+..|.|.++.+.....   + ...+.++.|+|.++.++ +.++.+++.+.|.|+.|.|+.+.--.    +.....+
T Consensus        43 s~ra~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~n  122 (418)
T KOG2982|consen   43 SLRALELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKN  122 (418)
T ss_pred             cccchhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccc
Confidence            33444456666666542211   2 35788999999999986 48899999999999999998765322    2233458


Q ss_pred             ceEEEeecee-ee----eeecCCCCcceeEEEEEE
Q 042404           95 LKYLYLEGEF-KD----IHLESTPLLVSMSIAMYM  124 (311)
Q Consensus        95 L~~L~i~~~~-~~----~~i~~~p~L~~l~l~~~~  124 (311)
                      |+.+-+.|.. +.    -.+...|.++++.++.+.
T Consensus       123 l~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~  157 (418)
T KOG2982|consen  123 LRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNS  157 (418)
T ss_pred             eEEEEEcCCCCChhhhhhhhhcchhhhhhhhccch
Confidence            8888888842 11    124477778877776653

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=95.75  E-value=0.0028  Score=37.93  Aligned_cols=38  Identities=24%  Similarity=0.230  Sum_probs=30.3

Q ss_pred             CCceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCC
Q 042404            1 NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDP   40 (311)
Q Consensus         1 ~~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~   40 (311)
                      +++++|++.-...  ..+|+.+.++++|+.|++++|.+..
T Consensus         1 ~~L~~L~l~~N~i--~~l~~~l~~l~~L~~L~l~~N~i~~   38 (44)
T PF12799_consen    1 KNLEELDLSNNQI--TDLPPELSNLPNLETLNLSNNPISD   38 (44)
T ss_dssp             TT-SEEEETSSS---SSHGGHGTTCTTSSEEEETSSCCSB
T ss_pred             CcceEEEccCCCC--cccCchHhCCCCCCEEEecCCCCCC
Confidence            4788999877654  4788889999999999999998764

...

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=95.43  E-value=0.00078  Score=63.71  Aligned_cols=99  Identities=22%  Similarity=0.182  Sum_probs=53.5

Q ss_pred             CcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee---EEEeCCCceEEEeecee-e-eeeecCCCCcceeEEEE
Q 042404           48 PCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD---LNICAPELKYLYLEGEF-K-DIHLESTPLLVSMSIAM  122 (311)
Q Consensus        48 ~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~---~~i~~~~L~~L~i~~~~-~-~~~i~~~p~L~~l~l~~  122 (311)
                      |.|+.|+|+++.+.+-+   .+..||.|++|+|+++.--.   +...+..|..|.+.++. . ...+.++.+|..+++++
T Consensus       187 ~ale~LnLshNk~~~v~---~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrnN~l~tL~gie~LksL~~LDlsy  263 (1096)
T KOG1859|consen  187 PALESLNLSHNKFTKVD---NLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRNNALTTLRGIENLKSLYGLDLSY  263 (1096)
T ss_pred             HHhhhhccchhhhhhhH---HHHhcccccccccccchhccccccchhhhhheeeeecccHHHhhhhHHhhhhhhccchhH
Confidence            45666666666554432   25567777777777654321   34444456667666642 1 22345667777777766


Q ss_pred             EEccccchhhcccccchHHHHhcCCCcceEEEEeeeE
Q 042404          123 YMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYF  159 (311)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~  159 (311)
                      +-..+..         . ...+..+..|+.|+|.++.
T Consensus       264 Nll~~hs---------e-L~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  264 NLLSEHS---------E-LEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             hhhhcch---------h-hhHHHHHHHHHHHhhcCCc
Confidence            5544321         1 2233445555555555544

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=95.09  E-value=0.0079  Score=54.64  Aligned_cols=101  Identities=25%  Similarity=0.274  Sum_probs=65.1

Q ss_pred             CcccCCCCcEEEccceeeCC-CCCCCCC-CcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee---EEEeCCCc
Q 042404           21 CLFNCRKLTRLELFRCEFDP-PLTFTGF-PCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD---LNICAPEL   95 (311)
Q Consensus        21 ~~~~~~~L~~L~L~~~~l~~-~~~~~~l-~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~---~~i~~~~L   95 (311)
                      .+...+.+..|.+..+.+.. ++....+ ++|+.|++.++.+..-  ..-+..+|+|+.|++..+...+   .....+.|
T Consensus       111 ~~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l--~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L  188 (394)
T COG4886         111 ELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESL--PSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNL  188 (394)
T ss_pred             hhhcccceeEEecCCcccccCccccccchhhcccccccccchhhh--hhhhhccccccccccCCchhhhhhhhhhhhhhh
Confidence            34445678888888887763 3333334 2888888888866542  2235678999999998887655   22266788


Q ss_pred             eEEEeece-eeeeeec-CCCC-cceeEEEEE
Q 042404           96 KYLYLEGE-FKDIHLE-STPL-LVSMSIAMY  123 (311)
Q Consensus        96 ~~L~i~~~-~~~~~i~-~~p~-L~~l~l~~~  123 (311)
                      +.|.+++. ...+.-. ..++ |+++.+..+
T Consensus       189 ~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N  219 (394)
T COG4886         189 NNLDLSGNKISDLPPEIELLSALEELDLSNN  219 (394)
T ss_pred             hheeccCCccccCchhhhhhhhhhhhhhcCC
Confidence            88888875 3333321 2333 777777665

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.86  E-value=0.00084  Score=56.45  Aligned_cols=13  Identities=38%  Similarity=0.692  Sum_probs=6.8

Q ss_pred             HHHhcCCCcceEE
Q 042404          200 RLITNSPNLKELH  212 (311)
Q Consensus       200 ~~l~~~p~L~~L~  212 (311)
                      .+|+..|+|++|+
T Consensus       111 ~VLR~LPnLkKLD  123 (388)
T KOG2123|consen  111 KVLRVLPNLKKLD  123 (388)
T ss_pred             HHHHHcccchhcc
Confidence            3455555555554

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=94.85  E-value=0.034  Score=44.81  Aligned_cols=77  Identities=25%  Similarity=0.271  Sum_probs=39.3

Q ss_pred             CCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeCh-HHHHHHHhcCccccccccccccc-----ee--EEEeCCC
Q 042404           25 CRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAP-EAIESLISSCPLLESLSLSYFDS-----LD--LNICAPE   94 (311)
Q Consensus        25 ~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~-~~l~~ll~~cp~Le~L~l~~c~~-----~~--~~i~~~~   94 (311)
                      .+.|..|.|++|+++  .|.-...+|+|++|.|.++.+.. +++.. +..||.|+.|++.+...     .+  +--.-|+
T Consensus        63 l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~p-La~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~  141 (233)
T KOG1644|consen   63 LPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDP-LASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPS  141 (233)
T ss_pred             ccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcch-hccCCccceeeecCCchhcccCceeEEEEecCc
Confidence            455666666666654  22212245666666666665433 33433 44566666666655432     11  2223456


Q ss_pred             ceEEEeec
Q 042404           95 LKYLYLEG  102 (311)
Q Consensus        95 L~~L~i~~  102 (311)
                      |+.|++.+
T Consensus       142 l~~LDF~k  149 (233)
T KOG1644|consen  142 LRTLDFQK  149 (233)
T ss_pred             ceEeehhh
Confidence            66665544

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=94.82  E-value=0.0017  Score=55.26  Aligned_cols=53  Identities=28%  Similarity=0.294  Sum_probs=23.1

Q ss_pred             CCcEEEccceeeCC-CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccc
Q 042404           27 KLTRLELFRCEFDP-PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSY   82 (311)
Q Consensus        27 ~L~~L~L~~~~l~~-~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~   82 (311)
                      .|+.|+|++|.+.. ..+..-.|.++.|+++++.+..  ++. +...++|.+|++++
T Consensus       285 ~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~--v~n-La~L~~L~~LDLS~  338 (490)
T KOG1259|consen  285 ELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRT--VQN-LAELPQLQLLDLSG  338 (490)
T ss_pred             hhhhccccccchhhhhhhhhhccceeEEeccccceee--ehh-hhhcccceEeeccc
Confidence            34445555554431 1222234555555555554322  111 33445555555554

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=94.43  E-value=0.012  Score=54.60  Aligned_cols=101  Identities=29%  Similarity=0.378  Sum_probs=43.5

Q ss_pred             CCCCcEEEcccee-eCCC---CCCCCCCcccEEEeeee-e-e--ChHHHHHHHhcCcccccccccccccee------EEE
Q 042404           25 CRKLTRLELFRCE-FDPP---LTFTGFPCLRSLNLHQV-L-V--APEAIESLISSCPLLESLSLSYFDSLD------LNI   90 (311)
Q Consensus        25 ~~~L~~L~L~~~~-l~~~---~~~~~l~~L~~L~L~~~-~-~--~~~~l~~ll~~cp~Le~L~l~~c~~~~------~~i   90 (311)
                      ++.|+.|.+..|. +.+.   +....++.|+.|++.++ . .  .......+...|++|++|++.+|..+.      +.-
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~  266 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALAS  266 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHh
Confidence            4555555555542 2210   11224555555555541 1 1  111122234455555555555554221      112


Q ss_pred             eCCCceEEEeeceee--e--e-e-ecCCCCcceeEEEEEEc
Q 042404           91 CAPELKYLYLEGEFK--D--I-H-LESTPLLVSMSIAMYMT  125 (311)
Q Consensus        91 ~~~~L~~L~i~~~~~--~--~-~-i~~~p~L~~l~l~~~~~  125 (311)
                      .+|+|+.|.+.+|..  .  + . ...+|+|+++++..+..
T Consensus       267 ~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~  307 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHG  307 (482)
T ss_pred             hCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCcc
Confidence            245555555444321  1  1 1 12556666666665443

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=94.07  E-value=0.017  Score=53.59  Aligned_cols=102  Identities=29%  Similarity=0.418  Sum_probs=70.4

Q ss_pred             CCcccCCCCcEEEccce-ee-C-----CCCCCCCCCcccEEEeeeee-eChHHHHHHHhcCcccccccccccccee----
Q 042404           20 SCLFNCRKLTRLELFRC-EF-D-----PPLTFTGFPCLRSLNLHQVL-VAPEAIESLISSCPLLESLSLSYFDSLD----   87 (311)
Q Consensus        20 ~~~~~~~~L~~L~L~~~-~l-~-----~~~~~~~l~~L~~L~L~~~~-~~~~~l~~ll~~cp~Le~L~l~~c~~~~----   87 (311)
                      +....|+.|+.|+++++ .. .     .......+++|+.|++.++. +++..+..+...||+|+.|.+..|..+.    
T Consensus       208 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl  287 (482)
T KOG1947|consen  208 ALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGL  287 (482)
T ss_pred             HHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHH
Confidence            33456889999999873 22 1     11223467889999999888 8888888888889999999988887532    


Q ss_pred             --EEEeCCCceEEEeeceee-------eeeecCCCCcceeEEEE
Q 042404           88 --LNICAPELKYLYLEGEFK-------DIHLESTPLLVSMSIAM  122 (311)
Q Consensus        88 --~~i~~~~L~~L~i~~~~~-------~~~i~~~p~L~~l~l~~  122 (311)
                        +.-.+|+|+.|.+.+|..       .+ ..++|+++.+.+..
T Consensus       288 ~~i~~~~~~L~~L~l~~c~~~~d~~l~~~-~~~c~~l~~l~~~~  330 (482)
T KOG1947|consen  288 VSIAERCPSLRELDLSGCHGLTDSGLEAL-LKNCPNLRELKLLS  330 (482)
T ss_pred             HHHHHhcCcccEEeeecCccchHHHHHHH-HHhCcchhhhhhhh
Confidence              444567899999988632       12 23577777755433

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=93.84  E-value=0.017  Score=52.46  Aligned_cols=149  Identities=20%  Similarity=0.234  Sum_probs=100.1

Q ss_pred             eeecCCCcccCC-CCcEEEccceeeCC-CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEE--
Q 042404           15 WFRVPSCLFNCR-KLTRLELFRCEFDP-PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNI--   90 (311)
Q Consensus        15 ~~~lp~~~~~~~-~L~~L~L~~~~l~~-~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i--   90 (311)
                      ...+|......+ +|+.|+++++.+.. |.....++.|+.|++..+.+.+  +.......++|+.|.+++...-.+..  
T Consensus       128 i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~--l~~~~~~~~~L~~L~ls~N~i~~l~~~~  205 (394)
T COG4886         128 ITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSD--LPKLLSNLSNLNNLDLSGNKISDLPPEI  205 (394)
T ss_pred             cccCccccccchhhcccccccccchhhhhhhhhccccccccccCCchhhh--hhhhhhhhhhhhheeccCCccccCchhh
Confidence            468888888885 99999999998864 3457789999999999997654  44444478999999999887544222  


Q ss_pred             eCCC-ceEEEeece-eee--eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecC
Q 042404           91 CAPE-LKYLYLEGE-FKD--IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIG  166 (311)
Q Consensus        91 ~~~~-L~~L~i~~~-~~~--~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~  166 (311)
                      ..++ |+.+.+.+. ...  ..+....++..+.+......            .....++.+++++.|++..+.+..+.. 
T Consensus       206 ~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~------------~~~~~~~~l~~l~~L~~s~n~i~~i~~-  272 (394)
T COG4886         206 ELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLE------------DLPESIGNLSNLETLDLSNNQISSISS-  272 (394)
T ss_pred             hhhhhhhhhhhcCCcceecchhhhhcccccccccCCceee------------eccchhccccccceecccccccccccc-
Confidence            2333 778877775 211  12335555555553333221            113446788889999999888766432 


Q ss_pred             CCCCCCCccccccceEEE
Q 042404          167 DDPGRLPITYNHLKVIEL  184 (311)
Q Consensus       167 ~~~~~~~~~f~~L~~L~l  184 (311)
                           .. ...+++.|.+
T Consensus       273 -----~~-~~~~l~~L~~  284 (394)
T COG4886         273 -----LG-SLTNLRELDL  284 (394)
T ss_pred             -----cc-ccCccCEEec
Confidence                 12 4677777777

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=93.45  E-value=0.094  Score=52.50  Aligned_cols=122  Identities=24%  Similarity=0.208  Sum_probs=65.1

Q ss_pred             CCCcEEEccceeeCCCCCCCCCCcccEEEeeeeee-ChHHHHHHHhcCcccccccccccccee-EE--E-eCCCceEEEe
Q 042404           26 RKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLV-APEAIESLISSCPLLESLSLSYFDSLD-LN--I-CAPELKYLYL  100 (311)
Q Consensus        26 ~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~-~~~~l~~ll~~cp~Le~L~l~~c~~~~-~~--i-~~~~L~~L~i  100 (311)
                      ...++..+-++.+........++.|++|-+..+.- -...-...+...|.|+.|++++|.... +.  | ..-+||+|.+
T Consensus       523 ~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L  602 (889)
T KOG4658|consen  523 NSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDL  602 (889)
T ss_pred             hheeEEEEeccchhhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccc
Confidence            56667777666654323334566788888877641 111122235567888888888776543 21  1 1235677766


Q ss_pred             ece-eeee--eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeee
Q 042404          101 EGE-FKDI--HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIY  158 (311)
Q Consensus       101 ~~~-~~~~--~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~  158 (311)
                      .++ ...+  .+.++.+|.++++.......           .+......+++|++|.+...
T Consensus       603 ~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~-----------~~~~i~~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  603 SDTGISHLPSGLGNLKKLIYLNLEVTGRLE-----------SIPGILLELQSLRVLRLPRS  652 (889)
T ss_pred             cCCCccccchHHHHHHhhheeccccccccc-----------cccchhhhcccccEEEeecc
Confidence            664 2222  23455556666655544321           11233344666777766544

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=93.10  E-value=0.021  Score=47.65  Aligned_cols=66  Identities=23%  Similarity=0.251  Sum_probs=42.6

Q ss_pred             cCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeee--eeChHHHHHHHhcCcccccccccccc
Q 042404           18 VPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQV--LVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        18 lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~--~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      +....-....|..|++.++.++....+..+|+|++|.++.+  .+..+ +.-++..||+|++|.++.+.
T Consensus        35 ~~gl~d~~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~-l~vl~e~~P~l~~l~ls~Nk  102 (260)
T KOG2739|consen   35 LGGLTDEFVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGG-LEVLAEKAPNLKVLNLSGNK  102 (260)
T ss_pred             cccccccccchhhhhhhccceeecccCCCcchhhhhcccCCccccccc-ceehhhhCCceeEEeecCCc
Confidence            33433445566777777766655455667778888888887  34333 55556667888888887654

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=92.55  E-value=0.079  Score=44.81  Aligned_cols=41  Identities=27%  Similarity=0.305  Sum_probs=27.4

Q ss_pred             CCCCCcccEEEeeeeeeCh---HHHHHHHhcCcccccccccccc
Q 042404           44 FTGFPCLRSLNLHQVLVAP---EAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        44 ~~~l~~L~~L~L~~~~~~~---~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      +..||+|++.+|+.+.|..   +.+..++++...|++|.++.|.
T Consensus        88 Llkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnG  131 (388)
T COG5238          88 LLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNG  131 (388)
T ss_pred             HhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCC
Confidence            4466777777777776653   3456667777777777777664

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=92.42  E-value=0.026  Score=56.34  Aligned_cols=85  Identities=20%  Similarity=0.223  Sum_probs=57.1

Q ss_pred             ecCCCcc-cCCCCcEEEcccee-e-CCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee----EE
Q 042404           17 RVPSCLF-NCRKLTRLELFRCE-F-DPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD----LN   89 (311)
Q Consensus        17 ~lp~~~~-~~~~L~~L~L~~~~-l-~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~----~~   89 (311)
                      .+|..++ .++.|++|+|++|. + ..|..++.+-+|+.|+|+++.+.  .++.-+.....|.+|++.......    +.
T Consensus       561 ~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~--~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~  638 (889)
T KOG4658|consen  561 EISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGIS--HLPSGLGNLKKLIYLNLEVTGRLESIPGIL  638 (889)
T ss_pred             hcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCcc--ccchHHHHHHhhheeccccccccccccchh
Confidence            3444433 47888888888764 2 36777777888888888888775  344445667788888888766433    22


Q ss_pred             EeCCCceEEEeece
Q 042404           90 ICAPELKYLYLEGE  103 (311)
Q Consensus        90 i~~~~L~~L~i~~~  103 (311)
                      -..++||+|.+...
T Consensus       639 ~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  639 LELQSLRVLRLPRS  652 (889)
T ss_pred             hhcccccEEEeecc
Confidence            22467888877763

>PRK15386 type III secretion protein GogB; Provisional

Probab=92.29  E-value=0.23  Score=45.01  Aligned_cols=90  Identities=19%  Similarity=0.236  Sum_probs=52.3

Q ss_pred             ccCCCCcEEEccceeeCCCCCCCCCC-cccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCCceEEEee
Q 042404           23 FNCRKLTRLELFRCEFDPPLTFTGFP-CLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLE  101 (311)
Q Consensus        23 ~~~~~L~~L~L~~~~l~~~~~~~~l~-~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~L~~L~i~  101 (311)
                      -.|..+++|++++|.+...+   .+| +|+.|.+.+|.-- ..++..+  .++|+.|.+.+|..+.  .-.++|+.|.+.
T Consensus        49 ~~~~~l~~L~Is~c~L~sLP---~LP~sLtsL~Lsnc~nL-tsLP~~L--P~nLe~L~Ls~Cs~L~--sLP~sLe~L~L~  120 (426)
T PRK15386         49 EEARASGRLYIKDCDIESLP---VLPNELTEITIENCNNL-TTLPGSI--PEGLEKLTVCHCPEIS--GLPESVRSLEIK  120 (426)
T ss_pred             HHhcCCCEEEeCCCCCcccC---CCCCCCcEEEccCCCCc-ccCCchh--hhhhhheEccCccccc--ccccccceEEeC
Confidence            34788999999998765322   244 5999999876421 1122111  4689999999886543  112467777776


Q ss_pred             ceeeeeeecC-CCCcceeEEE
Q 042404          102 GEFKDIHLES-TPLLVSMSIA  121 (311)
Q Consensus       102 ~~~~~~~i~~-~p~L~~l~l~  121 (311)
                      +.... .+.. .++|++|.+.
T Consensus       121 ~n~~~-~L~~LPssLk~L~I~  140 (426)
T PRK15386        121 GSATD-SIKNVPNGLTSLSIN  140 (426)
T ss_pred             CCCCc-ccccCcchHhheecc
Confidence            53211 1222 2356666553

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=89.27  E-value=0.19  Score=42.15  Aligned_cols=61  Identities=23%  Similarity=0.185  Sum_probs=41.6

Q ss_pred             cCCCCcEEEccceeeC----CCCCCCCCCcccEEEeeeeeeCh-HHHHHHHhcCccccccccccccc
Q 042404           24 NCRKLTRLELFRCEFD----PPLTFTGFPCLRSLNLHQVLVAP-EAIESLISSCPLLESLSLSYFDS   85 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~----~~~~~~~l~~L~~L~L~~~~~~~-~~l~~ll~~cp~Le~L~l~~c~~   85 (311)
                      .+++|+.|.++.|.+.    .+.-+-.+|+|++|.|+.+.+.+ ..+.- +...++|.+|++..|.-
T Consensus        63 ~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~p-l~~l~nL~~Ldl~n~~~  128 (260)
T KOG2739|consen   63 KLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRP-LKELENLKSLDLFNCSV  128 (260)
T ss_pred             CcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccch-hhhhcchhhhhcccCCc
Confidence            3568999999988432    22223356999999999998775 22322 44577788888888863

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.17  E-value=0.069  Score=45.30  Aligned_cols=60  Identities=17%  Similarity=0.104  Sum_probs=43.6

Q ss_pred             cCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccc
Q 042404           24 NCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYF   83 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c   83 (311)
                      .++.|++|.|+-|.+.-...+..|++|+.|.|..+.|.+-+--.-+.+.|+|+.|+|..+
T Consensus        39 kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~EN   98 (388)
T KOG2123|consen   39 KMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLDEN   98 (388)
T ss_pred             hcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhccC
Confidence            456788888888877654556778888888888887766333334668888888888764

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=89.10  E-value=0.25  Score=24.46  Aligned_cols=13  Identities=23%  Similarity=0.281  Sum_probs=9.5

Q ss_pred             CCcEEEccceeeC
Q 042404           27 KLTRLELFRCEFD   39 (311)
Q Consensus        27 ~L~~L~L~~~~l~   39 (311)
                      +|++|+|++|.++
T Consensus         1 ~L~~Ldls~n~l~   13 (22)
T PF00560_consen    1 NLEYLDLSGNNLT   13 (22)
T ss_dssp             TESEEEETSSEES
T ss_pred             CccEEECCCCcCE
Confidence            4677888877765

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.75  E-value=0.059  Score=43.42  Aligned_cols=72  Identities=24%  Similarity=0.237  Sum_probs=39.8

Q ss_pred             cEEEeeeeeeChHHHHHHHhcCcccccccccccccee------EEEeCCCceEEEeeceee--e---eeecCCCCcceeE
Q 042404           51 RSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD------LNICAPELKYLYLEGEFK--D---IHLESTPLLVSMS  119 (311)
Q Consensus        51 ~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~------~~i~~~~L~~L~i~~~~~--~---~~i~~~p~L~~l~  119 (311)
                      +.++-+++.+..+.+.+ +.+++.++.|.+..|..++      +.--+|+|+.|++++|..  .   -.+...++|+.+.
T Consensus       104 eaVDAsds~I~~eGle~-L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~  182 (221)
T KOG3864|consen  104 EAVDASDSSIMYEGLEH-LRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLH  182 (221)
T ss_pred             EEEecCCchHHHHHHHH-HhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHHHH
Confidence            33344444444444554 4566777777777666443      333556777777776532  1   1234677777776


Q ss_pred             EEEE
Q 042404          120 IAMY  123 (311)
Q Consensus       120 l~~~  123 (311)
                      +.+-
T Consensus       183 l~~l  186 (221)
T KOG3864|consen  183 LYDL  186 (221)
T ss_pred             hcCc
Confidence            6543

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=86.11  E-value=0.26  Score=45.20  Aligned_cols=101  Identities=23%  Similarity=0.246  Sum_probs=66.4

Q ss_pred             CcccCCCCcEEEccceeeCCCCC-CCCCCcccEEEeeeeeeCh-HHHHHHHhcCccccccccccccceeEE-E-eCCCce
Q 042404           21 CLFNCRKLTRLELFRCEFDPPLT-FTGFPCLRSLNLHQVLVAP-EAIESLISSCPLLESLSLSYFDSLDLN-I-CAPELK   96 (311)
Q Consensus        21 ~~~~~~~L~~L~L~~~~l~~~~~-~~~l~~L~~L~L~~~~~~~-~~l~~ll~~cp~Le~L~l~~c~~~~~~-i-~~~~L~   96 (311)
                      .+..+++|..|+++.+.+..... ..++++|+.|+++++.++. ..+    ..++.|+.|++.++....+. . ..++|+
T Consensus        90 ~l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~l----~~l~~L~~L~l~~N~i~~~~~~~~l~~L~  165 (414)
T KOG0531|consen   90 HLSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEGL----STLTLLKELNLSGNLISDISGLESLKSLK  165 (414)
T ss_pred             ccccccceeeeeccccchhhcccchhhhhcchheeccccccccccch----hhccchhhheeccCcchhccCCccchhhh
Confidence            35667888888888888775555 6778888888888888765 223    34556888888887654311 1 145667


Q ss_pred             EEEeece-eeeee---ecCCCCcceeEEEEEEc
Q 042404           97 YLYLEGE-FKDIH---LESTPLLVSMSIAMYMT  125 (311)
Q Consensus        97 ~L~i~~~-~~~~~---i~~~p~L~~l~l~~~~~  125 (311)
                      .+++.++ ...+.   ....++++.+.++.+..
T Consensus       166 ~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i  198 (414)
T KOG0531|consen  166 LLDLSYNRIVDIENDELSELISLEELDLGGNSI  198 (414)
T ss_pred             cccCCcchhhhhhhhhhhhccchHHHhccCCch
Confidence            7776664 22222   25677777777766554

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=85.94  E-value=0.13  Score=47.25  Aligned_cols=100  Identities=26%  Similarity=0.267  Sum_probs=59.3

Q ss_pred             cCCCCcEEEccceeeCC-CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee-EEE-eCCCceEEEe
Q 042404           24 NCRKLTRLELFRCEFDP-PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD-LNI-CAPELKYLYL  100 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~~-~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~-~~i-~~~~L~~L~i  100 (311)
                      .+..+..+.+..+.+.. -..+..+.+|+.|.+..+.+..  +...+..|++|+.|++++..... ..+ ..+.|+.|.+
T Consensus        70 ~l~~l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i~~--i~~~l~~~~~L~~L~ls~N~I~~i~~l~~l~~L~~L~l  147 (414)
T KOG0531|consen   70 SLTSLKELNLRQNLIAKILNHLSKLKSLEALDLYDNKIEK--IENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKELNL  147 (414)
T ss_pred             HhHhHHhhccchhhhhhhhcccccccceeeeeccccchhh--cccchhhhhcchheeccccccccccchhhccchhhhee
Confidence            45566666666666654 2335677888888888876654  22225578888888888765433 111 1234777777


Q ss_pred             ecee-eee-eecCCCCcceeEEEEEEc
Q 042404          101 EGEF-KDI-HLESTPLLVSMSIAMYMT  125 (311)
Q Consensus       101 ~~~~-~~~-~i~~~p~L~~l~l~~~~~  125 (311)
                      .++. ..+ .+...++|+.++++++..
T Consensus       148 ~~N~i~~~~~~~~l~~L~~l~l~~n~i  174 (414)
T KOG0531|consen  148 SGNLISDISGLESLKSLKLLDLSYNRI  174 (414)
T ss_pred             ccCcchhccCCccchhhhcccCCcchh
Confidence            7742 222 233466666676666554

>PF13516 LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1DFJ_I 2BNH_A 3VQ1_A 3VQ2_A 2Z64_A 2OMX_A

Probab=85.83  E-value=0.51  Score=23.76  Aligned_cols=21  Identities=24%  Similarity=0.368  Sum_probs=12.0

Q ss_pred             CCcccEEEeeeeeeChHHHHH
Q 042404           47 FPCLRSLNLHQVLVAPEAIES   67 (311)
Q Consensus        47 l~~L~~L~L~~~~~~~~~l~~   67 (311)
                      +++|++|+|++|.++++.+..
T Consensus         1 ~~~L~~L~l~~n~i~~~g~~~   21 (24)
T PF13516_consen    1 NPNLETLDLSNNQITDEGASA   21 (24)
T ss_dssp             -TT-SEEE-TSSBEHHHHHHH
T ss_pred             CCCCCEEEccCCcCCHHHHHH
Confidence            356777777777776665543

...

>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily

Probab=85.37  E-value=0.4  Score=24.78  Aligned_cols=15  Identities=40%  Similarity=0.673  Sum_probs=11.8

Q ss_pred             Cccccccccccccce
Q 042404           72 CPLLESLSLSYFDSL   86 (311)
Q Consensus        72 cp~Le~L~l~~c~~~   86 (311)
                      ||+|++|+|.+|..+
T Consensus         1 c~~L~~L~l~~C~~i   15 (26)
T smart00367        1 CPNLRELDLSGCTNI   15 (26)
T ss_pred             CCCCCEeCCCCCCCc
Confidence            788888888888654

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.42  E-value=0.32  Score=39.31  Aligned_cols=87  Identities=18%  Similarity=0.166  Sum_probs=54.8

Q ss_pred             eecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeee-eChHHHHHHHhcCcccccccccccccee-----
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVL-VAPEAIESLISSCPLLESLSLSYFDSLD-----   87 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~-~~~~~l~~ll~~cp~Le~L~l~~c~~~~-----   87 (311)
                      |.+|..-..--.++.++=+++.+.  -...+..++.++.|.+.+|. +.+..+..+=...|+|+.|+|++|..++     
T Consensus        91 ~~lp~~~~~~~~IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~  170 (221)
T KOG3864|consen   91 FSLPGPNADNVKIEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLA  170 (221)
T ss_pred             ecCCCCCCCcceEEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHH
Confidence            355554333334555554444332  11235578888999999887 6776677765568999999999997544     


Q ss_pred             EEEeCCCceEEEeec
Q 042404           88 LNICAPELKYLYLEG  102 (311)
Q Consensus        88 ~~i~~~~L~~L~i~~  102 (311)
                      .--..++|+.|.+.+
T Consensus       171 ~L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  171 CLLKLKNLRRLHLYD  185 (221)
T ss_pred             HHHHhhhhHHHHhcC
Confidence            112346777777665

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=81.09  E-value=0.17  Score=48.62  Aligned_cols=40  Identities=25%  Similarity=0.213  Sum_probs=22.3

Q ss_pred             CcccCCCCcEEEccceeeCCCCCC--CCCCcccEEEeeeeeeC
Q 042404           21 CLFNCRKLTRLELFRCEFDPPLTF--TGFPCLRSLNLHQVLVA   61 (311)
Q Consensus        21 ~~~~~~~L~~L~L~~~~l~~~~~~--~~l~~L~~L~L~~~~~~   61 (311)
                      .+..|..|++|+|++|++...+-+  .++. |..|.|+++.++
T Consensus       204 ~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L~lrnN~l~  245 (1096)
T KOG1859|consen  204 NLRRLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLLNLRNNALT  245 (1096)
T ss_pred             HHHhcccccccccccchhccccccchhhhh-heeeeecccHHH
Confidence            355667777777777766422222  2333 666666666543

>PF08387 FBD: FBD; InterPro: IPR013596 This region is found in F-box (IPR001810 from INTERPRO) and other domain containing plant proteins; it is repeated in two family members

Probab=80.93  E-value=3.7  Score=25.18  Aligned_cols=38  Identities=29%  Similarity=0.423  Sum_probs=30.1

Q ss_pred             ccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEE
Q 042404          176 YNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHIS  214 (311)
Q Consensus       176 f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~  214 (311)
                      ..+|+.+.+.+ -.+...+++-+..++++++.|+++.|.
T Consensus        13 ~s~Lk~v~~~~-f~g~~~e~~f~~yil~na~~Lk~m~i~   50 (51)
T PF08387_consen   13 LSHLKFVEIKG-FRGEENELEFAKYILENAPVLKKMTIS   50 (51)
T ss_pred             hheeEEEEEEe-eeCcHHHHHHHHHHHhhhhhhcEEEEE
Confidence            47888888843 334555788889999999999999986

Its precise function is unknown, but it is thought to be associated with nuclear processes []. In fact, several family members are annotated as being similar to transcription factors.

>PRK15386 type III secretion protein GogB; Provisional

Probab=80.79  E-value=1.8  Score=39.33  Aligned_cols=10  Identities=10%  Similarity=0.225  Sum_probs=6.1

Q ss_pred             CCcceEEEEe
Q 042404          206 PNLKELHISG  215 (311)
Q Consensus       206 p~L~~L~i~~  215 (311)
                      +.|+.|++..
T Consensus       177 ~SLk~L~ls~  186 (426)
T PRK15386        177 ESLQSITLHI  186 (426)
T ss_pred             ccCcEEEecc
Confidence            3666676653

---

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	311
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-05
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	3e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	4e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	6e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-04

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 44.5 bits (105), Expect = 2e-05
 Identities = 44/220 (20%), Positives = 75/220 (34%), Gaps = 19/220 (8%)

Query: 22  LFNCRKLTRLELFRCEFDP-PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSL 80
           L   RKL RL L     +  P+ F     +R L+L   L+  E   +LI  CP LE L  
Sbjct: 266 LVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLET 325

Query: 81  SYFDSLD----LNICAPELKYLYLEGEFKDIHLESTPLLVS----MSIAMYMTD--DIAE 130
                      L     +LK L +E    +  +E    LVS    +++A    +   +A 
Sbjct: 326 RNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAV 385

Query: 131 HFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITY-----NHLKVIELY 185
           +    ++ +   I   + +L      +   +   I D P    +         L+    Y
Sbjct: 386 YVSDITNESLESIGTYLKNLCDF-RLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFY 444

Query: 186 QVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEA 225
                     L  I     SPN++ + +     +   +  
Sbjct: 445 LRQGGLTDLGLSYIG--QYSPNVRWMLLGYVGESDEGLME 482

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 41.5 bits (97), Expect = 2e-04
 Identities = 31/205 (15%), Positives = 60/205 (29%), Gaps = 22/205 (10%)

Query: 24  NCRKLTRLELFRCEF----DPPLT--FTGFPCLRSLNLHQV---LVAPEAIESLISSCPL 74
           +CRK+  L +    F       L         L  LN +      ++P+ +E++  +C  
Sbjct: 162 HCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRS 221

Query: 75  LESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQ 134
           L S+ +  F+ L+L         L              P      +       +      
Sbjct: 222 LVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRL--GLSY 279

Query: 135 SSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIEL-YQVSFEDMK 193
                   +      + KL         L   +D   L     +L+V+E    +    ++
Sbjct: 280 MGPNEMPILFPFAAQIRKLD----LLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLE 335

Query: 194 EILVVIRLITNSPNLKELHISGSSN 218
            +            LK L I   ++
Sbjct: 336 VL------AQYCKQLKRLRIERGAD 354

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.8 bits (105), Expect = 3e-05
 Identities = 40/312 (12%), Positives = 76/312 (24%), Gaps = 111/312 (35%)

Query: 31  LELFR----CEFD--PPLTFTGFPCLRSL-------------NLHQVLVAPEAIESLISS 71
             L      C     P    T  P   S+             N   V    + + ++I S
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNC--DKLTTIIES 361

Query: 72  CPLLESLSLS----YFDSL-----DLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAM 122
              L  L  +     FD L       +I    L  ++ +    D+               
Sbjct: 362 S--LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV--------------- 404

Query: 123 YMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIY--FTKYLSIGDDPGRLPITYNHLK 180
                +     + S              ++    I   + +     ++   L     H  
Sbjct: 405 ---MVVVNKLHKYSLVE--------KQPKESTISIPSIYLELKVKLENEYAL-----HRS 448

Query: 181 VIELYQV--SFEDMKEILVVIRLITNSPNLKEL----------HISGSSNTLAAIEAP-- 226
           +++ Y +  +F+            ++      L          H+    +          
Sbjct: 449 IVDHYNIPKTFD------------SDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496

Query: 227 --DLDFWE-KECHADCS----------FKQLKLVK--MTDISGVPHEM--ELIKFLLSNS 269
             D  F E K  H   +           +QLK  K  + D       +   ++ FL    
Sbjct: 497 FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIE 556

Query: 270 PVLEIMSITPCT 281
             L     +  T
Sbjct: 557 ENL---ICSKYT 565

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 43.7 bits (103), Expect = 3e-05
 Identities = 33/142 (23%), Positives = 56/142 (39%), Gaps = 22/142 (15%)

Query: 22  LFNCRKLTRLELFRCEFDPP--LTFTGFPCLRSLNLHQVL-VAPEAIESLISSCPLLESL 78
           L  C KL  L L       P   T      L  LNL      +  A+++L+SSC  L+ L
Sbjct: 114 LSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDEL 173

Query: 79  SLSYFDSLD-------LNICAPELKYLYLEGEFKDIH-------LESTPLLVSMSIA--M 122
           +LS+            +   +  +  L L G  K++        +   P LV + ++  +
Sbjct: 174 NLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSV 233

Query: 123 YMTDDIAEHFEQSSSCNFLKIL 144
            + +D  + F      N+L+ L
Sbjct: 234 MLKNDCFQEF---FQLNYLQHL 252

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 44.1 bits (104), Expect = 4e-05
 Identities = 15/86 (17%), Positives = 31/86 (36%), Gaps = 7/86 (8%)

Query: 24  NCRKLTRLELFRCEFDPPLTF--TGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS 81
           +C+ L RL L     D    +  T    +  L++     +   +  ++S C  L  L + 
Sbjct: 430 HCKDLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIR 489

Query: 82  YFDSLDLNICA-----PELKYLYLEG 102
                D  + A       ++ L++  
Sbjct: 490 DCPFGDKALLANASKLETMRSLWMSS 515

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 43.3 bits (102), Expect = 6e-05
 Identities = 41/219 (18%), Positives = 74/219 (33%), Gaps = 46/219 (21%)

Query: 24  NCRKLTRLELFRCEF----DPPLT--FTGFPCLRSLNL--HQVLVAPEAIESLISSCPLL 75
            CR L  L+L   +        L+     +  L SLN+      V+  A+E L++ CP L
Sbjct: 154 TCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNL 213

Query: 76  ESLSLSYFDSLD----LNICAPELKYLYLEGEFKDIH----------LESTPLLVSMSIA 121
           +SL L+    L+    L   AP+L+ L   G   ++           L     L  +S  
Sbjct: 214 KSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGF 273

Query: 122 MYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITY-NHLK 180
                         S C+ L  L    +L           Y ++        +     L+
Sbjct: 274 WDAVPAYLPAV--YSVCSRLTTL----NLS----------YATVQSYDLVKLLCQCPKLQ 317

Query: 181 VIEL-YQVSFEDMKEILVVIRLITNSPNLKELHISGSSN 218
            + +   +    ++ +       +   +L+EL +  S  
Sbjct: 318 RLWVLDYIEDAGLEVLA------STCKDLRELRVFPSEP 350

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 42.2 bits (99), Expect = 2e-04
 Identities = 33/216 (15%), Positives = 70/216 (32%), Gaps = 40/216 (18%)

Query: 24  NCRKLTRLELFRCEFDPPLTFTGF------------PCLRSLNLHQVLVAPEAIESLISS 71
            C+ L  L +F  E                      P L S+      +   A+ ++  +
Sbjct: 336 TCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARN 395

Query: 72  CPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEH 131
            P +    L   +    +    E     L+  F  I +E    L  +S++  +TD + E+
Sbjct: 396 RPNMTRFRLCIIEPKAPDYLTLEP----LDIGFGAI-VEHCKDLRRLSLSGLLTDKVFEY 450

Query: 132 FEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYN--HLKVIELYQVSF 189
               +    +++L         V +   +       D G   +      L+ +E+    F
Sbjct: 451 I--GTYAKKMEML--------SVAFAGDS-------DLGMHHVLSGCDSLRKLEIRDCPF 493

Query: 190 EDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEA 225
            D      ++   +    ++ L +S  S +  A + 
Sbjct: 494 GDK----ALLANASKLETMRSLWMSSCSVSFGACKL 525

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 41.0 bits (96), Expect = 3e-04
 Identities = 36/223 (16%), Positives = 76/223 (34%), Gaps = 19/223 (8%)

Query: 18  VPSCLFNCRKLTRLELFRCEFDPPLT--FTGFPCLRSLNLHQVLVAPEAIESLISSCPLL 75
           +   L  C++L  L  F       L   ++    L +LNL    V    +  L+  CP L
Sbjct: 257 LSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKL 316

Query: 76  ESLSLSYFDSLD----LNICAPELKYLYLEGEFKDIHLESTPL----LVSMSIAMYMTDD 127
           + L +  +        L     +L+ L +      +   +  L    LVS+S+     + 
Sbjct: 317 QRLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLES 376

Query: 128 IAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVI----- 182
           +     Q ++   + I    P++ +    I          D   L         I     
Sbjct: 377 VLYFCRQMTNAALITIARNRPNMTRFRLCI----IEPKAPDYLTLEPLDIGFGAIVEHCK 432

Query: 183 ELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEA 225
           +L ++S   +    V   + T +  ++ L ++ + ++   +  
Sbjct: 433 DLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHH 475

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 20/94 (21%), Positives = 35/94 (37%), Gaps = 8/94 (8%)

Query: 17  RVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPL 74
            +PS L     L +L L   +F+    ++ + FP L  L++       E     + +   
Sbjct: 292 ELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLEN 351

Query: 75  LESLSLSY--FDSLDLNICA----PELKYLYLEG 102
           L  L LS+   ++ D           L+ L L  
Sbjct: 352 LRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSY 385

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	311
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.41
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.3
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.21
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.18
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.16
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.16
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.15
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.15
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.14
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.13
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.13
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.13
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.11
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.11
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.11
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.1
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.09
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.08
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.07
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.07
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.07
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.07
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.07
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.06
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.05
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.03
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.03
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.01
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.01
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.01
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.01
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.0
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.0
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.0
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.0
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.98
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	98.98
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	98.97
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	98.97
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	98.96
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.96
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	98.94
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	98.93
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	98.92
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	98.92
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	98.92
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	98.92
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	98.91
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	98.91
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	98.9
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	98.89
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	98.88
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	98.87
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	98.87
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	98.86
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	98.85
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	98.84
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	98.84
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	98.82
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	98.82
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	98.81
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	98.8
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	98.8
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.79
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	98.79
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	98.78
3m19_A	251	Variable lymphocyte receptor A diversity region; a	98.77
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	98.76
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	98.76
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	98.76
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	98.74
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	98.74
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	98.73
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	98.72
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	98.72
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	98.71
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	98.71
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	98.71
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	98.7
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	98.67
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.67
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	98.67
3m19_A	251	Variable lymphocyte receptor A diversity region; a	98.66
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.66
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	98.64
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.63
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	98.63
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.61
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	98.61
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	98.57
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	98.57
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.55
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	98.5
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.5
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.45
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.43
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.4
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.38
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.38
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	98.35
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.33
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	98.33
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.31
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.29
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.29
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.28
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.26
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.26
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.25
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.2
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.19
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.17
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.16
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.13
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.11
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.09
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.08
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.04
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.03
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.0
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	97.96
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	97.9
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	97.9
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	97.9
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.89
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	97.85
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	97.83
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.79
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.72
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	97.71
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.71
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	97.69
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	97.69
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	97.68
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	97.67
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	97.57
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	97.53
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.34
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	97.25
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	97.15
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	96.64
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	96.54
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	96.5
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	96.49
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	96.46
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	94.93
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	94.5
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	94.1
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	87.37
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	86.54

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=99.41  E-value=5.5e-14  Score=123.18  Aligned_cols=190  Identities=21%  Similarity=0.138  Sum_probs=126.9

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSL   80 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l   80 (311)
                      +|++|+|.-...  ..+|..++.+++|++|+|++|.+. .|..+..+++|++|+|+++.+.  .++..+..+++|+.|++
T Consensus        82 ~l~~L~L~~n~l--~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~--~lp~~l~~l~~L~~L~L  157 (328)
T 4fcg_A           82 GRVALELRSVPL--PQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLR--ALPASIASLNRLRELSI  157 (328)
T ss_dssp             TCCEEEEESSCC--SSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCC--CCCGGGGGCTTCCEEEE
T ss_pred             ceeEEEccCCCc--hhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccc--cCcHHHhcCcCCCEEEC
Confidence            678888877654  489999999999999999999876 5666889999999999999887  34555788999999999


Q ss_pred             cccccee-----EE--------EeCCCceEEEeece-eeee--eecCCCCcceeEEEEEEccccchhhcccccchHHHHh
Q 042404           81 SYFDSLD-----LN--------ICAPELKYLYLEGE-FKDI--HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKIL  144 (311)
Q Consensus        81 ~~c~~~~-----~~--------i~~~~L~~L~i~~~-~~~~--~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l  144 (311)
                      .+|...+     +.        -..++|++|.+.++ +..+  .+..+++|++++++.+...+.            ...+
T Consensus       158 ~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~l------------~~~l  225 (328)
T 4fcg_A          158 RACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSAL------------GPAI  225 (328)
T ss_dssp             EEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCCC------------CGGG
T ss_pred             CCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCcC------------chhh
Confidence            9987543     11        13677777777775 2222  245677777777776554321            1224


Q ss_pred             cCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          145 GGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       145 ~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      +.+++|+.|++..+.+.    +..|..+. .+++|++|.+.......     .++..+.++++|+.|++..+.
T Consensus       226 ~~l~~L~~L~Ls~n~~~----~~~p~~~~-~l~~L~~L~L~~n~~~~-----~~p~~~~~l~~L~~L~L~~n~  288 (328)
T 4fcg_A          226 HHLPKLEELDLRGCTAL----RNYPPIFG-GRAPLKRLILKDCSNLL-----TLPLDIHRLTQLEKLDLRGCV  288 (328)
T ss_dssp             GGCTTCCEEECTTCTTC----CBCCCCTT-CCCCCCEEECTTCTTCC-----BCCTTGGGCTTCCEEECTTCT
T ss_pred             ccCCCCCEEECcCCcch----hhhHHHhc-CCCCCCEEECCCCCchh-----hcchhhhcCCCCCEEeCCCCC
Confidence            66777777777764321    11222222 46677777762211111     233446677777777777654

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.30  E-value=4.2e-12  Score=112.22  Aligned_cols=120  Identities=18%  Similarity=0.151  Sum_probs=65.9

Q ss_pred             CceEEEEEeCCCeeeecCC-CcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPS-CLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~-~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|++.....  ..+|. .+..+++|++|+|++|.+.  .+..+.++++|++|+++++.++.- ....+.++++|++|
T Consensus        53 ~L~~L~l~~n~i--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L  129 (353)
T 2z80_A           53 AVKSLDLSNNRI--TYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNL-SSSWFKPLSSLTFL  129 (353)
T ss_dssp             TCCEEECTTSCC--CEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSC-CHHHHTTCTTCSEE
T ss_pred             cCcEEECCCCcC--cccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcC-CHhHhCCCccCCEE
Confidence            455555544332  24444 5566677777777776654  234466677777777777766542 22335567777777


Q ss_pred             ccccccceeE-----EEeCCCceEEEeece--eeee---eecCCCCcceeEEEEEE
Q 042404           79 SLSYFDSLDL-----NICAPELKYLYLEGE--FKDI---HLESTPLLVSMSIAMYM  124 (311)
Q Consensus        79 ~l~~c~~~~~-----~i~~~~L~~L~i~~~--~~~~---~i~~~p~L~~l~l~~~~  124 (311)
                      ++.++....+     .-..++|++|.+.++  ...+   .+..+++|++++++.+.
T Consensus       130 ~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~  185 (353)
T 2z80_A          130 NLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASD  185 (353)
T ss_dssp             ECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETT
T ss_pred             ECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCC
Confidence            7766643221     112356666666654  2222   23455666666665543

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.21  E-value=5.9e-12  Score=110.83  Aligned_cols=116  Identities=15%  Similarity=0.069  Sum_probs=62.3

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++..+..  ..+|. +..+++|++|+|++|.+...+.+..+++|++|+++++.+.+-  + .+..+++|++|++.
T Consensus        45 ~L~~L~l~~~~i--~~~~~-~~~~~~L~~L~l~~n~i~~~~~~~~l~~L~~L~L~~n~i~~~--~-~~~~l~~L~~L~l~  118 (347)
T 4fmz_A           45 SITKLVVAGEKV--ASIQG-IEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITDI--S-ALQNLTNLRELYLN  118 (347)
T ss_dssp             TCSEEECCSSCC--CCCTT-GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCC--G-GGTTCTTCSEEECT
T ss_pred             cccEEEEeCCcc--ccchh-hhhcCCccEEEccCCccccchhhhcCCcCCEEEccCCcccCc--h-HHcCCCcCCEEECc
Confidence            456666544432  23443 666777777777777665333366677777777777765542  1 25567777777776


Q ss_pred             ccccee--EEEeCCCceEEEeecee--ee-eeecCCCCcceeEEEEE
Q 042404           82 YFDSLD--LNICAPELKYLYLEGEF--KD-IHLESTPLLVSMSIAMY  123 (311)
Q Consensus        82 ~c~~~~--~~i~~~~L~~L~i~~~~--~~-~~i~~~p~L~~l~l~~~  123 (311)
                      +|....  .....++|+.|.+.++.  .. ..+..+++|+.++++.+
T Consensus       119 ~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~  165 (347)
T 4fmz_A          119 EDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTES  165 (347)
T ss_dssp             TSCCCCCGGGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSS
T ss_pred             CCcccCchhhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCC
Confidence            665322  11123455666655541  11 11334555555555443

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.18  E-value=4e-12  Score=116.18  Aligned_cols=58  Identities=17%  Similarity=0.086  Sum_probs=25.9

Q ss_pred             CCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           26 RKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        26 ~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ++|++|+|++|.+.  .+..+.++++|+.|+|+++.+..- ....+.++++|+.|+|.++.
T Consensus        75 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~-~~~~~~~l~~L~~L~L~~n~  134 (452)
T 3zyi_A           75 SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQI-EVGAFNGLASLNTLELFDNW  134 (452)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEE-CTTTTTTCTTCCEEECCSSC
T ss_pred             CCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCc-ChhhccCcccCCEEECCCCc
Confidence            34555555554443  233344555555555555444321 11123345555555555443

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.16  E-value=7.9e-12  Score=117.84  Aligned_cols=100  Identities=22%  Similarity=0.275  Sum_probs=55.8

Q ss_pred             ceEEEEEeCCC-eeeecCCCcccCCCCcEEEccceeeCCCC------CCCCCCcccEEEeeeeeeC---hHHHHHHHhcC
Q 042404            3 IRELVLELGEG-EWFRVPSCLFNCRKLTRLELFRCEFDPPL------TFTGFPCLRSLNLHQVLVA---PEAIESLISSC   72 (311)
Q Consensus         3 v~~L~l~~~~~-~~~~lp~~~~~~~~L~~L~L~~~~l~~~~------~~~~l~~L~~L~L~~~~~~---~~~l~~ll~~c   72 (311)
                      +++|+|..+.. ....++..+..|++|++|+|++|.+....      ...++++|++|+++++.++   ...+..++.+|
T Consensus       140 L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~  219 (592)
T 3ogk_B          140 LETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNC  219 (592)
T ss_dssp             CCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHC
T ss_pred             CcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhC
Confidence            55555544321 11122232335677777777777654321      1235677777777776654   45567777777


Q ss_pred             cccccccccccccee---EEEeCCCceEEEeec
Q 042404           73 PLLESLSLSYFDSLD---LNICAPELKYLYLEG  102 (311)
Q Consensus        73 p~Le~L~l~~c~~~~---~~i~~~~L~~L~i~~  102 (311)
                      |+|++|++.+|...+   .....++|+.|.+.+
T Consensus       220 ~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~  252 (592)
T 3ogk_B          220 RSLVSVKVGDFEILELVGFFKAAANLEEFCGGS  252 (592)
T ss_dssp             TTCCEEECSSCBGGGGHHHHHHCTTCCEEEECB
T ss_pred             CCCcEEeccCccHHHHHHHHhhhhHHHhhcccc
Confidence            777777777765322   222335666666654

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.16  E-value=9.8e-12  Score=106.46  Aligned_cols=214  Identities=16%  Similarity=0.107  Sum_probs=127.6

Q ss_pred             eecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee-E----
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD-L----   88 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~-~----   88 (311)
                      ..+|..+  .++|++|+|+++.+.  .+..+..+++|++|+++++.+..- ....+.++++|++|++.++..+. +    
T Consensus        24 ~~ip~~~--~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~n~~l~~~~~~~  100 (285)
T 1ozn_A           24 QAVPVGI--PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARI-DAAAFTGLALLEQLDLSDNAQLRSVDPAT  100 (285)
T ss_dssp             SSCCTTC--CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEE-CTTTTTTCTTCCEEECCSCTTCCCCCTTT
T ss_pred             ccCCcCC--CCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCcccee-CHhhcCCccCCCEEeCCCCCCccccCHHH
Confidence            4566544  358888888888775  334577888888888888876542 12235678888888888876332 2    


Q ss_pred             EEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEee
Q 042404           89 NICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLS  164 (311)
Q Consensus        89 ~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~  164 (311)
                      ....++|++|.+.++ ...+   .+..+++|++++++.+......           ...++.+++|+.|++..+.+..+.
T Consensus       101 ~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-----------~~~~~~l~~L~~L~l~~n~l~~~~  169 (285)
T 1ozn_A          101 FHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALP-----------DDTFRDLGNLTHLFLHGNRISSVP  169 (285)
T ss_dssp             TTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-----------TTTTTTCTTCCEEECCSSCCCEEC
T ss_pred             hcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccC-----------HhHhccCCCccEEECCCCcccccC
Confidence            113468888888875 2222   2456788888888765543211           223567788888888877554332


Q ss_pred             cCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccce
Q 042404          165 IGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQL  244 (311)
Q Consensus       165 ~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L  244 (311)
                      .     .....+++|++|.+....+..     ..+..+..+++|+.|++..+....     .....+       ..+++|
T Consensus       170 ~-----~~~~~l~~L~~L~l~~n~l~~-----~~~~~~~~l~~L~~L~l~~n~l~~-----~~~~~~-------~~l~~L  227 (285)
T 1ozn_A          170 E-----RAFRGLHSLDRLLLHQNRVAH-----VHPHAFRDLGRLMTLYLFANNLSA-----LPTEAL-------APLRAL  227 (285)
T ss_dssp             T-----TTTTTCTTCCEEECCSSCCCE-----ECTTTTTTCTTCCEEECCSSCCSC-----CCHHHH-------TTCTTC
T ss_pred             H-----HHhcCccccCEEECCCCcccc-----cCHhHccCcccccEeeCCCCcCCc-----CCHHHc-------ccCccc
Confidence            1     112246778887773221111     113446677888888887664332     111111       124677


Q ss_pred             eEEEEEe--ecCCcchHHHHHHH
Q 042404          245 KLVKMTD--ISGVPHEMELIKFL  265 (311)
Q Consensus       245 k~v~i~~--~~g~~~~~~l~~~l  265 (311)
                      +.+.+.+  +.+......+.+++
T Consensus       228 ~~L~l~~N~~~c~~~~~~~~~~l  250 (285)
T 1ozn_A          228 QYLRLNDNPWVCDCRARPLWAWL  250 (285)
T ss_dssp             CEEECCSSCEECSGGGHHHHHHH
T ss_pred             CEEeccCCCccCCCCcHHHHHHH
Confidence            7777775  44455544555554

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.15  E-value=1.1e-11  Score=113.94  Aligned_cols=240  Identities=14%  Similarity=0.050  Sum_probs=141.0

Q ss_pred             CceEEEEEeCCCeeeec-CCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRV-PSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~l-p~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|.....  ..+ |..+..+++|++|+|++|.+.  .|..+.++++|++|+|+++.+..- ....+.++++|++|
T Consensus        33 ~l~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L  109 (477)
T 2id5_A           33 ETRLLDLGKNRI--KTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLI-PLGVFTGLSNLTKL  109 (477)
T ss_dssp             TCSEEECCSSCC--CEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSC-CTTSSTTCTTCCEE
T ss_pred             CCcEEECCCCcc--ceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCcc-CcccccCCCCCCEE
Confidence            466777655543  234 456778889999999988775  356678888999999988876542 12235678899999


Q ss_pred             ccccccceeE----EEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcc
Q 042404           79 SLSYFDSLDL----NICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHL  150 (311)
Q Consensus        79 ~l~~c~~~~~----~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l  150 (311)
                      ++.++....+    ....++|+.|.+.++ ...+   .+..+++|+.++++.+...+..           ...+..+++|
T Consensus       110 ~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-----------~~~l~~l~~L  178 (477)
T 2id5_A          110 DISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIP-----------TEALSHLHGL  178 (477)
T ss_dssp             ECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCC-----------HHHHTTCTTC
T ss_pred             ECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccC-----------hhHhcccCCC
Confidence            9988764321    123468888888875 2222   3557888888888776543211           3335667777


Q ss_pred             eEEEEeeeEEEEeecCCCCCCCCcccc------------------------ccceEEEeeeecCCHHHHHHHHHHHhcCC
Q 042404          151 EKLVGYIYFTKYLSIGDDPGRLPITYN------------------------HLKVIELYQVSFEDMKEILVVIRLITNSP  206 (311)
Q Consensus       151 ~~L~l~~~~~~~l~~~~~~~~~~~~f~------------------------~L~~L~l~~~~~~~~~~~~~l~~~l~~~p  206 (311)
                      +.|++..+.+..+....     ...++                        +|++|.+....+..     .-...+..++
T Consensus       179 ~~L~l~~n~i~~~~~~~-----~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~-----~~~~~~~~l~  248 (477)
T 2id5_A          179 IVLRLRHLNINAIRDYS-----FKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTA-----VPYLAVRHLV  248 (477)
T ss_dssp             CEEEEESCCCCEECTTC-----SCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCS-----CCHHHHTTCT
T ss_pred             cEEeCCCCcCcEeChhh-----cccCcccceeeCCCCccccccCcccccCccccEEECcCCcccc-----cCHHHhcCcc
Confidence            77777766544332111     01233                        45555552211111     1123467778


Q ss_pred             CcceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEeecCCcchHHHHHHHHccCcccceEEEEecc
Q 042404          207 NLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCT  281 (311)
Q Consensus       207 ~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~~~g~~~~~~l~~~ll~~a~~Le~l~i~~~~  281 (311)
                      +|+.|++..+.....     ...       .-..+.+|+.+.+.+-.-..    +...-+.+.+.|+.+.+....
T Consensus       249 ~L~~L~Ls~n~l~~~-----~~~-------~~~~l~~L~~L~L~~n~l~~----~~~~~~~~l~~L~~L~L~~N~  307 (477)
T 2id5_A          249 YLRFLNLSYNPISTI-----EGS-------MLHELLRLQEIQLVGGQLAV----VEPYAFRGLNYLRVLNVSGNQ  307 (477)
T ss_dssp             TCCEEECCSSCCCEE-----CTT-------SCTTCTTCCEEECCSSCCSE----ECTTTBTTCTTCCEEECCSSC
T ss_pred             ccCeeECCCCcCCcc-----Chh-------hccccccCCEEECCCCccce----ECHHHhcCcccCCEEECCCCc
Confidence            888888775543211     000       01135778887766422111    111234678899999887543

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.15  E-value=5.7e-12  Score=114.73  Aligned_cols=104  Identities=17%  Similarity=0.189  Sum_probs=54.0

Q ss_pred             eecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee----EE
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD----LN   89 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~----~~   89 (311)
                      ..+|..+.  ++++.|+|++|.+.  .+..+.++++|+.|+|+++.+..-. ...+.++++|++|+|.++....    ..
T Consensus        56 ~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~-~~~~~~l~~L~~L~L~~n~l~~~~~~~~  132 (440)
T 3zyj_A           56 REVPDGIS--TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIE-IGAFNGLANLNTLELFDNRLTTIPNGAF  132 (440)
T ss_dssp             SSCCSCCC--TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEEC-GGGGTTCSSCCEEECCSSCCSSCCTTTS
T ss_pred             CcCCCCCC--CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccC-hhhccCCccCCEEECCCCcCCeeCHhHh
Confidence            34555443  46666666666654  2344566666666666666554321 1224556666666666654221    11


Q ss_pred             EeCCCceEEEeece-eeee---eecCCCCcceeEEEE
Q 042404           90 ICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAM  122 (311)
Q Consensus        90 i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~  122 (311)
                      ...++|++|.+.++ ...+   .+..+++|+.++++.
T Consensus       133 ~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~  169 (440)
T 3zyj_A          133 VYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGE  169 (440)
T ss_dssp             CSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCC
T ss_pred             hccccCceeeCCCCcccccCHHHhhhCcccCEeCCCC
Confidence            22355666666654 2221   233556666665544

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=99.14  E-value=2.3e-12  Score=112.88  Aligned_cols=192  Identities=17%  Similarity=0.181  Sum_probs=136.0

Q ss_pred             CCceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHH---------Hh
Q 042404            1 NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESL---------IS   70 (311)
Q Consensus         1 ~~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~l---------l~   70 (311)
                      +++++|+|..+..  ..+|..+..+++|++|+|++|.+. .|..+.++++|+.|++++|.+.+. ++.-         +.
T Consensus       104 ~~L~~L~L~~n~l--~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L~~n~~~~~-~p~~~~~~~~~~~~~  180 (328)
T 4fcg_A          104 SHLQHMTIDAAGL--MELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTE-LPEPLASTDASGEHQ  180 (328)
T ss_dssp             TTCSEEEEESSCC--CCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEEEEETTCCC-CCSCSEEEC-CCCEE
T ss_pred             CCCCEEECCCCCc--cchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEEECCCCCCccc-cChhHhhccchhhhc
Confidence            3688999987765  389999999999999999999886 566688999999999999865432 1111         33


Q ss_pred             cCccccccccccccceeE---EEeCCCceEEEeece-eeee--eecCCCCcceeEEEEEEccccchhhcccccchHHHHh
Q 042404           71 SCPLLESLSLSYFDSLDL---NICAPELKYLYLEGE-FKDI--HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKIL  144 (311)
Q Consensus        71 ~cp~Le~L~l~~c~~~~~---~i~~~~L~~L~i~~~-~~~~--~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l  144 (311)
                      ++++|+.|++.+|....+   ....++|++|.+.++ +..+  .+..+++|+.++++.+...+           .+...+
T Consensus       181 ~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls~n~~~~-----------~~p~~~  249 (328)
T 4fcg_A          181 GLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALR-----------NYPPIF  249 (328)
T ss_dssp             ESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCEEECTTCTTCC-----------BCCCCT
T ss_pred             cCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCcCchhhccCCCCCEEECcCCcchh-----------hhHHHh
Confidence            599999999999863221   123468999999986 3322  35688999999998765432           123346


Q ss_pred             cCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEec
Q 042404          145 GGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGS  216 (311)
Q Consensus       145 ~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~  216 (311)
                      +.+++|+.|++..+...    +..|..+. .+++|++|.+..   +...  ..++..+.++++|+.+.+...
T Consensus       250 ~~l~~L~~L~L~~n~~~----~~~p~~~~-~l~~L~~L~L~~---n~~~--~~iP~~l~~L~~L~~l~l~~~  311 (328)
T 4fcg_A          250 GGRAPLKRLILKDCSNL----LTLPLDIH-RLTQLEKLDLRG---CVNL--SRLPSLIAQLPANCIILVPPH  311 (328)
T ss_dssp             TCCCCCCEEECTTCTTC----CBCCTTGG-GCTTCCEEECTT---CTTC--CCCCGGGGGSCTTCEEECCGG
T ss_pred             cCCCCCCEEECCCCCch----hhcchhhh-cCCCCCEEeCCC---CCch--hhccHHHhhccCceEEeCCHH
Confidence            78899999999875321    22343333 578899888832   2211  155677889999999988643

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=99.13  E-value=8.6e-12  Score=121.35  Aligned_cols=147  Identities=17%  Similarity=0.143  Sum_probs=89.9

Q ss_pred             CceEEEEEeCCCeeeecCC--CcccCCCCcEEEccceeeC--CCCCC-CCCCcccEEEeeeeeeChHHHH--HHHhcCcc
Q 042404            2 DIRELVLELGEGEWFRVPS--CLFNCRKLTRLELFRCEFD--PPLTF-TGFPCLRSLNLHQVLVAPEAIE--SLISSCPL   74 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~--~~~~~~~L~~L~L~~~~l~--~~~~~-~~l~~L~~L~L~~~~~~~~~l~--~ll~~cp~   74 (311)
                      ++++|+|..+.. .-.+|.  .+.++++|++|+|++|.+.  .|..+ ..+++|++|+|+++.+.+....  ..+.+|++
T Consensus       101 ~L~~L~Ls~n~l-~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~l~~  179 (768)
T 3rgz_A          101 SLTSLDLSRNSL-SGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGE  179 (768)
T ss_dssp             TCCEEECCSSEE-EEEGGGGGGGGGCTTCCEEECCSSEEECCSSCCSCCCCTTCSEEECCSSCCEEETHHHHHHTTCCTT
T ss_pred             CCCEEECCCCcC-CCcCCChHHHhCCCCCCEEECcCCccCCcCCHHHhccCCCCCEEECCCCccCCcCChhhhhhccCCC
Confidence            455555544322 123555  6777777777777777654  22222 5677788888877776543222  22667888


Q ss_pred             cccccccccccee-EE-EeCCCceEEEeecee-ee-e-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCc
Q 042404           75 LESLSLSYFDSLD-LN-ICAPELKYLYLEGEF-KD-I-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPH  149 (311)
Q Consensus        75 Le~L~l~~c~~~~-~~-i~~~~L~~L~i~~~~-~~-~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  149 (311)
                      |++|++.+|...+ .. ...++|++|.+.++. .. + .+..+++|++++++.+...+           .+...++.+++
T Consensus       180 L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~~~~~l~~l~~L~~L~Ls~n~l~~-----------~~~~~l~~l~~  248 (768)
T 3rgz_A          180 LKHLAISGNKISGDVDVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSG-----------DFSRAISTCTE  248 (768)
T ss_dssp             CCEEECCSSEEESCCBCTTCTTCCEEECCSSCCCSCCCBCTTCCSCCEEECCSSCCCS-----------CHHHHTTTCSS
T ss_pred             CCEEECCCCcccccCCcccCCcCCEEECcCCcCCCCCcccccCCCCCEEECcCCcCCC-----------cccHHHhcCCC
Confidence            8888888776433 11 234678888887752 11 1 25677888888887665432           23445677777


Q ss_pred             ceEEEEeeeEE
Q 042404          150 LEKLVGYIYFT  160 (311)
Q Consensus       150 l~~L~l~~~~~  160 (311)
                      |+.|++..+.+
T Consensus       249 L~~L~Ls~n~l  259 (768)
T 3rgz_A          249 LKLLNISSNQF  259 (768)
T ss_dssp             CCEEECCSSCC
T ss_pred             CCEEECCCCcc
Confidence            88887776644

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.13  E-value=1.5e-11  Score=115.92  Aligned_cols=100  Identities=17%  Similarity=0.182  Sum_probs=68.8

Q ss_pred             cCCCCcEEEccceeeCC--CCCCC-CCCcccEEEeeee-eeChHHHHHHHhcCcccccccccccccee--------EEEe
Q 042404           24 NCRKLTRLELFRCEFDP--PLTFT-GFPCLRSLNLHQV-LVAPEAIESLISSCPLLESLSLSYFDSLD--------LNIC   91 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~~--~~~~~-~l~~L~~L~L~~~-~~~~~~l~~ll~~cp~Le~L~l~~c~~~~--------~~i~   91 (311)
                      .+++|++|+|++|.+..  +..+. ++++|++|+|.+| .+++..+..+..+||+|++|++.+|...+        +...
T Consensus       103 ~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~  182 (594)
T 2p1m_B          103 SYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDT  182 (594)
T ss_dssp             HCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTT
T ss_pred             hCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhc
Confidence            57899999999887652  22232 5889999999988 57777788888889999999999886211        2224


Q ss_pred             CCCceEEEeeceeeee-------eecCCCCcceeEEEEE
Q 042404           92 APELKYLYLEGEFKDI-------HLESTPLLVSMSIAMY  123 (311)
Q Consensus        92 ~~~L~~L~i~~~~~~~-------~i~~~p~L~~l~l~~~  123 (311)
                      .++|+.|++.++...+       .+..+|+|+++++..+
T Consensus       183 ~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~  221 (594)
T 2p1m_B          183 YTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRA  221 (594)
T ss_dssp             CCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTT
T ss_pred             CCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCC
Confidence            5688888887653111       0124677777777654

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.13  E-value=1.2e-11  Score=113.01  Aligned_cols=121  Identities=19%  Similarity=0.110  Sum_probs=72.1

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLS   79 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~   79 (311)
                      ++++|+|.-.... ...|..+..+++|++|+|++|.+.  .+..+.++++|++|+|+++.+..- ....+..+++|++|+
T Consensus        76 ~l~~L~L~~n~i~-~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~  153 (452)
T 3zyi_A           76 NTRYLNLMENNIQ-MIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVI-PSGAFEYLSKLRELW  153 (452)
T ss_dssp             TCSEEECCSSCCC-EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBC-CTTTSSSCTTCCEEE
T ss_pred             CccEEECcCCcCc-eECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCcc-ChhhhcccCCCCEEE
Confidence            5677776555431 223556677788888888877765  345567778888888887776542 122355677788887


Q ss_pred             cccccceeE----EEeCCCceEEEeece--eeee---eecCCCCcceeEEEEEE
Q 042404           80 LSYFDSLDL----NICAPELKYLYLEGE--FKDI---HLESTPLLVSMSIAMYM  124 (311)
Q Consensus        80 l~~c~~~~~----~i~~~~L~~L~i~~~--~~~~---~i~~~p~L~~l~l~~~~  124 (311)
                      +.++....+    ....++|+.|.+.++  ...+   .+..+++|+.++++.+.
T Consensus       154 L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~  207 (452)
T 3zyi_A          154 LRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCN  207 (452)
T ss_dssp             CCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSC
T ss_pred             CCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCc
Confidence            777653221    112356777776653  1222   23456666666665544

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.11  E-value=1e-11  Score=107.98  Aligned_cols=193  Identities=18%  Similarity=0.096  Sum_probs=125.9

Q ss_pred             CceEEEEEeCCCe-eeecCCCcccCCCCcEEEccc-eeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccc
Q 042404            2 DIRELVLELGEGE-WFRVPSCLFNCRKLTRLELFR-CEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLES   77 (311)
Q Consensus         2 ~v~~L~l~~~~~~-~~~lp~~~~~~~~L~~L~L~~-~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~   77 (311)
                      +|++|+|...... ...+|..+..+++|++|+|++ +.+.  .|..+..+++|++|+|+++.+.+. ++..+..+++|++
T Consensus        51 ~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~-~p~~~~~l~~L~~  129 (313)
T 1ogq_A           51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGA-IPDFLSQIKTLVT  129 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEE-CCGGGGGCTTCCE
T ss_pred             eEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCc-CCHHHhCCCCCCE
Confidence            5788888766532 237899999999999999995 6553  566788999999999999987643 3344778999999


Q ss_pred             ccccccccee----EEEeCCCceEEEeecee-e-ee--eecCCC-CcceeEEEEEEccccchhhcccccchHHHHhcCCC
Q 042404           78 LSLSYFDSLD----LNICAPELKYLYLEGEF-K-DI--HLESTP-LLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVP  148 (311)
Q Consensus        78 L~l~~c~~~~----~~i~~~~L~~L~i~~~~-~-~~--~i~~~p-~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~  148 (311)
                      |++.++...+    .....++|++|.+.++. . .+  .+..++ +|+.++++.+...+.           ....+..++
T Consensus       130 L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~-----------~~~~~~~l~  198 (313)
T 1ogq_A          130 LDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGK-----------IPPTFANLN  198 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEE-----------CCGGGGGCC
T ss_pred             EeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeecc-----------CChHHhCCc
Confidence            9999886432    11235789999998862 2 22  344566 899998876654311           122234444


Q ss_pred             cceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          149 HLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       149 ~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                       |+.|++..+.+...    .+..+ ..+++|+.|.+....+...      ...+..+++|++|++..+..
T Consensus       199 -L~~L~Ls~N~l~~~----~~~~~-~~l~~L~~L~L~~N~l~~~------~~~~~~l~~L~~L~Ls~N~l  256 (313)
T 1ogq_A          199 -LAFVDLSRNMLEGD----ASVLF-GSDKNTQKIHLAKNSLAFD------LGKVGLSKNLNGLDLRNNRI  256 (313)
T ss_dssp             -CSEEECCSSEEEEC----CGGGC-CTTSCCSEEECCSSEECCB------GGGCCCCTTCCEEECCSSCC
T ss_pred             -ccEEECcCCcccCc----CCHHH-hcCCCCCEEECCCCceeee------cCcccccCCCCEEECcCCcc
Confidence             88888877765532    11112 2466777777733222211      11255677888888876543

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.11  E-value=2.7e-10  Score=100.53  Aligned_cols=181  Identities=19%  Similarity=0.133  Sum_probs=125.7

Q ss_pred             eecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE----E
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL----N   89 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~----~   89 (311)
                      ..+|..+.  ++|++|+|+++.+.  .+..+.++++|++|+++++.+.+- ....+.++++|++|++.++....+    .
T Consensus        44 ~~iP~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~  120 (353)
T 2z80_A           44 NSIPSGLT--EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTI-EEDSFSSLGSLEHLDLSYNYLSNLSSSWF  120 (353)
T ss_dssp             SSCCTTCC--TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEE-CTTTTTTCTTCCEEECCSSCCSSCCHHHH
T ss_pred             cccccccc--ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCcc-CHhhcCCCCCCCEEECCCCcCCcCCHhHh
Confidence            46777655  48999999999886  333688999999999999987653 223367899999999999864331    2


Q ss_pred             EeCCCceEEEeece-eeee----eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEee
Q 042404           90 ICAPELKYLYLEGE-FKDI----HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLS  164 (311)
Q Consensus        90 i~~~~L~~L~i~~~-~~~~----~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~  164 (311)
                      -..++|++|.+.++ ...+    .+..+++|+.++++.+.....          .....+..+++|+.|++..+.+..+.
T Consensus       121 ~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~----------~~~~~~~~l~~L~~L~l~~n~l~~~~  190 (353)
T 2z80_A          121 KPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTK----------IQRKDFAGLTFLEELEIDASDLQSYE  190 (353)
T ss_dssp             TTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCE----------ECTTTTTTCCEEEEEEEEETTCCEEC
T ss_pred             CCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccc----------cCHHHccCCCCCCEEECCCCCcCccC
Confidence            23579999999986 2222    356899999999988732110          01233678899999999987654432


Q ss_pred             cCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCC
Q 042404          165 IGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNT  219 (311)
Q Consensus       165 ~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~  219 (311)
                          +..+. .+++|++|.+....+.   .  .-..++..+++|+.|++..+...
T Consensus       191 ----~~~l~-~l~~L~~L~l~~n~l~---~--~~~~~~~~~~~L~~L~L~~n~l~  235 (353)
T 2z80_A          191 ----PKSLK-SIQNVSHLILHMKQHI---L--LLEIFVDVTSSVECLELRDTDLD  235 (353)
T ss_dssp             ----TTTTT-TCSEEEEEEEECSCST---T--HHHHHHHHTTTEEEEEEESCBCT
T ss_pred             ----HHHHh-ccccCCeecCCCCccc---c--chhhhhhhcccccEEECCCCccc
Confidence                22222 4788888888432222   1  22345677999999999977643

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.11  E-value=8.5e-11  Score=107.97  Aligned_cols=203  Identities=16%  Similarity=0.065  Sum_probs=103.3

Q ss_pred             CceEEEEEeCCCeeeecCCC-cccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPSC-LFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~-~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|.-+..  ..+|.. +..+++|++|+|++|.+.  .+..+..+++|+.|++.++.+... ....+.++++|++|
T Consensus        81 ~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L  157 (477)
T 2id5_A           81 NLRTLGLRSNRL--KLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYI-SHRAFSGLNSLEQL  157 (477)
T ss_dssp             TCCEEECCSSCC--CSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEE-CTTSSTTCTTCCEE
T ss_pred             cCCEEECCCCcC--CccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCcccee-ChhhccCCCCCCEE
Confidence            567777655432  355554 456777888888777664  344566677777777777655432 11124566677777


Q ss_pred             ccccccceeE----EEeCCCceEEEeece-eee---eeecCCCCcceeEEEEEEccccc-hh------h-----ccc-cc
Q 042404           79 SLSYFDSLDL----NICAPELKYLYLEGE-FKD---IHLESTPLLVSMSIAMYMTDDIA-EH------F-----EQS-SS  137 (311)
Q Consensus        79 ~l~~c~~~~~----~i~~~~L~~L~i~~~-~~~---~~i~~~p~L~~l~l~~~~~~~~~-~~------~-----~~~-~~  137 (311)
                      ++.+|....+    ....++|+.|.+.++ ...   ..+..+++|+.++++.+...+.. ..      .     ... ..
T Consensus       158 ~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~  237 (477)
T 2id5_A          158 TLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLT  237 (477)
T ss_dssp             EEESCCCSSCCHHHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCC
T ss_pred             ECCCCcCcccChhHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCccc
Confidence            7666642211    112345666665553 111   12334555555555443211100 00      0     000 00


Q ss_pred             chHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          138 CNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       138 ~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      ......+..+++|+.|++..+.+..+...     ....+++|++|.+....+..     ..+..+.++++|+.|++..+.
T Consensus       238 ~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~-----~~~~l~~L~~L~L~~n~l~~-----~~~~~~~~l~~L~~L~L~~N~  307 (477)
T 2id5_A          238 AVPYLAVRHLVYLRFLNLSYNPISTIEGS-----MLHELLRLQEIQLVGGQLAV-----VEPYAFRGLNYLRVLNVSGNQ  307 (477)
T ss_dssp             SCCHHHHTTCTTCCEEECCSSCCCEECTT-----SCTTCTTCCEEECCSSCCSE-----ECTTTBTTCTTCCEEECCSSC
T ss_pred             ccCHHHhcCccccCeeECCCCcCCccChh-----hccccccCCEEECCCCccce-----ECHHHhcCcccCCEEECCCCc
Confidence            01123456778888888877765443221     11246677777773211111     112345677788888777654

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.10  E-value=4.3e-11  Score=107.12  Aligned_cols=189  Identities=16%  Similarity=0.125  Sum_probs=101.6

Q ss_pred             CceEEEEEeCCCeeeecC-CCcccCCCCcEEEccceeeC-CCCC-CCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVP-SCLFNCRKLTRLELFRCEFD-PPLT-FTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp-~~~~~~~~L~~L~L~~~~l~-~~~~-~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|..+..  ..+| ..+..+++|++|+|++|.+. .|.. +.++++|++|+++++.+... ....+..+++|+.|
T Consensus        94 ~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L  170 (390)
T 3o6n_A           94 TIQKLYMGFNAI--RYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERI-EDDTFQATTSLQNL  170 (390)
T ss_dssp             TCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBC-CTTTTSSCTTCCEE
T ss_pred             CcCEEECCCCCC--CcCCHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCcc-ChhhccCCCCCCEE
Confidence            577777765543  3344 44677888888888888775 3333 46788888888888876542 22235678888888


Q ss_pred             ccccccceeEE-EeCCC-------------------ceEEEeece-eeeeeecCCCCcceeEEEEEEccccchhhccccc
Q 042404           79 SLSYFDSLDLN-ICAPE-------------------LKYLYLEGE-FKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSS  137 (311)
Q Consensus        79 ~l~~c~~~~~~-i~~~~-------------------L~~L~i~~~-~~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~  137 (311)
                      ++.++....+. -..++                   |+.|.+.++ ...+.....++|+.++++.+...+          
T Consensus       171 ~l~~n~l~~~~~~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~----------  240 (390)
T 3o6n_A          171 QLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTD----------  240 (390)
T ss_dssp             ECCSSCCSBCCGGGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCC----------
T ss_pred             ECCCCcCCccccccccccceeecccccccccCCCCcceEEECCCCeeeeccccccccccEEECCCCCCcc----------
Confidence            88876532110 01133                   444444442 122222233455555554443221          


Q ss_pred             chHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          138 CNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       138 ~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                         ...+..+++|+.|++..+.+..+..    ..+ ..+++|++|.+....+.      .++.....+|+|+.|++..+.
T Consensus       241 ---~~~l~~l~~L~~L~Ls~n~l~~~~~----~~~-~~l~~L~~L~L~~n~l~------~~~~~~~~l~~L~~L~L~~n~  306 (390)
T 3o6n_A          241 ---TAWLLNYPGLVEVDLSYNELEKIMY----HPF-VKMQRLERLYISNNRLV------ALNLYGQPIPTLKVLDLSHNH  306 (390)
T ss_dssp             ---CGGGGGCTTCSEEECCSSCCCEEES----GGG-TTCSSCCEEECCSSCCC------EEECSSSCCTTCCEEECCSSC
T ss_pred             ---cHHHcCCCCccEEECCCCcCCCcCh----hHc-cccccCCEEECCCCcCc------ccCcccCCCCCCCEEECCCCc
Confidence               1234566777777776665443211    111 13556666666221111      112223456677777666553

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.09  E-value=1.8e-09  Score=100.79  Aligned_cols=233  Identities=15%  Similarity=0.055  Sum_probs=139.0

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE----
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL----   88 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~----   88 (311)
                      ...+|..++  ++|++|+|++|.+.  .|..+.++++|++|+|+++.+.+. .+..+.++++|++|++.+|...++    
T Consensus        17 l~~ip~~~~--~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~-~~~~~~~l~~L~~L~Ls~n~l~~~~~~~   93 (549)
T 2z81_A           17 FTSIPSGLT--AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTI-EGDAFYSLGSLEHLDLSDNHLSSLSSSW   93 (549)
T ss_dssp             CSSCCSCCC--TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEE-CTTTTTTCTTCCEEECTTSCCCSCCHHH
T ss_pred             cccccccCC--CCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCcc-ChhhccccccCCEEECCCCccCccCHHH
Confidence            356777654  67888888888765  345677888888888888876643 223356788888888888764331    


Q ss_pred             EEeCCCceEEEeece-eee----eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEe
Q 042404           89 NICAPELKYLYLEGE-FKD----IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYL  163 (311)
Q Consensus        89 ~i~~~~L~~L~i~~~-~~~----~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l  163 (311)
                      ....++|++|.+.++ +..    ..+..+++|+.++++.+...+.          .....+..+++|+.|++..+.+...
T Consensus        94 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~----------~~~~~~~~l~~L~~L~L~~n~l~~~  163 (549)
T 2z81_A           94 FGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSE----------IRRIDFAGLTSLNELEIKALSLRNY  163 (549)
T ss_dssp             HTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCE----------ECTTTTTTCCEEEEEEEEETTCCEE
T ss_pred             hccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccc----------cCHhhhhcccccCeeeccCCccccc
Confidence            123467888888875 221    1356889999999988652210          0012357889999999987765432


Q ss_pred             ecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccc
Q 042404          164 SIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQ  243 (311)
Q Consensus       164 ~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (311)
                          .+..+. .+++|++|.+.......     .-..+++.+++|+.|++..+........    ..+     ......+
T Consensus       164 ----~~~~l~-~l~~L~~L~l~~n~~~~-----~~~~~~~~l~~L~~L~L~~n~l~~~~~~----~~~-----~~~~~~~  224 (549)
T 2z81_A          164 ----QSQSLK-SIRDIHHLTLHLSESAF-----LLEIFADILSSVRYLELRDTNLARFQFS----PLP-----VDEVSSP  224 (549)
T ss_dssp             ----CTTTTT-TCSEEEEEEEECSBSTT-----HHHHHHHSTTTBSEEEEESCBCTTCCCC----CCS-----SCCCCCC
T ss_pred             ----Chhhhh-ccccCceEecccCcccc-----cchhhHhhcccccEEEccCCcccccccc----ccc-----hhhhhhc
Confidence                222233 47788888883221111     1223467799999999997654321000    000     1112466


Q ss_pred             eeEEEEEeecCCcchHHHHHHHHccCcccceEEEEe
Q 042404          244 LKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITP  279 (311)
Q Consensus       244 Lk~v~i~~~~g~~~~~~l~~~ll~~a~~Le~l~i~~  279 (311)
                      |+.+.+.+-.-......-+...+.+.+.|+.+.+..
T Consensus       225 L~~L~l~~n~l~~~~~~~l~~~~~~~~~L~~l~l~~  260 (549)
T 2z81_A          225 MKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDD  260 (549)
T ss_dssp             CCEEEEESCEEEHHHHHHHHGGGGGCTTCCEEEEES
T ss_pred             ccceeccccccchhHHHHHHHHhhhhcccccccccc
Confidence            777776653322222222333345556666666553

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.09  E-value=2.1e-11  Score=105.94  Aligned_cols=98  Identities=16%  Similarity=0.155  Sum_probs=48.9

Q ss_pred             CCCcEEEccceeeC----CCCCCCCCCcccEEEeee-eeeChHHHHHHHhcCcccccccccccccee-E---EEeCCCce
Q 042404           26 RKLTRLELFRCEFD----PPLTFTGFPCLRSLNLHQ-VLVAPEAIESLISSCPLLESLSLSYFDSLD-L---NICAPELK   96 (311)
Q Consensus        26 ~~L~~L~L~~~~l~----~~~~~~~l~~L~~L~L~~-~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~-~---~i~~~~L~   96 (311)
                      .++++|+|+++.+.    .|..+.++++|++|++++ +.+.+. ++..+..+++|++|++.++...+ +   ....++|+
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~-~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~  128 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGP-IPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESC-CCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCccccc-CChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCC
Confidence            35666666665553    244455666666666663 433322 22224556666666666554322 1   11234566


Q ss_pred             EEEeecee-e-ee--eecCCCCcceeEEEEEE
Q 042404           97 YLYLEGEF-K-DI--HLESTPLLVSMSIAMYM  124 (311)
Q Consensus        97 ~L~i~~~~-~-~~--~i~~~p~L~~l~l~~~~  124 (311)
                      +|.+.++. . .+  .+..+++|++++++.+.
T Consensus       129 ~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~  160 (313)
T 1ogq_A          129 TLDFSYNALSGTLPPSISSLPNLVGITFDGNR  160 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCSSC
T ss_pred             EEeCCCCccCCcCChHHhcCCCCCeEECcCCc
Confidence            66666541 1 11  23455666666655443

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.08  E-value=4.5e-11  Score=109.61  Aligned_cols=114  Identities=15%  Similarity=0.093  Sum_probs=74.5

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++.-+..  ..+|. +..+++|++|+|++|.+...+.+.++++|+.|+++++.+.+...   +..+++|++|++.
T Consensus        47 ~l~~L~l~~~~i--~~l~~-~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~---~~~l~~L~~L~L~  120 (466)
T 1o6v_A           47 QVTTLQADRLGI--KSIDG-VEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP---LANLTNLTGLTLF  120 (466)
T ss_dssp             TCCEEECCSSCC--CCCTT-GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG---GTTCTTCCEEECC
T ss_pred             cccEEecCCCCC--ccCcc-hhhhcCCCEEECCCCccCCchhhhccccCCEEECCCCccccChh---hcCCCCCCEEECC
Confidence            456666544432  34553 67788888888888877643337788888888888887765321   6788888888888


Q ss_pred             ccccee--EEEeCCCceEEEeecee-eee-eecCCCCcceeEEE
Q 042404           82 YFDSLD--LNICAPELKYLYLEGEF-KDI-HLESTPLLVSMSIA  121 (311)
Q Consensus        82 ~c~~~~--~~i~~~~L~~L~i~~~~-~~~-~i~~~p~L~~l~l~  121 (311)
                      +|....  .....++|++|.+.++. ..+ .+..+++|+.+.+.
T Consensus       121 ~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~  164 (466)
T 1o6v_A          121 NNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFG  164 (466)
T ss_dssp             SSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEE
T ss_pred             CCCCCCChHHcCCCCCCEEECCCCccCCChhhccCCcccEeecC
Confidence            875333  11234678888887752 222 24567777777764

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.08  E-value=2.5e-11  Score=106.83  Aligned_cols=228  Identities=18%  Similarity=0.162  Sum_probs=142.2

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEcccee-eCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCE-FDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSL   80 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~-l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l   80 (311)
                      ++++|++..+..  ..+|. +..+++|++|++++|. ...++.+..+++|+.|++.++.+.+...   +..+++|++|++
T Consensus       111 ~L~~L~l~~n~i--~~~~~-~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~---~~~l~~L~~L~l  184 (347)
T 4fmz_A          111 NLRELYLNEDNI--SDISP-LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP---IANLTDLYSLSL  184 (347)
T ss_dssp             TCSEEECTTSCC--CCCGG-GTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGG---GGGCTTCSEEEC
T ss_pred             cCCEEECcCCcc--cCchh-hccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCchh---hccCCCCCEEEc
Confidence            577888765543  34444 7789999999999984 4455557889999999999988765322   678999999999


Q ss_pred             cccccee--EEEeCCCceEEEeece-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEe
Q 042404           81 SYFDSLD--LNICAPELKYLYLEGE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGY  156 (311)
Q Consensus        81 ~~c~~~~--~~i~~~~L~~L~i~~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~  156 (311)
                      .+|....  .....++|+.+.+.++ ...+ .+..+++|++++++.+...+.            .. +..+++|+.|++.
T Consensus       185 ~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~n~l~~~------------~~-~~~l~~L~~L~l~  251 (347)
T 4fmz_A          185 NYNQIEDISPLASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGNNKITDL------------SP-LANLSQLTWLEIG  251 (347)
T ss_dssp             TTSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCC------------GG-GTTCTTCCEEECC
T ss_pred             cCCcccccccccCCCccceeecccCCCCCCchhhcCCcCCEEEccCCccCCC------------cc-hhcCCCCCEEECC
Confidence            9886433  1123468888888875 2222 256788888888877654321            11 5777888888887


Q ss_pred             eeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhccccc
Q 042404          157 IYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECH  236 (311)
Q Consensus       157 ~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~  236 (311)
                      .+.+..+     + .+ ..+++|++|.+....+..      + ..+..+|+|+.|++..+.....     ....+     
T Consensus       252 ~n~l~~~-----~-~~-~~l~~L~~L~l~~n~l~~------~-~~~~~l~~L~~L~L~~n~l~~~-----~~~~l-----  307 (347)
T 4fmz_A          252 TNQISDI-----N-AV-KDLTKLKMLNVGSNQISD------I-SVLNNLSQLNSLFLNNNQLGNE-----DMEVI-----  307 (347)
T ss_dssp             SSCCCCC-----G-GG-TTCTTCCEEECCSSCCCC------C-GGGGGCTTCSEEECCSSCCCGG-----GHHHH-----
T ss_pred             CCccCCC-----h-hH-hcCCCcCEEEccCCccCC------C-hhhcCCCCCCEEECcCCcCCCc-----ChhHh-----
Confidence            7654321     1 11 246777777773322222      1 2366788888888876643211     11111     


Q ss_pred             CcccccceeEEEEEeecCCcchHHHHHHHHccCcccceEEEEec
Q 042404          237 ADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPC  280 (311)
Q Consensus       237 ~~~~~~~Lk~v~i~~~~g~~~~~~l~~~ll~~a~~Le~l~i~~~  280 (311)
                        ..+++|+.+.+.+-.-.... .     +.+.+.|+.+.+...
T Consensus       308 --~~l~~L~~L~L~~n~l~~~~-~-----~~~l~~L~~L~l~~N  343 (347)
T 4fmz_A          308 --GGLTNLTTLFLSQNHITDIR-P-----LASLSKMDSADFANQ  343 (347)
T ss_dssp             --HTCTTCSEEECCSSSCCCCG-G-----GGGCTTCSEESSSCC
T ss_pred             --hccccCCEEEccCCcccccc-C-----hhhhhccceeehhhh
Confidence              12467777776653211111 1     566777777666543

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.07  E-value=1.2e-11  Score=112.58  Aligned_cols=120  Identities=21%  Similarity=0.147  Sum_probs=63.9

Q ss_pred             CceEEEEEeCCCeeeec-CCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRV-PSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~l-p~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      +++.|+|..+..  ..+ |..+..+++|++|+|++|.+.  .+..+.++++|++|+|+++.+..- ....+..+++|++|
T Consensus        65 ~l~~L~L~~n~i--~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L  141 (440)
T 3zyj_A           65 NTRLLNLHENQI--QIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTI-PNGAFVYLSKLKEL  141 (440)
T ss_dssp             TCSEEECCSCCC--CEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSC-CTTTSCSCSSCCEE
T ss_pred             CCcEEEccCCcC--CeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCee-CHhHhhccccCcee
Confidence            456666654433  223 345666777777777777654  233456677777777777665532 11234566777777


Q ss_pred             ccccccceeE----EEeCCCceEEEeece--eeee---eecCCCCcceeEEEEEE
Q 042404           79 SLSYFDSLDL----NICAPELKYLYLEGE--FKDI---HLESTPLLVSMSIAMYM  124 (311)
Q Consensus        79 ~l~~c~~~~~----~i~~~~L~~L~i~~~--~~~~---~i~~~p~L~~l~l~~~~  124 (311)
                      ++.++....+    ....++|+.|.+.++  ...+   .+..+++|+.++++.+.
T Consensus       142 ~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~  196 (440)
T 3zyj_A          142 WLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN  196 (440)
T ss_dssp             ECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSC
T ss_pred             eCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCc
Confidence            7766543221    112355666666552  1111   23345556665554443

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.07  E-value=4.1e-11  Score=102.58  Aligned_cols=195  Identities=17%  Similarity=0.218  Sum_probs=127.7

Q ss_pred             CceEEEEEeCCCeeeecC-CCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeee-eChHHHHHHHhcCccccc
Q 042404            2 DIRELVLELGEGEWFRVP-SCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVL-VAPEAIESLISSCPLLES   77 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp-~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~-~~~~~l~~ll~~cp~Le~   77 (311)
                      ++++|+|.-...  ..+| ..+..+++|++|+|+++.+.  .+..+.++++|++|+++++. +..- ....+..+++|++
T Consensus        33 ~l~~L~l~~n~i--~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~-~~~~~~~l~~L~~  109 (285)
T 1ozn_A           33 ASQRIFLHGNRI--SHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSV-DPATFHGLGRLHT  109 (285)
T ss_dssp             TCSEEECTTSCC--CEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCC-CTTTTTTCTTCCE
T ss_pred             CceEEEeeCCcC--CccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCcccc-CHHHhcCCcCCCE
Confidence            466666654433  3455 45777889999999988775  35567788999999999885 5432 1233667899999


Q ss_pred             cccccccceeE----EEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCc
Q 042404           78 LSLSYFDSLDL----NICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPH  149 (311)
Q Consensus        78 L~l~~c~~~~~----~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  149 (311)
                      |++.+|....+    ....++|++|.+.++ ...+   .+..+++|+.++++.+...+..           ...+..+++
T Consensus       110 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-----------~~~~~~l~~  178 (285)
T 1ozn_A          110 LHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVP-----------ERAFRGLHS  178 (285)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEEC-----------TTTTTTCTT
T ss_pred             EECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccC-----------HHHhcCccc
Confidence            99988864331    123468899988885 3322   2457888999888776443211           223567888


Q ss_pred             ceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCc
Q 042404          150 LEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTL  220 (311)
Q Consensus       150 l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~  220 (311)
                      |+.|++..+.+..+.    +..+. .+++|++|.+....+..     .....+..+++|+.|++..++..+
T Consensus       179 L~~L~l~~n~l~~~~----~~~~~-~l~~L~~L~l~~n~l~~-----~~~~~~~~l~~L~~L~l~~N~~~c  239 (285)
T 1ozn_A          179 LDRLLLHQNRVAHVH----PHAFR-DLGRLMTLYLFANNLSA-----LPTEALAPLRALQYLRLNDNPWVC  239 (285)
T ss_dssp             CCEEECCSSCCCEEC----TTTTT-TCTTCCEEECCSSCCSC-----CCHHHHTTCTTCCEEECCSSCEEC
T ss_pred             cCEEECCCCcccccC----HhHcc-CcccccEeeCCCCcCCc-----CCHHHcccCcccCEEeccCCCccC
Confidence            999999887655432    22222 46788888884322222     223557888999999998776543

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.07  E-value=4.7e-11  Score=103.48  Aligned_cols=184  Identities=17%  Similarity=0.135  Sum_probs=126.6

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++..+..  ..+| .+..+++|++|+|++|.+...+.+..+++|+.|+++++.+.+-  . -+..+++|++|++.
T Consensus        42 ~L~~L~l~~~~i--~~l~-~~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~L~~n~l~~~--~-~~~~l~~L~~L~l~  115 (308)
T 1h6u_A           42 GITTLSAFGTGV--TTIE-GVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNV--S-AIAGLQSIKTLDLT  115 (308)
T ss_dssp             TCCEEECTTSCC--CCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCC--G-GGTTCTTCCEEECT
T ss_pred             CcCEEEeeCCCc--cCch-hhhccCCCCEEEccCCcCCCChhHccCCCCCEEEccCCcCCCc--h-hhcCCCCCCEEECC
Confidence            466777654432  3455 5778899999999999886433377899999999999987653  2 26789999999999


Q ss_pred             cccceeE--EEeCCCceEEEeece-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEee
Q 042404           82 YFDSLDL--NICAPELKYLYLEGE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYI  157 (311)
Q Consensus        82 ~c~~~~~--~i~~~~L~~L~i~~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~  157 (311)
                      +|....+  ....++|+.|.+.++ ...+ .+..+++|+.++++.+...+            +.. +..+++|+.|++..
T Consensus       116 ~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~------------~~~-l~~l~~L~~L~l~~  182 (308)
T 1h6u_A          116 STQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSD------------LTP-LANLSKLTTLKADD  182 (308)
T ss_dssp             TSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCC------------CGG-GTTCTTCCEEECCS
T ss_pred             CCCCCCchhhcCCCCCCEEECCCCccCcCccccCCCCccEEEccCCcCCC------------Chh-hcCCCCCCEEECCC
Confidence            8864331  123468899998885 2222 25678889999887765432            122 67889999999988


Q ss_pred             eEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          158 YFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      +.+..+.     .  ...+++|++|.+....+...      . -+..+|+|+.|++..+..
T Consensus       183 n~l~~~~-----~--l~~l~~L~~L~L~~N~l~~~------~-~l~~l~~L~~L~l~~N~i  229 (308)
T 1h6u_A          183 NKISDIS-----P--LASLPNLIEVHLKNNQISDV------S-PLANTSNLFIVTLTNQTI  229 (308)
T ss_dssp             SCCCCCG-----G--GGGCTTCCEEECTTSCCCBC------G-GGTTCTTCCEEEEEEEEE
T ss_pred             CccCcCh-----h--hcCCCCCCEEEccCCccCcc------c-cccCCCCCCEEEccCCee
Confidence            7654321     1  23578888888843222221      1 268899999999987764

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.07  E-value=3.9e-11  Score=109.45  Aligned_cols=100  Identities=19%  Similarity=0.159  Sum_probs=60.9

Q ss_pred             CceEEEEEeCCCeeeec-CCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHH-HHHhcCccccc
Q 042404            2 DIRELVLELGEGEWFRV-PSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIE-SLISSCPLLES   77 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~l-p~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~-~ll~~cp~Le~   77 (311)
                      ++++|+|.-+... ..+ |..+..+++|++|+|++|.+.  .|..+.++++|++|+|+++.+.+..+. ..+..+++|++
T Consensus        55 ~L~~L~L~~n~~~-~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~  133 (455)
T 3v47_A           55 DLQFLKVEQQTPG-LVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEM  133 (455)
T ss_dssp             TCCEEECCCCSTT-CEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCE
T ss_pred             cccEEECcCCccc-ceECcccccccccCCEEeCCCCccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCE
Confidence            5677776555331 234 345667788888888877664  355677778888888888777653222 22556777777


Q ss_pred             cccccccceeE-----EEeCCCceEEEeec
Q 042404           78 LSLSYFDSLDL-----NICAPELKYLYLEG  102 (311)
Q Consensus        78 L~l~~c~~~~~-----~i~~~~L~~L~i~~  102 (311)
                      |++.+|....+     ....++|++|.+.+
T Consensus       134 L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~  163 (455)
T 3v47_A          134 LVLRDNNIKKIQPASFFLNMRRFHVLDLTF  163 (455)
T ss_dssp             EECCSSBCCSCCCCGGGGGCTTCCEEECTT
T ss_pred             EECCCCccCccCcccccCCCCcccEEeCCC
Confidence            77777653221     11235566666554

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.07  E-value=3.9e-11  Score=109.45  Aligned_cols=121  Identities=17%  Similarity=0.092  Sum_probs=81.1

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC---CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD---PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~---~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|...... ...|..+..+++|++|+|++|.+.   .+..+.++++|++|+|+++.+... ....+.++++|++|
T Consensus        31 ~l~~L~Ls~n~i~-~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L  108 (455)
T 3v47_A           31 HVNYVDLSLNSIA-ELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQL-ETGAFNGLANLEVL  108 (455)
T ss_dssp             TCCEEECCSSCCC-EECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEE-CTTTTTTCTTCCEE
T ss_pred             ccCEEEecCCccC-cCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCcc-ChhhccCcccCCEE
Confidence            5778887666442 234677888888999999888653   245577888899999988876543 22336678889999


Q ss_pred             cccccccee--E----EEeCCCceEEEeece-eeee---e-ecCCCCcceeEEEEEE
Q 042404           79 SLSYFDSLD--L----NICAPELKYLYLEGE-FKDI---H-LESTPLLVSMSIAMYM  124 (311)
Q Consensus        79 ~l~~c~~~~--~----~i~~~~L~~L~i~~~-~~~~---~-i~~~p~L~~l~l~~~~  124 (311)
                      ++.+|...+  .    ....++|++|.+.++ ...+   . +..+++|+.++++.+.
T Consensus       109 ~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~  165 (455)
T 3v47_A          109 TLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNK  165 (455)
T ss_dssp             ECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCC
T ss_pred             eCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCc
Confidence            888886432  1    123468888888875 2221   1 4567777777775543

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.06  E-value=5.3e-11  Score=112.54  Aligned_cols=63  Identities=21%  Similarity=0.286  Sum_probs=30.5

Q ss_pred             CcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           21 CLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        21 ~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      .+..+++|++|+|++|.+.  +|..+.++++|+.|+|+++.+..- ...++.++++|+.|++.+|.
T Consensus        94 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l-~~~~~~~l~~L~~L~Ls~N~  158 (597)
T 3oja_B           94 AFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSL-PRGIFHNTPKLTTLSMSNNN  158 (597)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC-CTTTTTTCTTCCEEECCSSC
T ss_pred             HhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCCCC-CHHHhccCCCCCEEEeeCCc
Confidence            4455555555555555543  222344555555555555554421 11223445555555555543

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.05  E-value=9.9e-11  Score=110.31  Aligned_cols=83  Identities=30%  Similarity=0.399  Sum_probs=58.1

Q ss_pred             CceEEEEEeCCC-eeeecCCCcccCCCCcEEEccceeeCCC------CCCCCCCcccEEEeeeee--eChHHHHHHHhcC
Q 042404            2 DIRELVLELGEG-EWFRVPSCLFNCRKLTRLELFRCEFDPP------LTFTGFPCLRSLNLHQVL--VAPEAIESLISSC   72 (311)
Q Consensus         2 ~v~~L~l~~~~~-~~~~lp~~~~~~~~L~~L~L~~~~l~~~------~~~~~l~~L~~L~L~~~~--~~~~~l~~ll~~c   72 (311)
                      ++++|+|..+.. ....++..+.+|++|++|+|++|.+...      .....+++|++|+++++.  +++..+..++.+|
T Consensus       131 ~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~  210 (594)
T 2p1m_B          131 NFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRC  210 (594)
T ss_dssp             TCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHC
T ss_pred             CCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhC
Confidence            466666654421 1112444444788999999998876531      112367899999999885  6677788888889


Q ss_pred             cccccccccccc
Q 042404           73 PLLESLSLSYFD   84 (311)
Q Consensus        73 p~Le~L~l~~c~   84 (311)
                      |+|++|++.+|.
T Consensus       211 ~~L~~L~L~~~~  222 (594)
T 2p1m_B          211 PNLKSLKLNRAV  222 (594)
T ss_dssp             TTCCEEECCTTS
T ss_pred             CCCcEEecCCCC
Confidence            999999999883

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.04  E-value=1.7e-12  Score=118.62  Aligned_cols=83  Identities=19%  Similarity=0.178  Sum_probs=41.9

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCC------CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCc--
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDP------PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCP--   73 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~------~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp--   73 (311)
                      ++++|+|.........++..+..+++|++|+|++|.+..      +..+..+++|++|+|+++.+.+..+..+...++  
T Consensus         4 ~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~   83 (461)
T 1z7x_W            4 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTP   83 (461)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCST
T ss_pred             cceehhhhhcccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHhhC
Confidence            345566544432111222223445566666666665541      122334566666666666655544555444444  


Q ss_pred             --ccccccccccc
Q 042404           74 --LLESLSLSYFD   84 (311)
Q Consensus        74 --~Le~L~l~~c~   84 (311)
                        +|++|++.+|.
T Consensus        84 ~~~L~~L~L~~n~   96 (461)
T 1z7x_W           84 SCKIQKLSLQNCC   96 (461)
T ss_dssp             TCCCCEEECTTSC
T ss_pred             CCceeEEEccCCC
Confidence              46666666654

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.04  E-value=3.5e-11  Score=104.02  Aligned_cols=181  Identities=20%  Similarity=0.183  Sum_probs=113.0

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC-CCC-CCCCCCcccEEEeeeeeeChHH-HHHHHhcCcccccccccccccee---E
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD-PPL-TFTGFPCLRSLNLHQVLVAPEA-IESLISSCPLLESLSLSYFDSLD---L   88 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~-~~~-~~~~l~~L~~L~L~~~~~~~~~-l~~ll~~cp~Le~L~l~~c~~~~---~   88 (311)
                      ...+|..+.  ++|++|+|+++.+. .|. .+.++++|+.|+|+++.+.... ....+.++++|++|++.++....   .
T Consensus        19 l~~ip~~~~--~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~l~~~   96 (306)
T 2z66_A           19 LTSVPTGIP--SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSN   96 (306)
T ss_dssp             CSSCCSCCC--TTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSEEEEEEE
T ss_pred             cccCCCCCC--CCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCCccccChhh
Confidence            456777554  68999999999886 333 3678999999999999876321 12224579999999999987544   2


Q ss_pred             EEeCCCceEEEeece-eeee----eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEe
Q 042404           89 NICAPELKYLYLEGE-FKDI----HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYL  163 (311)
Q Consensus        89 ~i~~~~L~~L~i~~~-~~~~----~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l  163 (311)
                      ....++|++|.+.++ ...+    .+..+++|+.++++.+...+           .....+..+++|+.|++..+.+.. 
T Consensus        97 ~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~-----------~~~~~~~~l~~L~~L~l~~n~l~~-  164 (306)
T 2z66_A           97 FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRV-----------AFNGIFNGLSSLEVLKMAGNSFQE-  164 (306)
T ss_dssp             EETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEE-----------CSTTTTTTCTTCCEEECTTCEEGG-
T ss_pred             cCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCc-----------cchhhcccCcCCCEEECCCCcccc-
Confidence            334689999999885 2222    34578889999886654321           112335667777888777665431 


Q ss_pred             ecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          164 SIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       164 ~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                        ...+..+ ..+++|++|.+....+..     ..+..+..+|+|+.|++..+.
T Consensus       165 --~~~~~~~-~~l~~L~~L~Ls~n~l~~-----~~~~~~~~l~~L~~L~L~~N~  210 (306)
T 2z66_A          165 --NFLPDIF-TELRNLTFLDLSQCQLEQ-----LSPTAFNSLSSLQVLNMSHNN  210 (306)
T ss_dssp             --GEECSCC-TTCTTCCEEECTTSCCCE-----ECTTTTTTCTTCCEEECTTSC
T ss_pred             --ccchhHH-hhCcCCCEEECCCCCcCC-----cCHHHhcCCCCCCEEECCCCc
Confidence              0012222 245667777663211111     112345566777777776554

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.04  E-value=1e-11  Score=108.75  Aligned_cols=221  Identities=16%  Similarity=0.135  Sum_probs=140.9

Q ss_pred             cccC--CCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee----EEEeCCC
Q 042404           22 LFNC--RKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD----LNICAPE   94 (311)
Q Consensus        22 ~~~~--~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~----~~i~~~~   94 (311)
                      +...  +.++.|++.++.+. .++.+.++++|+.|+++++.+.+..+...+..||+|++|++.+|...+    .....++
T Consensus        64 ~~~~~~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~  143 (336)
T 2ast_B           64 TGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSN  143 (336)
T ss_dssp             HHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTT
T ss_pred             HHhhhhccceEEEcCCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCC
Confidence            3444  78999999998875 334466789999999999999887788889999999999999986432    1113689


Q ss_pred             ceEEEeece--eee--e--eecCCCCcceeEEEEE-EccccchhhcccccchHHHHhcCCC-cceEEEEeeeEEEEeecC
Q 042404           95 LKYLYLEGE--FKD--I--HLESTPLLVSMSIAMY-MTDDIAEHFEQSSSCNFLKILGGVP-HLEKLVGYIYFTKYLSIG  166 (311)
Q Consensus        95 L~~L~i~~~--~~~--~--~i~~~p~L~~l~l~~~-~~~~~~~~~~~~~~~~~~~~l~~l~-~l~~L~l~~~~~~~l~~~  166 (311)
                      |++|.+.++  +..  +  .+..+|+|++++++.+ ...+          ..+...+..++ +|+.|++.++... +..+
T Consensus       144 L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~----------~~~~~~~~~l~~~L~~L~l~~~~~~-~~~~  212 (336)
T 2ast_B          144 LVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTE----------KHVQVAVAHVSETITQLNLSGYRKN-LQKS  212 (336)
T ss_dssp             CSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCH----------HHHHHHHHHSCTTCCEEECCSCGGG-SCHH
T ss_pred             CCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcCh----------HHHHHHHHhcccCCCEEEeCCCccc-CCHH
Confidence            999999986  221  1  2457899999999877 3321          12456677888 9999999876210 0000


Q ss_pred             CCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccceeE
Q 042404          167 DDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKL  246 (311)
Q Consensus       167 ~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~  246 (311)
                      ..+. ....+++|++|.+.....-..    .....+..+|+|+.|++..+...       .......   . ..+++|+.
T Consensus       213 ~l~~-~~~~~~~L~~L~l~~~~~l~~----~~~~~l~~l~~L~~L~l~~~~~~-------~~~~~~~---l-~~~~~L~~  276 (336)
T 2ast_B          213 DLST-LVRRCPNLVHLDLSDSVMLKN----DCFQEFFQLNYLQHLSLSRCYDI-------IPETLLE---L-GEIPTLKT  276 (336)
T ss_dssp             HHHH-HHHHCTTCSEEECTTCTTCCG----GGGGGGGGCTTCCEEECTTCTTC-------CGGGGGG---G-GGCTTCCE
T ss_pred             HHHH-HHhhCCCCCEEeCCCCCcCCH----HHHHHHhCCCCCCEeeCCCCCCC-------CHHHHHH---H-hcCCCCCE
Confidence            1111 123578899999843221111    12234677899999999877421       1111111   1 12588999


Q ss_pred             EEEEeecCCcchHHHHHHHHccCcccc
Q 042404          247 VKMTDISGVPHEMELIKFLLSNSPVLE  273 (311)
Q Consensus       247 v~i~~~~g~~~~~~l~~~ll~~a~~Le  273 (311)
                      +.+.|.    -..+.+..+.++.+.|+
T Consensus       277 L~l~~~----i~~~~~~~l~~~l~~L~  299 (336)
T 2ast_B          277 LQVFGI----VPDGTLQLLKEALPHLQ  299 (336)
T ss_dssp             EECTTS----SCTTCHHHHHHHSTTSE
T ss_pred             EeccCc----cCHHHHHHHHhhCcceE
Confidence            888765    11222334445555555

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.04  E-value=3.5e-10  Score=103.68  Aligned_cols=227  Identities=15%  Similarity=0.167  Sum_probs=107.2

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|+|..+..  ..+|. +..+++|++|+|++|.+...+.+.++++|++|+++++.+.+-.  . +..+++|++|++.
T Consensus        69 ~L~~L~Ls~n~l--~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~~--~-~~~l~~L~~L~l~  142 (466)
T 1o6v_A           69 NLTQINFSNNQL--TDITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDID--P-LKNLTNLNRLELS  142 (466)
T ss_dssp             TCCEEECCSSCC--CCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCG--G-GTTCTTCSEEEEE
T ss_pred             CCCEEECCCCcc--CCchh-hhccccCCEEECCCCccccChhhcCCCCCCEEECCCCCCCCCh--H-HcCCCCCCEEECC
Confidence            445555544322  23333 5555666666666655542222555666666666665554321  1 4556666666666


Q ss_pred             cccceeE--EEeCCCceEEEeeceeee-eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeee
Q 042404           82 YFDSLDL--NICAPELKYLYLEGEFKD-IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIY  158 (311)
Q Consensus        82 ~c~~~~~--~i~~~~L~~L~i~~~~~~-~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~  158 (311)
                      +|....+  ....++|+.|.+...... ..+..+++|+.++++.+...+             ...+..+++|+.|++..+
T Consensus       143 ~n~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~-------------~~~l~~l~~L~~L~l~~n  209 (466)
T 1o6v_A          143 SNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSD-------------ISVLAKLTNLESLIATNN  209 (466)
T ss_dssp             EEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCC-------------CGGGGGCTTCSEEECCSS
T ss_pred             CCccCCChhhccCCcccEeecCCcccCchhhccCCCCCEEECcCCcCCC-------------ChhhccCCCCCEEEecCC
Confidence            5542211  112245555555432211 123455566666555443221             111345566666666554


Q ss_pred             EEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCc
Q 042404          159 FTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHAD  238 (311)
Q Consensus       159 ~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~  238 (311)
                      .+..+.    +   ...+++|++|.+....+..   +    ..+..+++|+.|++..+.....      .        +-
T Consensus       210 ~l~~~~----~---~~~l~~L~~L~l~~n~l~~---~----~~l~~l~~L~~L~l~~n~l~~~------~--------~~  261 (466)
T 1o6v_A          210 QISDIT----P---LGILTNLDELSLNGNQLKD---I----GTLASLTNLTDLDLANNQISNL------A--------PL  261 (466)
T ss_dssp             CCCCCG----G---GGGCTTCCEEECCSSCCCC---C----GGGGGCTTCSEEECCSSCCCCC------G--------GG
T ss_pred             cccccc----c---ccccCCCCEEECCCCCccc---c----hhhhcCCCCCEEECCCCccccc------h--------hh
Confidence            332110    0   1235566666663211111   1    1245666666666665432210      0        11


Q ss_pred             ccccceeEEEEEeecCCcchHHHHHHHHccCcccceEEEEecc
Q 042404          239 CSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCT  281 (311)
Q Consensus       239 ~~~~~Lk~v~i~~~~g~~~~~~l~~~ll~~a~~Le~l~i~~~~  281 (311)
                      ..+++|+.+.+.+-.-.... .     +.+.+.|+.+.+....
T Consensus       262 ~~l~~L~~L~l~~n~l~~~~-~-----~~~l~~L~~L~L~~n~  298 (466)
T 1o6v_A          262 SGLTKLTELKLGANQISNIS-P-----LAGLTALTNLELNENQ  298 (466)
T ss_dssp             TTCTTCSEEECCSSCCCCCG-G-----GTTCTTCSEEECCSSC
T ss_pred             hcCCCCCEEECCCCccCccc-c-----ccCCCccCeEEcCCCc
Confidence            23467777776642211111 0     5677888888887543

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=99.03  E-value=1.5e-11  Score=119.67  Aligned_cols=132  Identities=20%  Similarity=0.204  Sum_probs=65.9

Q ss_pred             ecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee----EEE
Q 042404           17 RVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD----LNI   90 (311)
Q Consensus        17 ~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~----~~i   90 (311)
                      .+|..+..+++|++|+|++|.+.  .|..+..+++|+.|+++++.+.+. ++..+..+++|+.|++.+|...+    ...
T Consensus       409 ~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~-~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~  487 (768)
T 3rgz_A          409 KIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGE-IPQELMYVKTLETLILDFNDLTGEIPSGLS  487 (768)
T ss_dssp             ECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSC-CCGGGGGCTTCCEEECCSSCCCSCCCGGGG
T ss_pred             ccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCc-CCHHHcCCCCceEEEecCCcccCcCCHHHh
Confidence            45555556666666666665553  334455556666666666555432 22224455666666665554322    111


Q ss_pred             eCCCceEEEeecee-e-e--eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEE
Q 042404           91 CAPELKYLYLEGEF-K-D--IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFT  160 (311)
Q Consensus        91 ~~~~L~~L~i~~~~-~-~--~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~  160 (311)
                      ..++|+.|.+.++. . .  ..+..+++|+.++++.+...+           .+...++.+++|+.|++..+.+
T Consensus       488 ~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~-----------~~p~~l~~l~~L~~L~Ls~N~l  550 (768)
T 3rgz_A          488 NCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSG-----------NIPAELGDCRSLIWLDLNTNLF  550 (768)
T ss_dssp             GCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEE-----------ECCGGGGGCTTCCEEECCSSEE
T ss_pred             cCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccC-----------cCCHHHcCCCCCCEEECCCCcc
Confidence            23455556555541 1 1  123345555555555443221           1123345667777777766544

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.03  E-value=4.1e-11  Score=107.24  Aligned_cols=121  Identities=17%  Similarity=0.209  Sum_probs=75.1

Q ss_pred             CceEEEEEeCCCeeeecCCCc-ccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCL-FNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~-~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      +++.|++.-..  ...+|..+ ..+++|++|+|+++.+.  .+..+..+++|++|+|+++.+... ....+.++++|++|
T Consensus        46 ~l~~l~l~~~~--l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L  122 (390)
T 3o6n_A           46 NQKIVTFKNST--MRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYL-PPHVFQNVPLLTVL  122 (390)
T ss_dssp             CCSEEEEESCE--ESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCC-CTTTTTTCTTCCEE
T ss_pred             CceEEEecCCc--hhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcC-CHHHhcCCCCCCEE
Confidence            45666665442  34567664 45778888888877765  334567778888888887776542 22335677888888


Q ss_pred             ccccccceeE----EEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEc
Q 042404           79 SLSYFDSLDL----NICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMT  125 (311)
Q Consensus        79 ~l~~c~~~~~----~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~  125 (311)
                      ++.+|....+    ....++|++|.+.++ ...+   .+..+++|+.++++.+..
T Consensus       123 ~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l  177 (390)
T 3o6n_A          123 VLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL  177 (390)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCC
T ss_pred             ECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcC
Confidence            8877753331    123467777777764 2222   244667777777766543

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.01  E-value=1.3e-11  Score=116.87  Aligned_cols=106  Identities=20%  Similarity=0.185  Sum_probs=57.1

Q ss_pred             ecCCC-cccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee-E----E
Q 042404           17 RVPSC-LFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD-L----N   89 (311)
Q Consensus        17 ~lp~~-~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~-~----~   89 (311)
                      .+|.. +..+++|++|+|++|.+. .|..+..+++|++|+++++.+... ....+..+++|++|++.+|.... +    .
T Consensus       268 ~~~~~~~~~l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~  346 (606)
T 3t6q_A          268 NISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENL-CQISASNFPSLTHLSIKGNTKRLELGTGCL  346 (606)
T ss_dssp             SCCTTTTTTCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBG-GGGCGGGCTTCSEEECCSCSSCCBCCSSTT
T ss_pred             ccCHHHhccccCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcC-chhhhhccCcCCEEECCCCCcccccchhhh
Confidence            34433 556677777777777664 445566677777777777766542 22235566777777776664321 1    1


Q ss_pred             EeCCCceEEEeece-eeee-----eecCCCCcceeEEEEE
Q 042404           90 ICAPELKYLYLEGE-FKDI-----HLESTPLLVSMSIAMY  123 (311)
Q Consensus        90 i~~~~L~~L~i~~~-~~~~-----~i~~~p~L~~l~l~~~  123 (311)
                      ...++|++|.+.++ ....     .+..+++|+.++++.+
T Consensus       347 ~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n  386 (606)
T 3t6q_A          347 ENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYN  386 (606)
T ss_dssp             TTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSC
T ss_pred             hccCcCCEEECCCCccccccCcchhcccCCCCCEEECCCC
Confidence            12345555555553 1111     1334555555555443

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.01  E-value=4.2e-12  Score=111.21  Aligned_cols=195  Identities=14%  Similarity=0.115  Sum_probs=117.4

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC---CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD---PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~---~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      +++.|++.-.  .....+..++.+++|++|+|++|.+.   .+..+.++++|++|+++++.+.+... ..++.|++|++|
T Consensus        71 ~l~~L~l~~n--~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~-~~l~~~~~L~~L  147 (336)
T 2ast_B           71 GVIAFRCPRS--FMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIV-NTLAKNSNLVRL  147 (336)
T ss_dssp             TCSEEECTTC--EECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHH-HHHTTCTTCSEE
T ss_pred             cceEEEcCCc--cccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHH-HHHhcCCCCCEE
Confidence            4555654322  22334455678889999999988775   23345678889999998888776633 446778899999


Q ss_pred             cccccccee------EEEeCCCceEEEeece-e-ee--e--eecCCC-CcceeEEEEEEccccchhhcccccchHHHHhc
Q 042404           79 SLSYFDSLD------LNICAPELKYLYLEGE-F-KD--I--HLESTP-LLVSMSIAMYMTDDIAEHFEQSSSCNFLKILG  145 (311)
Q Consensus        79 ~l~~c~~~~------~~i~~~~L~~L~i~~~-~-~~--~--~i~~~p-~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~  145 (311)
                      ++.+|..+.      +.-..++|++|.+.++ . ..  +  .+..+| +|++++++.+... .       ....+...+.
T Consensus       148 ~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~-~-------~~~~l~~~~~  219 (336)
T 2ast_B          148 NLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKN-L-------QKSDLSTLVR  219 (336)
T ss_dssp             ECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGG-S-------CHHHHHHHHH
T ss_pred             ECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCccc-C-------CHHHHHHHHh
Confidence            998885332      2234578888888876 2 11  1  234678 8888888776310 0       0123344556


Q ss_pred             CCCcceEEEEeeeE-EEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEec
Q 042404          146 GVPHLEKLVGYIYF-TKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGS  216 (311)
Q Consensus       146 ~l~~l~~L~l~~~~-~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~  216 (311)
                      .+++|+.|++..+. +..    ..+..+ ..+++|++|.+.........   .+ ..+.++|+|+.|++.++
T Consensus       220 ~~~~L~~L~l~~~~~l~~----~~~~~l-~~l~~L~~L~l~~~~~~~~~---~~-~~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          220 RCPNLVHLDLSDSVMLKN----DCFQEF-FQLNYLQHLSLSRCYDIIPE---TL-LELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             HCTTCSEEECTTCTTCCG----GGGGGG-GGCTTCCEEECTTCTTCCGG---GG-GGGGGCTTCCEEECTTS
T ss_pred             hCCCCCEEeCCCCCcCCH----HHHHHH-hCCCCCCEeeCCCCCCCCHH---HH-HHHhcCCCCCEEeccCc
Confidence            77888888887653 211    111122 24677777777321111111   11 23566888888888765

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.01  E-value=9.9e-12  Score=108.20  Aligned_cols=96  Identities=16%  Similarity=0.162  Sum_probs=53.1

Q ss_pred             CCCCcEEEccceeeCC--CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCCceEEEeec
Q 042404           25 CRKLTRLELFRCEFDP--PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEG  102 (311)
Q Consensus        25 ~~~L~~L~L~~~~l~~--~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~L~~L~i~~  102 (311)
                      +++|++|+|++|.+..  |..+..+++|+.|+|+++.+.+.. +  +..+++|++|++.+|...++. ..++|+.|.+.+
T Consensus        33 ~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~-~--~~~l~~L~~L~Ls~n~l~~l~-~~~~L~~L~l~~  108 (317)
T 3o53_A           33 AWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETL-D--LESLSTLRTLDLNNNYVQELL-VGPSIETLHAAN  108 (317)
T ss_dssp             GGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEE-E--ETTCTTCCEEECCSSEEEEEE-ECTTCCEEECCS
T ss_pred             CCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcch-h--hhhcCCCCEEECcCCcccccc-CCCCcCEEECCC
Confidence            4567777777766642  223556677777777766654321 1  556677777777666532222 235666666665


Q ss_pred             e-eeeeeecCCCCcceeEEEEEE
Q 042404          103 E-FKDIHLESTPLLVSMSIAMYM  124 (311)
Q Consensus       103 ~-~~~~~i~~~p~L~~l~l~~~~  124 (311)
                      + ...+.....++|+.++++.+.
T Consensus       109 n~l~~~~~~~~~~L~~L~l~~N~  131 (317)
T 3o53_A          109 NNISRVSCSRGQGKKNIYLANNK  131 (317)
T ss_dssp             SCCSEEEECCCSSCEEEECCSSC
T ss_pred             CccCCcCccccCCCCEEECCCCC
Confidence            4 233333345556666555443

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.01  E-value=2.9e-11  Score=111.51  Aligned_cols=174  Identities=14%  Similarity=0.150  Sum_probs=81.2

Q ss_pred             CCcEEEccceeeCC--CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCCceEEEeece-
Q 042404           27 KLTRLELFRCEFDP--PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGE-  103 (311)
Q Consensus        27 ~L~~L~L~~~~l~~--~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~L~~L~i~~~-  103 (311)
                      +|++|+|++|.+..  |..+..+++|++|+|+++.+.+. .+  +..+++|+.|++++|....+. ..++|+.|.+.++ 
T Consensus        35 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~--l~~l~~L~~L~Ls~N~l~~l~-~~~~L~~L~L~~N~  110 (487)
T 3oja_A           35 NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYET-LD--LESLSTLRTLDLNNNYVQELL-VGPSIETLHAANNN  110 (487)
T ss_dssp             GCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEE-EE--CTTCTTCCEEECCSSEEEEEE-ECTTCCEEECCSSC
T ss_pred             CccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCC-cc--cccCCCCCEEEecCCcCCCCC-CCCCcCEEECcCCc
Confidence            56666666665542  23455666666666666655432 11  455666666666665432222 2255666655553 


Q ss_pred             eeeeeecCCCCcceeEEEEEEccccchh-hc-----------cc--ccchHHHHhcCCCcceEEEEeeeEEEEeecCCCC
Q 042404          104 FKDIHLESTPLLVSMSIAMYMTDDIAEH-FE-----------QS--SSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDP  169 (311)
Q Consensus       104 ~~~~~i~~~p~L~~l~l~~~~~~~~~~~-~~-----------~~--~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~  169 (311)
                      ...+.....++|+.++++.+...+..+. +.           ..  .......+...+++|+.|+++.+.+..+..    
T Consensus       111 l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~~----  186 (487)
T 3oja_A          111 ISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKG----  186 (487)
T ss_dssp             CCCEEECCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEEC----
T ss_pred             CCCCCccccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCccccccc----
Confidence            2222223445555555544432221000 00           00  000112222345666666666555433210    


Q ss_pred             CCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          170 GRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       170 ~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                        .. .+++|+.|.+....+.      .++.-+..+++|+.|++..+.
T Consensus       187 --~~-~l~~L~~L~Ls~N~l~------~~~~~~~~l~~L~~L~Ls~N~  225 (487)
T 3oja_A          187 --QV-VFAKLKTLDLSSNKLA------FMGPEFQSAAGVTWISLRNNK  225 (487)
T ss_dssp             --CC-CCTTCCEEECCSSCCC------EECGGGGGGTTCSEEECTTSC
T ss_pred             --cc-cCCCCCEEECCCCCCC------CCCHhHcCCCCccEEEecCCc
Confidence              11 2566777766321111      122225566777777776554

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.00  E-value=3.9e-11  Score=113.42  Aligned_cols=122  Identities=16%  Similarity=0.207  Sum_probs=88.0

Q ss_pred             CceEEEEEeCCCeeeecCCCc-ccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCL-FNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~-~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      +++.+++.-+  ....+|..+ ..+++|++|+|++|.+.  .+..+..+++|+.|+|+++.+..- .+..+.++++|+.|
T Consensus        52 ~l~~l~l~~~--~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L  128 (597)
T 3oja_B           52 NQKIVTFKNS--TMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYL-PPHVFQNVPLLTVL  128 (597)
T ss_dssp             CCSEEEESSC--EESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCC-CTTTTTTCTTCCEE
T ss_pred             CceEEEeeCC--CCCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCC-CHHHHcCCCCCCEE
Confidence            3455554333  345688775 46899999999999876  345788999999999999987663 33446789999999


Q ss_pred             ccccccceeE----EEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEcc
Q 042404           79 SLSYFDSLDL----NICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTD  126 (311)
Q Consensus        79 ~l~~c~~~~~----~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~  126 (311)
                      ++.+|....+    ....++|++|.+.++ +..+   .+..+++|+.++++.+...
T Consensus       129 ~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  184 (597)
T 3oja_B          129 VLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT  184 (597)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCS
T ss_pred             EeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCC
Confidence            9999864332    124578999999886 3332   3567889999988766543

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.00  E-value=1.6e-11  Score=109.75  Aligned_cols=253  Identities=15%  Similarity=0.073  Sum_probs=146.7

Q ss_pred             eecCCCcccCCCCcEEEccceeeCC------CCCCCCCCcccEEEeeeeeeC---h------HHHHHHHhcCcccccccc
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFDP------PLTFTGFPCLRSLNLHQVLVA---P------EAIESLISSCPLLESLSL   80 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~~------~~~~~~l~~L~~L~L~~~~~~---~------~~l~~ll~~cp~Le~L~l   80 (311)
                      ..++..+..+++|++|+|++|.+..      +..+..+++|++|+|+++.+.   +      ..+...+..+++|++|++
T Consensus        22 ~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~L  101 (386)
T 2ca6_A           22 KSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRL  101 (386)
T ss_dssp             HTTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEEC
T ss_pred             HHHHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEEC
Confidence            3566667778889999999888752      123567888999988886433   1      123344567889999998


Q ss_pred             cccccee--------EEEeCCCceEEEeecee-ee---eeec----CC---------CCcceeEEEEEEccccchhhccc
Q 042404           81 SYFDSLD--------LNICAPELKYLYLEGEF-KD---IHLE----ST---------PLLVSMSIAMYMTDDIAEHFEQS  135 (311)
Q Consensus        81 ~~c~~~~--------~~i~~~~L~~L~i~~~~-~~---~~i~----~~---------p~L~~l~l~~~~~~~~~~~~~~~  135 (311)
                      .+|....        .-...++|++|.+.++. ..   ..+.    ..         ++|+.++++.+...+.       
T Consensus       102 s~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~-------  174 (386)
T 2ca6_A          102 SDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENG-------  174 (386)
T ss_dssp             CSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGG-------
T ss_pred             CCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcH-------
Confidence            8875322        11245788888888752 11   1111    22         8888888877654310       


Q ss_pred             ccchHHHHhcCCCcceEEEEeeeEEEEeecC-CCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEE
Q 042404          136 SSCNFLKILGGVPHLEKLVGYIYFTKYLSIG-DDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHIS  214 (311)
Q Consensus       136 ~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~-~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~  214 (311)
                      ....+...+..+++|+.|++..+.+...... ..+..+ ..+++|++|.+.. +.-...+...++..+..+|+|+.|++.
T Consensus       175 ~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l-~~~~~L~~L~Ls~-n~l~~~g~~~l~~~l~~~~~L~~L~L~  252 (386)
T 2ca6_A          175 SMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGL-AYCQELKVLDLQD-NTFTHLGSSALAIALKSWPNLRELGLN  252 (386)
T ss_dssp             GHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTG-GGCTTCCEEECCS-SCCHHHHHHHHHHHGGGCTTCCEEECT
T ss_pred             HHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHh-hcCCCccEEECcC-CCCCcHHHHHHHHHHccCCCcCEEECC
Confidence            1112234566778899998887754311000 001112 2577888888832 222222345677788889999999887


Q ss_pred             eccCCcccccCCCchhhcccccCcccccceeEEEEEeecCCcc-hHHHHHHHHccCcccceEEEEecccc
Q 042404          215 GSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGVPH-EMELIKFLLSNSPVLEIMSITPCTFV  283 (311)
Q Consensus       215 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~~~g~~~-~~~l~~~ll~~a~~Le~l~i~~~~~~  283 (311)
                      .+......... -...+     ....+++|+.+.+.+-.-... ...+...+..+.+.|+.+.+......
T Consensus       253 ~n~i~~~~~~~-l~~~l-----~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l~  316 (386)
T 2ca6_A          253 DCLLSARGAAA-VVDAF-----SKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFS  316 (386)
T ss_dssp             TCCCCHHHHHH-HHHHH-----HTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSC
T ss_pred             CCCCchhhHHH-HHHHH-----hhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCcCC
Confidence            66432110000 00000     001257777777664322221 22355666677888988888766543

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.00  E-value=5.5e-11  Score=101.02  Aligned_cols=131  Identities=18%  Similarity=0.165  Sum_probs=76.3

Q ss_pred             eecCCCcccCCCCcEEEccceeeCC--CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEE----
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFDP--PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLN----   89 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~~--~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~----   89 (311)
                      ..+|..+.  ++|++|+|+++.+..  +..+.++++|++|+++++.+..- ....+..+++|++|++.++....+.    
T Consensus        29 ~~ip~~~~--~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i-~~~~~~~l~~L~~L~l~~n~l~~~~~~~~  105 (270)
T 2o6q_A           29 TAIPSNIP--ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTL-PAGIFKELKNLETLWVTDNKLQALPIGVF  105 (270)
T ss_dssp             SSCCSCCC--TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCC-CTTTTSSCTTCCEEECCSSCCCCCCTTTT
T ss_pred             CccCCCCC--CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCee-ChhhhcCCCCCCEEECCCCcCCcCCHhHc
Confidence            45666554  678889998887752  33577888999999988876532 2233567888888888877532211    


Q ss_pred             EeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEE
Q 042404           90 ICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFT  160 (311)
Q Consensus        90 i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~  160 (311)
                      ...++|++|.+.++ ...+   .+..+++|+.++++.+...+..           ...+..+++|+.|++..+.+
T Consensus       106 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~-----------~~~~~~l~~L~~L~L~~n~l  169 (270)
T 2o6q_A          106 DQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLP-----------KGVFDKLTSLKELRLYNNQL  169 (270)
T ss_dssp             TTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-----------TTTTTTCTTCCEEECCSSCC
T ss_pred             ccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccC-----------HhHccCCcccceeEecCCcC
Confidence            12356666666653 2221   1335566666666554332110           11234556666666655543

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.00  E-value=1e-11  Score=111.10  Aligned_cols=234  Identities=15%  Similarity=0.113  Sum_probs=146.3

Q ss_pred             CceEEEEEeCCC---eeeecCCCcccCCCCcEEEccceeeC-----CCCCC-------CCCCcccEEEeeeeeeChH---
Q 042404            2 DIRELVLELGEG---EWFRVPSCLFNCRKLTRLELFRCEFD-----PPLTF-------TGFPCLRSLNLHQVLVAPE---   63 (311)
Q Consensus         2 ~v~~L~l~~~~~---~~~~lp~~~~~~~~L~~L~L~~~~l~-----~~~~~-------~~l~~L~~L~L~~~~~~~~---   63 (311)
                      ++++|+|..+..   ....++..+..+++|++|+|++|.+.     .|..+       ..+++|++|+|+++.+.+.   
T Consensus        33 ~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~  112 (386)
T 2ca6_A           33 SVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQE  112 (386)
T ss_dssp             CCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHH
T ss_pred             CccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHHHHH
Confidence            577777754422   11235566778999999999987543     12222       5789999999999998774   


Q ss_pred             HHHHHHhcCcccccccccccccee---EEE-e----C---------CCceEEEeecee-e--ee-----eecCCCCccee
Q 042404           64 AIESLISSCPLLESLSLSYFDSLD---LNI-C----A---------PELKYLYLEGEF-K--DI-----HLESTPLLVSM  118 (311)
Q Consensus        64 ~l~~ll~~cp~Le~L~l~~c~~~~---~~i-~----~---------~~L~~L~i~~~~-~--~~-----~i~~~p~L~~l  118 (311)
                      .+...+..|++|++|.|.+|....   ..+ .    .         ++|++|.+.++. .  .+     .+..+++|+.+
T Consensus       113 ~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L  192 (386)
T 2ca6_A          113 PLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTV  192 (386)
T ss_dssp             HHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEE
T ss_pred             HHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEE
Confidence            466678899999999999987421   011 1    1         799999999862 2  11     23478899999


Q ss_pred             EEEEEEccccchhhcccccchHHH-HhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHH
Q 042404          119 SIAMYMTDDIAEHFEQSSSCNFLK-ILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILV  197 (311)
Q Consensus       119 ~l~~~~~~~~~~~~~~~~~~~~~~-~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~  197 (311)
                      .++.+.....       ....+.. .+..+++|+.|++..+.+........+..+ ..+++|++|.+.. +.-...+...
T Consensus       193 ~L~~n~l~~~-------g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l-~~~~~L~~L~L~~-n~i~~~~~~~  263 (386)
T 2ca6_A          193 KMVQNGIRPE-------GIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIAL-KSWPNLRELGLND-CLLSARGAAA  263 (386)
T ss_dssp             ECCSSCCCHH-------HHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHG-GGCTTCCEEECTT-CCCCHHHHHH
T ss_pred             ECcCCCCCHh-------HHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHH-ccCCCcCEEECCC-CCCchhhHHH
Confidence            9987654310       0011233 567889999999988764211001112112 2578899999843 2223334556


Q ss_pred             HHHHHhc--CCCcceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEe
Q 042404          198 VIRLITN--SPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTD  251 (311)
Q Consensus       198 l~~~l~~--~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~  251 (311)
                      ++..+..  +|+|+.|++..+.......     ......  ....+++|+.+.+.+
T Consensus       264 l~~~l~~~~~~~L~~L~L~~n~i~~~g~-----~~l~~~--l~~~l~~L~~L~l~~  312 (386)
T 2ca6_A          264 VVDAFSKLENIGLQTLRLQYNEIELDAV-----RTLKTV--IDEKMPDLLFLELNG  312 (386)
T ss_dssp             HHHHHHTCSSCCCCEEECCSSCCBHHHH-----HHHHHH--HHHHCTTCCEEECTT
T ss_pred             HHHHHhhccCCCeEEEECcCCcCCHHHH-----HHHHHH--HHhcCCCceEEEccC
Confidence            7777755  9999999998765432100     000000  001258888888775

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=98.98  E-value=5.1e-12  Score=115.49  Aligned_cols=216  Identities=17%  Similarity=0.138  Sum_probs=124.8

Q ss_pred             CCceEEEEEeCCCe---eeecCCCcccCCCCcEEEccceeeCC--CCC-CCCCC----cccEEEeeeeeeCh---HHHHH
Q 042404            1 NDIRELVLELGEGE---WFRVPSCLFNCRKLTRLELFRCEFDP--PLT-FTGFP----CLRSLNLHQVLVAP---EAIES   67 (311)
Q Consensus         1 ~~v~~L~l~~~~~~---~~~lp~~~~~~~~L~~L~L~~~~l~~--~~~-~~~l~----~L~~L~L~~~~~~~---~~l~~   67 (311)
                      +++++|+|..+...   ...+|..+..+++|++|+|++|.+..  +.. +..++    +|++|+|++|.+.+   ..+..
T Consensus        28 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~  107 (461)
T 1z7x_W           28 QQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSS  107 (461)
T ss_dssp             TTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHH
T ss_pred             CCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHH
Confidence            36788888866532   12567777788999999999887642  111 11333    69999999988876   34666


Q ss_pred             HHhcCcccccccccccccee-----E----EEeCCCceEEEeecee-ee-----e--eecCCCCcceeEEEEEEccccc-
Q 042404           68 LISSCPLLESLSLSYFDSLD-----L----NICAPELKYLYLEGEF-KD-----I--HLESTPLLVSMSIAMYMTDDIA-  129 (311)
Q Consensus        68 ll~~cp~Le~L~l~~c~~~~-----~----~i~~~~L~~L~i~~~~-~~-----~--~i~~~p~L~~l~l~~~~~~~~~-  129 (311)
                      .+..+++|++|++.+|...+     +    .-..++|++|.+.++. ..     +  .+..+++|++++++.+...+.. 
T Consensus       108 ~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~  187 (461)
T 1z7x_W          108 TLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGV  187 (461)
T ss_dssp             HTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHH
T ss_pred             HHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHH
Confidence            67889999999998876321     1    1113468888887752 11     0  1234577888777665432110 


Q ss_pred             ----h-------hhc----------ccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeee
Q 042404          130 ----E-------HFE----------QSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVS  188 (311)
Q Consensus       130 ----~-------~~~----------~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~  188 (311)
                          .       ...          ......+...+..+++|+.|++..+.+...........+...+++|++|.+.. +
T Consensus       188 ~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~-n  266 (461)
T 1z7x_W          188 RVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWE-C  266 (461)
T ss_dssp             HHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTT-S
T ss_pred             HHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcC-C
Confidence                0       000          00001234455566777777777654321110000001111356788888733 2


Q ss_pred             cCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          189 FEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       189 ~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      .-...++..++..+..+++|++|++..+.
T Consensus       267 ~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~  295 (461)
T 1z7x_W          267 GITAKGCGDLCRVLRAKESLKELSLAGNE  295 (461)
T ss_dssp             CCCHHHHHHHHHHHHHCTTCCEEECTTCC
T ss_pred             CCCHHHHHHHHHHHhhCCCcceEECCCCC
Confidence            22333445577778888888888887654

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=98.98  E-value=1.5e-10  Score=110.16  Aligned_cols=122  Identities=15%  Similarity=0.188  Sum_probs=86.9

Q ss_pred             CCceEEEEEeCCCeeee------------------cCCCcc--cCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeee
Q 042404            1 NDIRELVLELGEGEWFR------------------VPSCLF--NCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQV   58 (311)
Q Consensus         1 ~~v~~L~l~~~~~~~~~------------------lp~~~~--~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~   58 (311)
                      +++++|+|.....  ..                  +|..++  ++++|++|+|++|.+.  .|..+.++++|+.|+++++
T Consensus       206 ~~L~~L~Ls~n~l--~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n  283 (636)
T 4eco_A          206 TKLRQFYMGNSPF--VAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACN  283 (636)
T ss_dssp             TTCCEEEEESCCC--CGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTC
T ss_pred             cCCCEEECcCCcc--ccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCC
Confidence            3678899876643  23                  999999  9999999999999764  5777889999999999999


Q ss_pred             e-eChHHHHHHHhc------CccccccccccccceeEE----E-eCCCceEEEeece-ee-ee-eecCCCCcceeEEEEE
Q 042404           59 L-VAPEAIESLISS------CPLLESLSLSYFDSLDLN----I-CAPELKYLYLEGE-FK-DI-HLESTPLLVSMSIAMY  123 (311)
Q Consensus        59 ~-~~~~~l~~ll~~------cp~Le~L~l~~c~~~~~~----i-~~~~L~~L~i~~~-~~-~~-~i~~~p~L~~l~l~~~  123 (311)
                      . +++..++.-+..      +++|+.|++.+|....+.    + ..++|+.|.+.++ +. .+ .+..+++|+.++++.+
T Consensus       284 ~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip~~~~l~~L~~L~L~~N  363 (636)
T 4eco_A          284 RGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYN  363 (636)
T ss_dssp             TTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECCCCEEEEEESEEECCSS
T ss_pred             CCCccccchHHHHhhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchhhhCCCCCCCEEECCCC
Confidence            8 877334444443      589999999887643321    1 3357888888774 22 22 3445667777776654


Q ss_pred             E
Q 042404          124 M  124 (311)
Q Consensus       124 ~  124 (311)
                      .
T Consensus       364 ~  364 (636)
T 4eco_A          364 Q  364 (636)
T ss_dssp             E
T ss_pred             c
Confidence            4

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=98.97  E-value=1.9e-10  Score=105.21  Aligned_cols=114  Identities=13%  Similarity=0.085  Sum_probs=80.2

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++.-+..  ..+| .+..+++|++|+|++|.+...+ +..+++|+.|+++++.+.+-.    +.++++|++|++.
T Consensus        43 ~L~~L~Ls~n~l--~~~~-~l~~l~~L~~L~Ls~n~l~~~~-~~~l~~L~~L~Ls~N~l~~~~----~~~l~~L~~L~L~  114 (457)
T 3bz5_A           43 TLTSLDCHNSSI--TDMT-GIEKLTGLTKLICTSNNITTLD-LSQNTNLTYLACDSNKLTNLD----VTPLTKLTYLNCD  114 (457)
T ss_dssp             TCCEEECCSSCC--CCCT-TGGGCTTCSEEECCSSCCSCCC-CTTCTTCSEEECCSSCCSCCC----CTTCTTCCEEECC
T ss_pred             CCCEEEccCCCc--ccCh-hhcccCCCCEEEccCCcCCeEc-cccCCCCCEEECcCCCCceee----cCCCCcCCEEECC
Confidence            567777765543  3455 6788889999999988877543 778888999999988876642    6678888888888


Q ss_pred             cccceeEEE-eCCCceEEEeece-eeeeeecCCCCcceeEEEEE
Q 042404           82 YFDSLDLNI-CAPELKYLYLEGE-FKDIHLESTPLLVSMSIAMY  123 (311)
Q Consensus        82 ~c~~~~~~i-~~~~L~~L~i~~~-~~~~~i~~~p~L~~l~l~~~  123 (311)
                      ++....+.+ ..++|++|.+.++ ...+.+..+++|+.++++.+
T Consensus       115 ~N~l~~l~~~~l~~L~~L~l~~N~l~~l~l~~l~~L~~L~l~~n  158 (457)
T 3bz5_A          115 TNKLTKLDVSQNPLLTYLNCARNTLTEIDVSHNTQLTELDCHLN  158 (457)
T ss_dssp             SSCCSCCCCTTCTTCCEEECTTSCCSCCCCTTCTTCCEEECTTC
T ss_pred             CCcCCeecCCCCCcCCEEECCCCccceeccccCCcCCEEECCCC
Confidence            875433222 2367888887775 34455667777777777655

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=98.97  E-value=6e-11  Score=101.05  Aligned_cols=135  Identities=16%  Similarity=0.180  Sum_probs=79.9

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEE---
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLN---   89 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~---   89 (311)
                      ...+|..+.  ++|++|+|+++.+.  .+..+.++++|+.|+++++.+..- ....+.++++|+.|++.++....+.   
T Consensus        19 l~~ip~~l~--~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~   95 (276)
T 2z62_A           19 FYKIPDNLP--FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTI-EDGAYQSLSHLSTLILTGNPIQSLALGA   95 (276)
T ss_dssp             CSSCCSSSC--TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEE-CTTTTTTCTTCCEEECTTCCCCEECTTT
T ss_pred             ccccCCCCC--CCccEEECCCCcccccCHhHhccccCCcEEECCCCcCCcc-CHHHccCCcCCCEEECCCCccCccChhh
Confidence            345666543  46778888777665  233566777788888877766532 1123456777888887776533211   


Q ss_pred             -EeCCCceEEEeece-ee---eeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEE
Q 042404           90 -ICAPELKYLYLEGE-FK---DIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKY  162 (311)
Q Consensus        90 -i~~~~L~~L~i~~~-~~---~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~  162 (311)
                       ...++|++|.+.++ ..   ...+..+++|+.++++.+...+.          .+...+..+++|+.|++..+.+..
T Consensus        96 ~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~----------~l~~~~~~l~~L~~L~Ls~N~l~~  163 (276)
T 2z62_A           96 FSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSF----------KLPEYFSNLTNLEHLDLSSNKIQS  163 (276)
T ss_dssp             TTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCC----------CCCGGGGGCTTCCEEECCSSCCCE
T ss_pred             hcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCcccee----------cCchhhccCCCCCEEECCCCCCCc
Confidence             12357777777764 21   22355677777777766543221          112335667777777777665443

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=98.96  E-value=3.1e-10  Score=106.32  Aligned_cols=189  Identities=20%  Similarity=0.155  Sum_probs=106.6

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++..+..  ..+|..+..+ +|++|++++|.+...+. ..+++|+.|.+.++.+... ..  ...+|+|+.|++.
T Consensus       283 ~L~~L~l~~~~l--~~l~~~~~~~-~L~~L~l~~n~~~~l~~-~~l~~L~~L~l~~n~~~~~-~~--~~~~~~L~~L~l~  355 (570)
T 2z63_A          283 NVSSFSLVSVTI--ERVKDFSYNF-GWQHLELVNCKFGQFPT-LKLKSLKRLTFTSNKGGNA-FS--EVDLPSLEFLDLS  355 (570)
T ss_dssp             TCSEEEEESCEE--CSCCBCCSCC-CCSEEEEESCBCSSCCB-CBCSSCCEEEEESCBSCCB-CC--CCBCTTCCEEECC
T ss_pred             cccEEEecCccc--hhhhhhhccC-CccEEeeccCcccccCc-ccccccCEEeCcCCccccc-cc--cccCCCCCEEeCc
Confidence            577888765532  4688888888 99999999888763322 4678888888887765432 11  1467888888887


Q ss_pred             cccceeEE------EeCCCceEEEeece-eeee--eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceE
Q 042404           82 YFDSLDLN------ICAPELKYLYLEGE-FKDI--HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEK  152 (311)
Q Consensus        82 ~c~~~~~~------i~~~~L~~L~i~~~-~~~~--~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~  152 (311)
                      +|......      ...++|++|.+.++ ...+  .+..+++|+.++++.+...+..          ....+..+++|+.
T Consensus       356 ~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~----------~~~~~~~l~~L~~  425 (570)
T 2z63_A          356 RNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMS----------EFSVFLSLRNLIY  425 (570)
T ss_dssp             SSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESCT----------TSCTTTTCTTCCE
T ss_pred             CCccCccccccccccccCccCEEECCCCccccccccccccCCCCEEEccCCcccccc----------chhhhhcCCCCCE
Confidence            77543211      12467777777774 2211  2557777777777654432110          0112456666666


Q ss_pred             EEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEec
Q 042404          153 LVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGS  216 (311)
Q Consensus       153 L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~  216 (311)
                      |++..+.+...    .+..+ ..+++|++|.+....+..    ..++..+..+++|+.|++..+
T Consensus       426 L~l~~n~l~~~----~~~~~-~~l~~L~~L~l~~n~l~~----~~~p~~~~~l~~L~~L~l~~n  480 (570)
T 2z63_A          426 LDISHTHTRVA----FNGIF-NGLSSLEVLKMAGNSFQE----NFLPDIFTELRNLTFLDLSQC  480 (570)
T ss_dssp             EECTTSCCEEC----CTTTT-TTCTTCCEEECTTCEEGG----GEECSCCTTCTTCCEEECTTS
T ss_pred             EeCcCCccccc----chhhh-hcCCcCcEEECcCCcCcc----ccchhhhhcccCCCEEECCCC
Confidence            66665543321    11111 235566666662211110    012334556666666666644

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=98.96  E-value=1.8e-10  Score=108.49  Aligned_cols=232  Identities=20%  Similarity=0.166  Sum_probs=119.1

Q ss_pred             CCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee----EEEeCC
Q 042404           19 PSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD----LNICAP   93 (311)
Q Consensus        19 p~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~----~~i~~~   93 (311)
                      +..+..+++|+.|.++.+... .|..+..+++|+.|+|++|.+++..+..++.+||+|+.|++..+....    +.-..+
T Consensus       263 ~~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~~~~~l~~~~~~~~  342 (592)
T 3ogk_B          263 YMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCK  342 (592)
T ss_dssp             SSCCCCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHHHHHHCT
T ss_pred             HHHhhccccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEeccCccCHHHHHHHHHhCC
Confidence            344555666666666654222 233344677888888888887777777777888888888887443211    222356


Q ss_pred             CceEEEeec----------e--eee--e-e-ecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEee
Q 042404           94 ELKYLYLEG----------E--FKD--I-H-LESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYI  157 (311)
Q Consensus        94 ~L~~L~i~~----------~--~~~--~-~-i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~  157 (311)
                      +|++|.+..          +  ...  + . ...+|+|+++.+......+          ..+..+...+++|+.|++..
T Consensus       343 ~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~----------~~~~~l~~~~~~L~~L~l~~  412 (592)
T 3ogk_B          343 QLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITN----------ESLESIGTYLKNLCDFRLVL  412 (592)
T ss_dssp             TCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCH----------HHHHHHHHHCCSCCEEEEEE
T ss_pred             CCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccH----------HHHHHHHhhCCCCcEEEEee
Confidence            788888873          2  111  1 1 2257788888774433221          12233333467777777752


Q ss_pred             e----EEEEeecCCCCC-----CCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCc
Q 042404          158 Y----FTKYLSIGDDPG-----RLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDL  228 (311)
Q Consensus       158 ~----~~~~l~~~~~~~-----~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~  228 (311)
                      .    .+.     ..|.     .+...+++|++|.+.. +.+.. .-..+..+.+.+|+|+.|.+..+.....     ..
T Consensus       413 ~~~~n~l~-----~~p~~~~~~~~~~~~~~L~~L~L~~-~~~~l-~~~~~~~~~~~~~~L~~L~L~~n~l~~~-----~~  480 (592)
T 3ogk_B          413 LDREERIT-----DLPLDNGVRSLLIGCKKLRRFAFYL-RQGGL-TDLGLSYIGQYSPNVRWMLLGYVGESDE-----GL  480 (592)
T ss_dssp             CSCCSCCS-----SCCCHHHHHHHHHHCTTCCEEEEEC-CGGGC-CHHHHHHHHHSCTTCCEEEECSCCSSHH-----HH
T ss_pred             cCCCcccc-----CchHHHHHHHHHHhCCCCCEEEEec-CCCCc-cHHHHHHHHHhCccceEeeccCCCCCHH-----HH
Confidence            1    111     0000     0112366677777621 11100 1124445556677777777764432110     00


Q ss_pred             hhhcccccCcccccceeEEEEEeecCCcchHHHHHHHHccCcccceEEEEecc
Q 042404          229 DFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSITPCT  281 (311)
Q Consensus       229 ~~~~~~~~~~~~~~~Lk~v~i~~~~g~~~~~~l~~~ll~~a~~Le~l~i~~~~  281 (311)
                      ..+      ...+++|+.+.+.+-.   -...-+..+..+.+.|+.+.+..+.
T Consensus       481 ~~~------~~~~~~L~~L~l~~n~---l~~~~~~~~~~~l~~L~~L~ls~n~  524 (592)
T 3ogk_B          481 MEF------SRGCPNLQKLEMRGCC---FSERAIAAAVTKLPSLRYLWVQGYR  524 (592)
T ss_dssp             HHH------HTCCTTCCEEEEESCC---CBHHHHHHHHHHCSSCCEEEEESCB
T ss_pred             HHH------HhcCcccCeeeccCCC---CcHHHHHHHHHhcCccCeeECcCCc
Confidence            000      0123666666666433   1223334445566777777776554

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=98.94  E-value=2.7e-10  Score=99.53  Aligned_cols=200  Identities=16%  Similarity=0.093  Sum_probs=96.5

Q ss_pred             CceEEEEEeCCCeeeecCC-CcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPS-CLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~-~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      +++.|+|.....  ..+|. .+..+++|++|+|++|.+.  .|..+.++++|++|+++++.+..  ++.  ...++|++|
T Consensus        53 ~l~~L~L~~n~i--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~--l~~--~~~~~L~~L  126 (330)
T 1xku_A           53 DTALLDLQNNKI--TEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKE--LPE--KMPKTLQEL  126 (330)
T ss_dssp             TCCEEECCSSCC--CCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSB--CCS--SCCTTCCEE
T ss_pred             CCeEEECCCCcC--CEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcCCc--cCh--hhcccccEE
Confidence            456666654433  34444 5667788888888877765  24566777888888887776542  110  112556666


Q ss_pred             ccccccceeE----EEeCCCceEEEeecee-e-----eeeecCCCCcceeEEEEEEccccchhh---------ccc-ccc
Q 042404           79 SLSYFDSLDL----NICAPELKYLYLEGEF-K-----DIHLESTPLLVSMSIAMYMTDDIAEHF---------EQS-SSC  138 (311)
Q Consensus        79 ~l~~c~~~~~----~i~~~~L~~L~i~~~~-~-----~~~i~~~p~L~~l~l~~~~~~~~~~~~---------~~~-~~~  138 (311)
                      .+.++....+    ....++|+.|.+.++. .     ...+..+++|+.++++.+.........         ... ...
T Consensus       127 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~l~~  206 (330)
T 1xku_A          127 RVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITK  206 (330)
T ss_dssp             ECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCCTTCSEEECTTSCCCE
T ss_pred             ECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCccccccCCEEECCCCcCCc
Confidence            6555532210    1123455555555431 1     011234455555554433322110000         000 000


Q ss_pred             hHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          139 NFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       139 ~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      .....+..+++|+.|++..+.+..+..    ..+ ..+++|++|.+....+.      .++..+..+++|+.|++..+..
T Consensus       207 ~~~~~~~~l~~L~~L~Ls~n~l~~~~~----~~~-~~l~~L~~L~L~~N~l~------~lp~~l~~l~~L~~L~l~~N~i  275 (330)
T 1xku_A          207 VDAASLKGLNNLAKLGLSFNSISAVDN----GSL-ANTPHLRELHLNNNKLV------KVPGGLADHKYIQVVYLHNNNI  275 (330)
T ss_dssp             ECTGGGTTCTTCCEEECCSSCCCEECT----TTG-GGSTTCCEEECCSSCCS------SCCTTTTTCSSCCEEECCSSCC
T ss_pred             cCHHHhcCCCCCCEEECCCCcCceeCh----hhc-cCCCCCCEEECCCCcCc------cCChhhccCCCcCEEECCCCcC
Confidence            002234566677777776665443211    111 23566666666321111      2333356667777777765543

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=98.93  E-value=3.2e-10  Score=111.01  Aligned_cols=125  Identities=14%  Similarity=0.181  Sum_probs=90.3

Q ss_pred             CCceEEEEEeCCCee-------e---------ecCCCcc--cCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeee-
Q 042404            1 NDIRELVLELGEGEW-------F---------RVPSCLF--NCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVL-   59 (311)
Q Consensus         1 ~~v~~L~l~~~~~~~-------~---------~lp~~~~--~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~-   59 (311)
                      +++++|+|.-+....       .         .+|..+.  ++++|++|+|++|.+.  .|..+.++++|+.|+|+++. 
T Consensus       448 ~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~  527 (876)
T 4ecn_A          448 TKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRG  527 (876)
T ss_dssp             TTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTT
T ss_pred             CCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCC
Confidence            367888987664311       1         2999988  9999999999998753  56678899999999999997 


Q ss_pred             eChHHHHHHHh-------cCccccccccccccceeEE-----EeCCCceEEEeece-eeee-eecCCCCcceeEEEEEEc
Q 042404           60 VAPEAIESLIS-------SCPLLESLSLSYFDSLDLN-----ICAPELKYLYLEGE-FKDI-HLESTPLLVSMSIAMYMT  125 (311)
Q Consensus        60 ~~~~~l~~ll~-------~cp~Le~L~l~~c~~~~~~-----i~~~~L~~L~i~~~-~~~~-~i~~~p~L~~l~l~~~~~  125 (311)
                      +++..++.-+.       .+|+|+.|++.+|....+.     ...++|+.|.+.++ +..+ .+..+++|+.++++.+..
T Consensus       528 lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp~~~~L~~L~~L~Ls~N~l  607 (876)
T 4ecn_A          528 ISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQI  607 (876)
T ss_dssp             SCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSCCCBCCCCCTTSEESEEECCSSCC
T ss_pred             cccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCCcccchhhcCCCcceEEECcCCcc
Confidence            77623443333       4569999999988744321     13468899998885 2222 455788888888876654

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=98.92  E-value=1.6e-10  Score=98.35  Aligned_cols=171  Identities=14%  Similarity=0.098  Sum_probs=85.0

Q ss_pred             cCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE----EEeCCCceEEE
Q 042404           24 NCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL----NICAPELKYLY   99 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~----~i~~~~L~~L~   99 (311)
                      .+++|+.|.+.++.+...+.+..+++|+.|+++++.+.+-  . .+..+++|++|++.+|....+    ....++|++|.
T Consensus        39 ~l~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~l~~~--~-~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  115 (272)
T 3rfs_A           39 ELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLHDI--S-ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELV  115 (272)
T ss_dssp             HHTTCCEEECTTSCCCCCTTGGGCTTCCEEECTTSCCCCC--G-GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE
T ss_pred             cccceeeeeeCCCCcccccccccCCCCcEEECCCCCCCCc--h-hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEE
Confidence            3456666666666655444555666666666666655442  1 244566666666666543221    11234566666


Q ss_pred             eece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCcc
Q 042404          100 LEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPIT  175 (311)
Q Consensus       100 i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~  175 (311)
                      +.++ ...+   .+..+++|+.++++.+...+..           ...++.+++|+.|++..+.+..     .+......
T Consensus       116 L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-----------~~~~~~l~~L~~L~l~~n~l~~-----~~~~~~~~  179 (272)
T 3rfs_A          116 LVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLP-----------KGVFDKLTNLTELDLSYNQLQS-----LPEGVFDK  179 (272)
T ss_dssp             CTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-----------TTTTTTCTTCCEEECCSSCCCC-----CCTTTTTT
T ss_pred             CCCCcCCccCHHHhccCCCCCEEECCCCccCccC-----------HHHhccCccCCEEECCCCCcCc-----cCHHHhcC
Confidence            6554 2221   1345566666666555332210           1224556666666666654332     11111123


Q ss_pred             ccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          176 YNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       176 f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      +++|++|.+....+..     ..+..+..+++|+.|++..++.
T Consensus       180 l~~L~~L~L~~N~l~~-----~~~~~~~~l~~L~~L~l~~N~~  217 (272)
T 3rfs_A          180 LTQLKDLRLYQNQLKS-----VPDGVFDRLTSLQYIWLHDNPW  217 (272)
T ss_dssp             CTTCCEEECCSSCCSC-----CCTTTTTTCTTCCEEECCSSCB
T ss_pred             CccCCEEECCCCcCCc-----cCHHHHhCCcCCCEEEccCCCc
Confidence            5566666663211111     1123355666666666665543

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=98.92  E-value=2.6e-10  Score=106.50  Aligned_cols=211  Identities=15%  Similarity=0.115  Sum_probs=137.7

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLS   79 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~   79 (311)
                      ++++|+|..+... ...|..+..+++|++|+|++|.+.  .|..+.++++|++|+|+++.+.+. ....+.++++|++|+
T Consensus        27 ~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L~  104 (549)
T 2z81_A           27 AMKSLDLSFNKIT-YIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSL-SSSWFGPLSSLKYLN  104 (549)
T ss_dssp             TCCEEECCSSCCC-EECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSC-CHHHHTTCTTCCEEE
T ss_pred             CccEEECcCCccC-ccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCcc-CHHHhccCCCCcEEE
Confidence            5788888766542 234667889999999999999876  455688999999999999988764 344578999999999


Q ss_pred             ccccccee-----EEEeCCCceEEEeece--eeee---eecCCCCcceeEEEEEEccccch-hhc-----------cccc
Q 042404           80 LSYFDSLD-----LNICAPELKYLYLEGE--FKDI---HLESTPLLVSMSIAMYMTDDIAE-HFE-----------QSSS  137 (311)
Q Consensus        80 l~~c~~~~-----~~i~~~~L~~L~i~~~--~~~~---~i~~~p~L~~l~l~~~~~~~~~~-~~~-----------~~~~  137 (311)
                      +.+|....     .....++|++|.+.++  ...+   .+..+++|++++++.+...+... .+.           ....
T Consensus       105 Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n~~  184 (549)
T 2z81_A          105 LMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSES  184 (549)
T ss_dssp             CTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSBS
T ss_pred             CCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEecccCcc
Confidence            99986432     1223468999999885  2333   35678889999888755432110 000           0000


Q ss_pred             chH-HHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEec
Q 042404          138 CNF-LKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGS  216 (311)
Q Consensus       138 ~~~-~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~  216 (311)
                      ..+ ..++..+++++.|++..+.+..+..  .+......+++|+.|.+....+.. .....+...+..++.|+.+++..+
T Consensus       185 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~--~~~~~~~~~~~L~~L~l~~n~l~~-~~~~~l~~~~~~~~~L~~l~l~~~  261 (549)
T 2z81_A          185 AFLLEIFADILSSVRYLELRDTNLARFQF--SPLPVDEVSSPMKKLAFRGSVLTD-ESFNELLKLLRYILELSEVEFDDC  261 (549)
T ss_dssp             TTHHHHHHHSTTTBSEEEEESCBCTTCCC--CCCSSCCCCCCCCEEEEESCEEEH-HHHHHHHGGGGGCTTCCEEEEESC
T ss_pred             cccchhhHhhcccccEEEccCCccccccc--cccchhhhhhcccceeccccccch-hHHHHHHHHhhhhccccccccccc
Confidence            111 2223457788888887765432110  111223346789999984433222 334466667788899999998866


Q ss_pred             c
Q 042404          217 S  217 (311)
Q Consensus       217 ~  217 (311)
                      .
T Consensus       262 ~  262 (549)
T 2z81_A          262 T  262 (549)
T ss_dssp             E
T ss_pred             c
Confidence            4

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=98.92  E-value=2.4e-10  Score=92.30  Aligned_cols=140  Identities=15%  Similarity=0.114  Sum_probs=79.3

Q ss_pred             ccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee----EEEeCCCceEE
Q 042404           23 FNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD----LNICAPELKYL   98 (311)
Q Consensus        23 ~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~----~~i~~~~L~~L   98 (311)
                      ..+++|++|+++++.+...+.+..+++|++|+++++.+..-  . .+..+++|++|++.+|....    .....++|++|
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~~~~~--~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L  117 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNY--N-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLL  117 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCCCSCC--G-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEE
T ss_pred             hhcCCccEEeccCCCccChHHHhcCCCCCEEEccCCCCCcc--h-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEE
Confidence            34456666666666555322455566666666666644331  1 24456666666666654321    11123566666


Q ss_pred             Eeece-eee---eeecCCCCcceeEEEEEE-ccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCC
Q 042404           99 YLEGE-FKD---IHLESTPLLVSMSIAMYM-TDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLP  173 (311)
Q Consensus        99 ~i~~~-~~~---~~i~~~p~L~~l~l~~~~-~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~  173 (311)
                      .+.++ ...   -.+..+++|+.++++.+. ..+            +. .+..+++|+.|++..+.+..     .+ .+ 
T Consensus       118 ~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~------------~~-~l~~l~~L~~L~l~~n~i~~-----~~-~l-  177 (197)
T 4ezg_A          118 DISHSAHDDSILTKINTLPKVNSIDLSYNGAITD------------IM-PLKTLPELKSLNIQFDGVHD-----YR-GI-  177 (197)
T ss_dssp             ECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCC------------CG-GGGGCSSCCEEECTTBCCCC-----CT-TG-
T ss_pred             EecCCccCcHhHHHHhhCCCCCEEEccCCCCccc------------cH-hhcCCCCCCEEECCCCCCcC-----hH-Hh-
Confidence            66664 221   124577888888887764 221            12 35778888888888876543     22 12 


Q ss_pred             ccccccceEEEe
Q 042404          174 ITYNHLKVIELY  185 (311)
Q Consensus       174 ~~f~~L~~L~l~  185 (311)
                      ..+++|++|.+.
T Consensus       178 ~~l~~L~~L~l~  189 (197)
T 4ezg_A          178 EDFPKLNQLYAF  189 (197)
T ss_dssp             GGCSSCCEEEEC
T ss_pred             ccCCCCCEEEee
Confidence            257888888883

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=98.92  E-value=2.3e-10  Score=108.16  Aligned_cols=198  Identities=18%  Similarity=0.106  Sum_probs=126.6

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLS   79 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~   79 (311)
                      ++++|++..+..  ..+|..+..+++|++|+|++|.+.  .|..+.++++|+.|+++++.+........+..+++|+.|+
T Consensus       279 ~L~~L~l~~n~l--~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~  356 (606)
T 3t6q_A          279 GLQELDLTATHL--SELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELD  356 (606)
T ss_dssp             TCSEEECTTSCC--SCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEE
T ss_pred             CCCEEeccCCcc--CCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEE
Confidence            455555544432  478888888999999999988875  2446778899999999988765332222356789999999


Q ss_pred             cccccceeEE------EeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCc
Q 042404           80 LSYFDSLDLN------ICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPH  149 (311)
Q Consensus        80 l~~c~~~~~~------i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  149 (311)
                      +.+|....+.      ...++|+.|.+.++ ...+   .+..+++|+.++++.+...+.          .....+..+++
T Consensus       357 l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~----------~~~~~~~~l~~  426 (606)
T 3t6q_A          357 LSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVK----------DAQSPFQNLHL  426 (606)
T ss_dssp             CCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECC----------TTCCTTTTCTT
T ss_pred             CCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCc----------ccchhhhCccc
Confidence            9888654322      13468899998885 2222   345788899888866543211          01223567888


Q ss_pred             ceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          150 LEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       150 l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      |+.|++..+.+..    ..+..+ ..+++|++|.+....+... .+ .....+..+++|+.|++..+..
T Consensus       427 L~~L~l~~n~l~~----~~~~~~-~~l~~L~~L~L~~n~l~~~-~~-~~~~~~~~l~~L~~L~Ls~n~l  488 (606)
T 3t6q_A          427 LKVLNLSHSLLDI----SSEQLF-DGLPALQHLNLQGNHFPKG-NI-QKTNSLQTLGRLEILVLSFCDL  488 (606)
T ss_dssp             CCEEECTTCCCBT----TCTTTT-TTCTTCCEEECTTCBCGGG-EE-CSSCGGGGCTTCCEEECTTSCC
T ss_pred             CCEEECCCCccCC----cCHHHH-hCCCCCCEEECCCCCCCcc-cc-ccchhhccCCCccEEECCCCcc
Confidence            9999988775432    112222 2478888888833211110 00 0113477889999999987654

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=98.91  E-value=1.2e-10  Score=113.97  Aligned_cols=144  Identities=10%  Similarity=0.043  Sum_probs=87.6

Q ss_pred             CceEEEEEeCCCeeeecCC--CcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcc-cccc
Q 042404            2 DIRELVLELGEGEWFRVPS--CLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPL-LESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~--~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~-Le~L   78 (311)
                      ++++|+|..+..  ..+|.  .+.++++|+.|+|++|.+...+.+..+++|+.|+|+++.+.  .++..+..+++ |+.|
T Consensus       549 ~L~~L~Ls~N~L--~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp~~~~L~~L~~L~Ls~N~l~--~lp~~l~~l~~~L~~L  624 (876)
T 4ecn_A          549 KIQIFYMGYNNL--EEFPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIE--EIPEDFCAFTDQVEGL  624 (876)
T ss_dssp             TCCEEECCSSCC--CBCCCHHHHTTCTTCCEEECTTSCCCBCCCCCTTSEESEEECCSSCCS--CCCTTSCEECTTCCEE
T ss_pred             CccEEEeeCCcC--CccCChhhhhcCCCCCEEECCCCCcccchhhcCCCcceEEECcCCccc--cchHHHhhccccCCEE
Confidence            567777766654  37888  78888888888888887753236778888888888888776  24444667787 8888


Q ss_pred             ccccccceeEE-----EeCCCceEEEeecee-e----eee--ec--CCCCcceeEEEEEEccccchhhcccccchHHHHh
Q 042404           79 SLSYFDSLDLN-----ICAPELKYLYLEGEF-K----DIH--LE--STPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKIL  144 (311)
Q Consensus        79 ~l~~c~~~~~~-----i~~~~L~~L~i~~~~-~----~~~--i~--~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l  144 (311)
                      ++.+|....+.     ...++|+.|.+.++. .    .+.  +.  ..++|+.++++.+......           ..++
T Consensus       625 ~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp-----------~~~~  693 (876)
T 4ecn_A          625 GFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFP-----------TELF  693 (876)
T ss_dssp             ECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCC-----------HHHH
T ss_pred             ECcCCCCCcCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccC-----------HHHH
Confidence            88887632211     111347777777642 1    110  11  3346667666655433211           2223


Q ss_pred             cCCCcceEEEEeeeEE
Q 042404          145 GGVPHLEKLVGYIYFT  160 (311)
Q Consensus       145 ~~l~~l~~L~l~~~~~  160 (311)
                      ..+++|+.|+++.+.+
T Consensus       694 ~~l~~L~~L~Ls~N~L  709 (876)
T 4ecn_A          694 ATGSPISTIILSNNLM  709 (876)
T ss_dssp             HTTCCCSEEECCSCCC
T ss_pred             ccCCCCCEEECCCCcC
Confidence            3555566666655543

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=98.91  E-value=5.6e-10  Score=102.07  Aligned_cols=136  Identities=14%  Similarity=0.107  Sum_probs=90.7

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|+|..+..  ..+|  +..+++|++|+|++|.+...+ +.++++|+.|+++++.+++-  +  +..+++|++|++.
T Consensus        65 ~L~~L~Ls~n~l--~~~~--~~~l~~L~~L~Ls~N~l~~~~-~~~l~~L~~L~L~~N~l~~l--~--~~~l~~L~~L~l~  135 (457)
T 3bz5_A           65 GLTKLICTSNNI--TTLD--LSQNTNLTYLACDSNKLTNLD-VTPLTKLTYLNCDTNKLTKL--D--VSQNPLLTYLNCA  135 (457)
T ss_dssp             TCSEEECCSSCC--SCCC--CTTCTTCSEEECCSSCCSCCC-CTTCTTCCEEECCSSCCSCC--C--CTTCTTCCEEECT
T ss_pred             CCCEEEccCCcC--CeEc--cccCCCCCEEECcCCCCceee-cCCCCcCCEEECCCCcCCee--c--CCCCCcCCEEECC
Confidence            577788766543  2344  678889999999988887543 77888899999988887653  2  6678888888888


Q ss_pred             cccceeEEE-eCCCceEEEeece--eeeeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeee
Q 042404           82 YFDSLDLNI-CAPELKYLYLEGE--FKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIY  158 (311)
Q Consensus        82 ~c~~~~~~i-~~~~L~~L~i~~~--~~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~  158 (311)
                      +|....+.+ ..++|+.|.+.++  ...+.+..+++|+.++++.+...+.             . +..+++++.|++..+
T Consensus       136 ~N~l~~l~l~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~l-------------~-l~~l~~L~~L~l~~N  201 (457)
T 3bz5_A          136 RNTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITEL-------------D-VSQNKLLNRLNCDTN  201 (457)
T ss_dssp             TSCCSCCCCTTCTTCCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCCCC-------------C-CTTCTTCCEEECCSS
T ss_pred             CCccceeccccCCcCCEEECCCCCcccccccccCCcCCEEECCCCcccee-------------c-cccCCCCCEEECcCC
Confidence            876433222 2457788877775  2344566777788887766544321             1 355566666666655


Q ss_pred             EE
Q 042404          159 FT  160 (311)
Q Consensus       159 ~~  160 (311)
                      .+
T Consensus       202 ~l  203 (457)
T 3bz5_A          202 NI  203 (457)
T ss_dssp             CC
T ss_pred             cC
Confidence            43

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=98.90  E-value=4.5e-10  Score=97.30  Aligned_cols=185  Identities=17%  Similarity=0.148  Sum_probs=128.7

Q ss_pred             ccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE--EEeCCCceEEEe
Q 042404           23 FNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL--NICAPELKYLYL  100 (311)
Q Consensus        23 ~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~--~i~~~~L~~L~i  100 (311)
                      ..+++|++|+++++.+...+.+..+++|+.|+++++.+.+-.  . +..+++|+.|++.+|..-.+  ....++|+.|.+
T Consensus        38 ~~l~~L~~L~l~~~~i~~l~~~~~l~~L~~L~L~~n~i~~~~--~-~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l  114 (308)
T 1h6u_A           38 ADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLA--P-LKNLTKITELELSGNPLKNVSAIAGLQSIKTLDL  114 (308)
T ss_dssp             HHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCG--G-GTTCCSCCEEECCSCCCSCCGGGTTCTTCCEEEC
T ss_pred             HHcCCcCEEEeeCCCccCchhhhccCCCCEEEccCCcCCCCh--h-HccCCCCCEEEccCCcCCCchhhcCCCCCCEEEC
Confidence            357899999999998875556888999999999999886532  2 78899999999999864331  123478999999


Q ss_pred             ece-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccc
Q 042404          101 EGE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNH  178 (311)
Q Consensus       101 ~~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~  178 (311)
                      .++ ...+ .+..+++|+.++++.+...+.            .. +..+++|+.|++..+.+..+     +.  ...+++
T Consensus       115 ~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~------------~~-l~~l~~L~~L~l~~n~l~~~-----~~--l~~l~~  174 (308)
T 1h6u_A          115 TSTQITDVTPLAGLSNLQVLYLDLNQITNI------------SP-LAGLTNLQYLSIGNAQVSDL-----TP--LANLSK  174 (308)
T ss_dssp             TTSCCCCCGGGTTCTTCCEEECCSSCCCCC------------GG-GGGCTTCCEEECCSSCCCCC-----GG--GTTCTT
T ss_pred             CCCCCCCchhhcCCCCCCEEECCCCccCcC------------cc-ccCCCCccEEEccCCcCCCC-----hh--hcCCCC
Confidence            886 2222 356889999999877654321            11 57889999999988755421     11  225788


Q ss_pred             cceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEe
Q 042404          179 LKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTD  251 (311)
Q Consensus       179 L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~  251 (311)
                      |++|.+....+...      .. +..+++|+.|++..+.....      ..        -..+++|+.+.+.+
T Consensus       175 L~~L~l~~n~l~~~------~~-l~~l~~L~~L~L~~N~l~~~------~~--------l~~l~~L~~L~l~~  226 (308)
T 1h6u_A          175 LTTLKADDNKISDI------SP-LASLPNLIEVHLKNNQISDV------SP--------LANTSNLFIVTLTN  226 (308)
T ss_dssp             CCEEECCSSCCCCC------GG-GGGCTTCCEEECTTSCCCBC------GG--------GTTCTTCCEEEEEE
T ss_pred             CCEEECCCCccCcC------hh-hcCCCCCCEEEccCCccCcc------cc--------ccCCCCCCEEEccC
Confidence            88888843222221      11 78899999999987654321      00        12357788888776

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=98.89  E-value=2e-09  Score=101.67  Aligned_cols=36  Identities=14%  Similarity=0.154  Sum_probs=23.9

Q ss_pred             ccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          178 HLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       178 ~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      +|++|.+.. +...   ...++..+++++.|+.+.+....
T Consensus       205 ~L~~L~L~~-n~~~---~~~~~~~~~~l~~L~~l~l~~~~  240 (606)
T 3vq2_A          205 KLHELTLRG-NFNS---SNIMKTCLQNLAGLHVHRLILGE  240 (606)
T ss_dssp             EEEEEEEES-CCSC---HHHHHHHHHTTTTCEEEEEEEEC
T ss_pred             eeeeeeccC-Cccc---hhHHHHHhccccccccccccccc
Confidence            688888732 2111   12567778999999988887543

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=98.88  E-value=9.6e-11  Score=110.81  Aligned_cols=76  Identities=21%  Similarity=0.177  Sum_probs=39.8

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++.-...  ..+| .+..+++|++|++++|.+...+.+ .+++|+.|+++++..... +  -+..+++|+.|++.
T Consensus       286 ~L~~L~l~~~~~--~~l~-~l~~~~~L~~L~l~~n~l~~lp~~-~l~~L~~L~l~~n~~~~~-~--~~~~l~~L~~L~ls  358 (606)
T 3vq2_A          286 NVSAMSLAGVSI--KYLE-DVPKHFKWQSLSIIRCQLKQFPTL-DLPFLKSLTLTMNKGSIS-F--KKVALPSLSYLDLS  358 (606)
T ss_dssp             TCSEEEEESCCC--CCCC-CCCTTCCCSEEEEESCCCSSCCCC-CCSSCCEEEEESCSSCEE-C--CCCCCTTCCEEECC
T ss_pred             CCCEEEecCccc--hhhh-hccccccCCEEEcccccCcccccC-CCCccceeeccCCcCccc-h--hhccCCCCCEEECc
Confidence            456666654433  3445 566666777777776665432234 566666666665532211 0  12345555555555


Q ss_pred             ccc
Q 042404           82 YFD   84 (311)
Q Consensus        82 ~c~   84 (311)
                      +|.
T Consensus       359 ~n~  361 (606)
T 3vq2_A          359 RNA  361 (606)
T ss_dssp             SSC
T ss_pred             CCc
Confidence            543

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=98.87  E-value=4.8e-10  Score=95.16  Aligned_cols=166  Identities=17%  Similarity=0.135  Sum_probs=115.4

Q ss_pred             CceEEEEEeCCCeeeecCC-CcccCCCCcEEEccceeeC-CCC-CCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPS-CLFNCRKLTRLELFRCEFD-PPL-TFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~-~~~~~~~L~~L~L~~~~l~-~~~-~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|.-...  ..+|. .+..+++|++|+|+++.+. .++ .+..+++|++|+++++.+..- ....+..+++|+.|
T Consensus        38 ~l~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L  114 (270)
T 2o6q_A           38 DTKKLDLQSNKL--SSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQAL-PIGVFDQLVNLAEL  114 (270)
T ss_dssp             TCSEEECCSSCC--SCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCC-CTTTTTTCSSCCEE
T ss_pred             CCCEEECcCCCC--CeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcC-CHhHcccccCCCEE
Confidence            467777765543  35554 6778999999999999886 333 357899999999999987653 22346789999999


Q ss_pred             ccccccceeE----EEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcc
Q 042404           79 SLSYFDSLDL----NICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHL  150 (311)
Q Consensus        79 ~l~~c~~~~~----~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l  150 (311)
                      .+.++....+    ....++|++|.+.++ ...+   .+..+++|++++++.+......           ...+..+++|
T Consensus       115 ~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-----------~~~~~~l~~L  183 (270)
T 2o6q_A          115 RLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVP-----------EGAFDKLTEL  183 (270)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCC-----------TTTTTTCTTC
T ss_pred             ECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCcCcEeC-----------hhHhccCCCc
Confidence            9998864331    124579999999986 3332   2557899999999776543211           2235778999


Q ss_pred             eEEEEeeeEEEEeecCCCCCCCCccccccceEEEee
Q 042404          151 EKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQ  186 (311)
Q Consensus       151 ~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~  186 (311)
                      +.|++..+.+..     .+......+++|+.|.+.+
T Consensus       184 ~~L~L~~N~l~~-----~~~~~~~~l~~L~~L~l~~  214 (270)
T 2o6q_A          184 KTLKLDNNQLKR-----VPEGAFDSLEKLKMLQLQE  214 (270)
T ss_dssp             CEEECCSSCCSC-----CCTTTTTTCTTCCEEECCS
T ss_pred             CEEECCCCcCCc-----CCHHHhccccCCCEEEecC
Confidence            999998876543     2222222467888888843

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=98.87  E-value=2e-10  Score=100.37  Aligned_cols=177  Identities=16%  Similarity=0.059  Sum_probs=110.7

Q ss_pred             eecCCCcccCCCCcEEEccceeeCC--CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEE-EeC
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFDP--PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLN-ICA   92 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~~--~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~-i~~   92 (311)
                      ..+|..+.  ++|++|+|+++.+..  +..+.++++|++|+++++.+..- .+..+..+++|++|++.++....+. .-.
T Consensus        44 ~~lp~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~  120 (330)
T 1xku_A           44 EKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKI-SPGAFAPLVKLERLYLSKNQLKELPEKMP  120 (330)
T ss_dssp             CSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCB-CTTTTTTCTTCCEEECCSSCCSBCCSSCC
T ss_pred             cccCccCC--CCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCee-CHHHhcCCCCCCEEECCCCcCCccChhhc
Confidence            45666554  689999999998862  33578899999999999987653 2334678999999999988643311 012


Q ss_pred             CCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCC
Q 042404           93 PELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDD  168 (311)
Q Consensus        93 ~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~  168 (311)
                      ++|+.|.+.++ ...+   .+..+++|+.++++.+.....         ......+..+++|+.|++..+.+..     .
T Consensus       121 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~---------~~~~~~~~~l~~L~~L~l~~n~l~~-----l  186 (330)
T 1xku_A          121 KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSS---------GIENGAFQGMKKLSYIRIADTNITT-----I  186 (330)
T ss_dssp             TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGG---------GBCTTGGGGCTTCCEEECCSSCCCS-----C
T ss_pred             ccccEEECCCCcccccCHhHhcCCccccEEECCCCcCCcc---------CcChhhccCCCCcCEEECCCCcccc-----C
Confidence            78999999885 3322   256789999999877654210         0112335677888888887665432     1


Q ss_pred             CCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          169 PGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       169 ~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      +..   .+++|++|.+....+..     ..+..+..+++|+.|++..+.
T Consensus       187 ~~~---~~~~L~~L~l~~n~l~~-----~~~~~~~~l~~L~~L~Ls~n~  227 (330)
T 1xku_A          187 PQG---LPPSLTELHLDGNKITK-----VDAASLKGLNNLAKLGLSFNS  227 (330)
T ss_dssp             CSS---CCTTCSEEECTTSCCCE-----ECTGGGTTCTTCCEEECCSSC
T ss_pred             Ccc---ccccCCEEECCCCcCCc-----cCHHHhcCCCCCCEEECCCCc
Confidence            211   12566666662211111     112335566666666666543

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=98.86  E-value=2.1e-10  Score=97.63  Aligned_cols=197  Identities=16%  Similarity=0.160  Sum_probs=126.3

Q ss_pred             CceEEEEEeCCCeeeecCC-CcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPS-CLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~-~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|.....  ..+|. .+..+++|++|+|++|.+.  .+..+.++++|++|+++++.+... ....+.++++|+.|
T Consensus        29 ~l~~L~ls~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L  105 (276)
T 2z62_A           29 STKNLDLSFNPL--RHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSL-ALGAFSGLSSLQKL  105 (276)
T ss_dssp             TCCEEECTTCCC--CEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEE-CTTTTTTCTTCCEE
T ss_pred             CccEEECCCCcc--cccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCcc-ChhhhcCCccccEE
Confidence            567777654433  34554 6778999999999999875  344678899999999999987653 22336789999999


Q ss_pred             cccccccee---E-EEeCCCceEEEeece-eeee----eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCc
Q 042404           79 SLSYFDSLD---L-NICAPELKYLYLEGE-FKDI----HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPH  149 (311)
Q Consensus        79 ~l~~c~~~~---~-~i~~~~L~~L~i~~~-~~~~----~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  149 (311)
                      .+.++....   . ....++|++|.+.++ ...+    .+..+++|+.++++.+...+...       .. ...+..++.
T Consensus       106 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~-------~~-~~~l~~L~~  177 (276)
T 2z62_A          106 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYC-------TD-LRVLHQMPL  177 (276)
T ss_dssp             ECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECG-------GG-GHHHHTCTT
T ss_pred             ECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCH-------HH-hhhhhhccc
Confidence            999886433   1 123478999999885 2321    35578999999987765432110       11 122344444


Q ss_pred             ce-EEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCc
Q 042404          150 LE-KLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTL  220 (311)
Q Consensus       150 l~-~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~  220 (311)
                      +. .|++..+.+..+..+     .. ...+|++|.+....+..     .....+..+++|+.|++..++..+
T Consensus       178 l~l~L~ls~n~l~~~~~~-----~~-~~~~L~~L~L~~n~l~~-----~~~~~~~~l~~L~~L~l~~N~~~c  238 (276)
T 2z62_A          178 LNLSLDLSLNPMNFIQPG-----AF-KEIRLKELALDTNQLKS-----VPDGIFDRLTSLQKIWLHTNPWDC  238 (276)
T ss_dssp             CCEEEECCSSCCCEECTT-----SS-CSCCEEEEECCSSCCSC-----CCTTTTTTCCSCCEEECCSSCBCC
T ss_pred             cceeeecCCCcccccCcc-----cc-CCCcccEEECCCCceee-----cCHhHhcccccccEEEccCCcccc
Confidence            44 778777765543221     11 23468888873322221     112346788999999998776554

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=98.85  E-value=8.9e-10  Score=91.70  Aligned_cols=176  Identities=15%  Similarity=0.102  Sum_probs=112.8

Q ss_pred             eecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeee-eChHHHHHHHhcCcccccccccccccee-----
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVL-VAPEAIESLISSCPLLESLSLSYFDSLD-----   87 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~-~~~~~l~~ll~~cp~Le~L~l~~c~~~~-----   87 (311)
                      ..+|. +.  ++|++|+|+++.+.  .+..+.++++|++|+++++. ++.- ....+.++++|++|++.+|..+.     
T Consensus        24 ~~ip~-~~--~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i-~~~~f~~l~~L~~L~l~~~n~l~~i~~~   99 (239)
T 2xwt_C           24 QRIPS-LP--PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQL-ESHSFYNLSKVTHIEIRNTRNLTYIDPD   99 (239)
T ss_dssp             SSCCC-CC--TTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEE-CTTTEESCTTCCEEEEEEETTCCEECTT
T ss_pred             cccCC-CC--CcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCccee-CHhHcCCCcCCcEEECCCCCCeeEcCHH
Confidence            45666 33  38999999999876  33467889999999999986 5432 11235689999999999854433     


Q ss_pred             EEEeCCCceEEEeece-eeee-eecCCCCcc---eeEEEEE-EccccchhhcccccchHHHHhcCCCcce-EEEEeeeEE
Q 042404           88 LNICAPELKYLYLEGE-FKDI-HLESTPLLV---SMSIAMY-MTDDIAEHFEQSSSCNFLKILGGVPHLE-KLVGYIYFT  160 (311)
Q Consensus        88 ~~i~~~~L~~L~i~~~-~~~~-~i~~~p~L~---~l~l~~~-~~~~~~~~~~~~~~~~~~~~l~~l~~l~-~L~l~~~~~  160 (311)
                      .....++|++|.+.++ ...+ .+..+++|+   .++++.+ ......           ...+..+++++ .|++..+.+
T Consensus       100 ~f~~l~~L~~L~l~~n~l~~lp~~~~l~~L~~L~~L~l~~N~~l~~i~-----------~~~~~~l~~L~~~L~l~~n~l  168 (239)
T 2xwt_C          100 ALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIP-----------VNAFQGLCNETLTLKLYNNGF  168 (239)
T ss_dssp             SEECCTTCCEEEEEEECCCSCCCCTTCCBCCSEEEEEEESCTTCCEEC-----------TTTTTTTBSSEEEEECCSCCC
T ss_pred             HhCCCCCCCEEeCCCCCCccccccccccccccccEEECCCCcchhhcC-----------cccccchhcceeEEEcCCCCC
Confidence            2335678999999885 2222 245677777   8887766 322111           22357888999 999988766


Q ss_pred             EEeecCCCCCCCCccccccceEEEeeee-cCCHHHHHHHHHHHhcC-CCcceEEEEecc
Q 042404          161 KYLSIGDDPGRLPITYNHLKVIELYQVS-FEDMKEILVVIRLITNS-PNLKELHISGSS  217 (311)
Q Consensus       161 ~~l~~~~~~~~~~~~f~~L~~L~l~~~~-~~~~~~~~~l~~~l~~~-p~L~~L~i~~~~  217 (311)
                      ..+..     .... .++|++|.+.... +..     .-...+..+ ++|+.|++..+.
T Consensus       169 ~~i~~-----~~~~-~~~L~~L~L~~n~~l~~-----i~~~~~~~l~~~L~~L~l~~N~  216 (239)
T 2xwt_C          169 TSVQG-----YAFN-GTKLDAVYLNKNKYLTV-----IDKDAFGGVYSGPSLLDVSQTS  216 (239)
T ss_dssp             CEECT-----TTTT-TCEEEEEECTTCTTCCE-----ECTTTTTTCSBCCSEEECTTCC
T ss_pred             cccCH-----hhcC-CCCCCEEEcCCCCCccc-----CCHHHhhccccCCcEEECCCCc
Confidence            54332     1111 2578888773210 111     012346677 899999997654

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=98.84  E-value=9.2e-10  Score=103.15  Aligned_cols=188  Identities=13%  Similarity=0.078  Sum_probs=115.2

Q ss_pred             eEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccc
Q 042404            4 RELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSY   82 (311)
Q Consensus         4 ~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~   82 (311)
                      +++++...+.....+|..+..+++|++|+++++.+. .|..+..+ +|+.|++.++.+..  ++.  ..+++|+.|.+.+
T Consensus       260 ~~l~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~l~~l~~~~~~~-~L~~L~l~~n~~~~--l~~--~~l~~L~~L~l~~  334 (570)
T 2z63_A          260 EEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNF-GWQHLELVNCKFGQ--FPT--LKLKSLKRLTFTS  334 (570)
T ss_dssp             EEEEEEETTEEESCSTTTTGGGTTCSEEEEESCEECSCCBCCSCC-CCSEEEEESCBCSS--CCB--CBCSSCCEEEEES
T ss_pred             hhhhhhcchhhhhhchhhhcCcCcccEEEecCccchhhhhhhccC-CccEEeeccCcccc--cCc--ccccccCEEeCcC
Confidence            445554332222346677777888888888888775 44455566 88888888887662  221  4688888888888


Q ss_pred             cccee-E-EEeCCCceEEEeecee-eee-----eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEE
Q 042404           83 FDSLD-L-NICAPELKYLYLEGEF-KDI-----HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLV  154 (311)
Q Consensus        83 c~~~~-~-~i~~~~L~~L~i~~~~-~~~-----~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~  154 (311)
                      +.... . ....++|+.|.+.++. ...     .+..+++|+.++++.+...+.            ...+..+++|+.|+
T Consensus       335 n~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~------------~~~~~~l~~L~~L~  402 (570)
T 2z63_A          335 NKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITM------------SSNFLGLEQLEHLD  402 (570)
T ss_dssp             CBSCCBCCCCBCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEE------------EEEEETCTTCCEEE
T ss_pred             CccccccccccCCCCCEEeCcCCccCccccccccccccCccCEEECCCCccccc------------cccccccCCCCEEE
Confidence            76544 1 1456788888887752 211     244778888888766543211            11156778888888


Q ss_pred             EeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          155 GYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       155 l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      +..+.+...    .+......+++|++|.+..   +...+  ..+..+..+++|+.|++..+.
T Consensus       403 l~~n~l~~~----~~~~~~~~l~~L~~L~l~~---n~l~~--~~~~~~~~l~~L~~L~l~~n~  456 (570)
T 2z63_A          403 FQHSNLKQM----SEFSVFLSLRNLIYLDISH---THTRV--AFNGIFNGLSSLEVLKMAGNS  456 (570)
T ss_dssp             CTTSEEESC----TTSCTTTTCTTCCEEECTT---SCCEE--CCTTTTTTCTTCCEEECTTCE
T ss_pred             ccCCccccc----cchhhhhcCCCCCEEeCcC---Ccccc--cchhhhhcCCcCcEEECcCCc
Confidence            887765431    1111122467788877732   11111  123456778888888887664

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=98.84  E-value=1.7e-09  Score=106.30  Aligned_cols=156  Identities=18%  Similarity=0.121  Sum_probs=91.4

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLS   79 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~   79 (311)
                      ++++|+|.-+... ...|..+..+++|+.|+|++|.+.  .+..+.++++|+.|+|+++.+... ....+.++++|+.|+
T Consensus       267 ~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~  344 (844)
T 3j0a_A          267 SVRHLDLSHGFVF-SLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGEL-YSSNFYGLPKVAYID  344 (844)
T ss_dssp             CCCEEECTTCCCC-EECSCCSSSCCCCCEEEEESCCCCEECTTTTTTCSSCCEEEEESCCCSCC-CSCSCSSCTTCCEEE
T ss_pred             CccEEECCCCccc-ccChhhhhcCCCCCEEECCCCcCCCCChHHhcCCCCCCEEECCCCCCCcc-CHHHhcCCCCCCEEE
Confidence            4667776544331 234556677888888888888775  345677888888888888877542 223356788888888


Q ss_pred             cccccceeE----EEeCCCceEEEeecee-eeeeecCCCCcceeEEEEEEccccchhh--------ccc--ccchHHHHh
Q 042404           80 LSYFDSLDL----NICAPELKYLYLEGEF-KDIHLESTPLLVSMSIAMYMTDDIAEHF--------EQS--SSCNFLKIL  144 (311)
Q Consensus        80 l~~c~~~~~----~i~~~~L~~L~i~~~~-~~~~i~~~p~L~~l~l~~~~~~~~~~~~--------~~~--~~~~~~~~l  144 (311)
                      +.++....+    .-..++|+.|.+.++. ..  +...|+|+.+.++.+.........        ...  ........+
T Consensus       345 L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~--i~~~~~L~~L~l~~N~l~~l~~~~~~l~~L~ls~N~l~~l~~~~~~  422 (844)
T 3j0a_A          345 LQKNHIAIIQDQTFKFLEKLQTLDLRDNALTT--IHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFL  422 (844)
T ss_dssp             CCSCCCCCCCSSCSCSCCCCCEEEEETCCSCC--CSSCCSCSEEEEESCCCCCCCCCCTTCCEEECCSCCCCSSTTHHHH
T ss_pred             CCCCCCCccChhhhcCCCCCCEEECCCCCCCc--ccCCCCcchhccCCCCcccccccccccceeecccCccccCchhhhh
Confidence            887753221    1234678888887742 22  234666777776655433211000        000  000112334


Q ss_pred             cCCCcceEEEEeeeEEE
Q 042404          145 GGVPHLEKLVGYIYFTK  161 (311)
Q Consensus       145 ~~l~~l~~L~l~~~~~~  161 (311)
                      ..+++|+.|++..+.+.
T Consensus       423 ~~l~~L~~L~Ls~N~l~  439 (844)
T 3j0a_A          423 LRVPHLQILILNQNRFS  439 (844)
T ss_dssp             TTCTTCCEEEEESCCCC
T ss_pred             hcCCccceeeCCCCccc
Confidence            56777777777766543

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=98.82  E-value=2.7e-10  Score=108.51  Aligned_cols=196  Identities=15%  Similarity=0.124  Sum_probs=114.4

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCc-ccEEEeeeeeeChHHHHHHHhc--Cccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPC-LRSLNLHQVLVAPEAIESLISS--CPLLES   77 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~-L~~L~L~~~~~~~~~l~~ll~~--cp~Le~   77 (311)
                      ++++|++.-+.. .-.+| .+..+++|++|+|++|.+. .|..+..+++ |+.|+++++.+.  .++..+..  +++|+.
T Consensus       331 ~L~~L~L~~N~l-~g~ip-~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~--~lp~~~~~~~l~~L~~  406 (636)
T 4eco_A          331 KLGMLECLYNQL-EGKLP-AFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLK--YIPNIFDAKSVSVMSA  406 (636)
T ss_dssp             TCCEEECCSCCC-EEECC-CCEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCS--SCCSCCCTTCSSCEEE
T ss_pred             CCCEEeCcCCcC-ccchh-hhCCCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCc--ccchhhhhcccCccCE
Confidence            567777765543 12677 7778888888888888775 5556777888 888888888776  23333333  347888


Q ss_pred             ccccccccee-----EE------EeCCCceEEEeece-eeeee---ecCCCCcceeEEEEEEccccchhhcccccchHHH
Q 042404           78 LSLSYFDSLD-----LN------ICAPELKYLYLEGE-FKDIH---LESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLK  142 (311)
Q Consensus        78 L~l~~c~~~~-----~~------i~~~~L~~L~i~~~-~~~~~---i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~  142 (311)
                      |++.+|...+     +.      ...++|++|.+.++ ...+.   +..+++|+.++++.+.........    ......
T Consensus       407 L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~----~~~~~~  482 (636)
T 4eco_A          407 IDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNS----LKDENE  482 (636)
T ss_dssp             EECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSSCCSBCCSSS----SEETTE
T ss_pred             EECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCCCCCCcCHHH----hccccc
Confidence            8888875422     11      13457888888875 23221   234788888888766543221100    000000


Q ss_pred             HhcCCCcceEEEEeeeEEEEeecCCCCCCCC-ccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEec
Q 042404          143 ILGGVPHLEKLVGYIYFTKYLSIGDDPGRLP-ITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGS  216 (311)
Q Consensus       143 ~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~-~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~  216 (311)
                      .+..+++|+.|++..+.+..     .|..+. ..+++|++|.+..   +...   .++..+.++++|+.|++..+
T Consensus       483 ~~~~l~~L~~L~Ls~N~l~~-----lp~~~~~~~l~~L~~L~Ls~---N~l~---~ip~~~~~l~~L~~L~Ls~N  546 (636)
T 4eco_A          483 NFKNTYLLTSIDLRFNKLTK-----LSDDFRATTLPYLVGIDLSY---NSFS---KFPTQPLNSSTLKGFGIRNQ  546 (636)
T ss_dssp             ECTTGGGCCEEECCSSCCCB-----CCGGGSTTTCTTCCEEECCS---SCCS---SCCCGGGGCSSCCEEECCSC
T ss_pred             cccccCCccEEECcCCcCCc-----cChhhhhccCCCcCEEECCC---CCCC---CcChhhhcCCCCCEEECCCC
Confidence            12234477788877765442     222222 2466777777732   2211   23444566778888877644

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=98.82  E-value=5.7e-10  Score=109.66  Aligned_cols=101  Identities=19%  Similarity=0.120  Sum_probs=57.9

Q ss_pred             CceEEEEEeCCCeeeec-CCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHH-HHHhcCccccc
Q 042404            2 DIRELVLELGEGEWFRV-PSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIE-SLISSCPLLES   77 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~l-p~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~-~ll~~cp~Le~   77 (311)
                      +++.|+|..+.. ...+ |..+.++++|++|+|++|.+.  .|..+.++++|++|+|+++.+.+.... ..+..+++|++
T Consensus        49 ~L~~LdLs~n~~-~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~  127 (844)
T 3j0a_A           49 QLQLLELGSQYT-PLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTR  127 (844)
T ss_dssp             SCSEEEECTTCC-CCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCE
T ss_pred             cCeEEeCCCCCC-ccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCE
Confidence            566777765532 1344 555667777777777777654  355566777777777777766542111 12456677777


Q ss_pred             cccccccceeEE-----EeCCCceEEEeece
Q 042404           78 LSLSYFDSLDLN-----ICAPELKYLYLEGE  103 (311)
Q Consensus        78 L~l~~c~~~~~~-----i~~~~L~~L~i~~~  103 (311)
                      |++.+|....+.     -..++|++|.+.++
T Consensus       128 L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N  158 (844)
T 3j0a_A          128 LDLSKNQIRSLYLHPSFGKLNSLKSIDFSSN  158 (844)
T ss_dssp             EEEESCCCCCCCCCGGGGTCSSCCEEEEESS
T ss_pred             EECCCCcccccccchhHhhCCCCCEEECCCC
Confidence            777666532211     12345666666553

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=98.81  E-value=3.8e-10  Score=97.47  Aligned_cols=198  Identities=15%  Similarity=0.070  Sum_probs=118.9

Q ss_pred             CceEEEEEeCCCee-eecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccc
Q 042404            2 DIRELVLELGEGEW-FRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLS   79 (311)
Q Consensus         2 ~v~~L~l~~~~~~~-~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~   79 (311)
                      ++++|+|.-..... ...|..+..+++|++|+|++|.+. .|..+..+++|++|+++++.+........+..+++|+.|+
T Consensus        53 ~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~  132 (306)
T 2z66_A           53 QLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLD  132 (306)
T ss_dssp             TCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEE
T ss_pred             cCCEEECCCCccCcccCcccccccccccCEEECCCCccccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEE
Confidence            56777776554321 223555667788888888888764 3444667888888888888775432223466788888888


Q ss_pred             ccccccee----EEEeCCCceEEEeece-eee----eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcc
Q 042404           80 LSYFDSLD----LNICAPELKYLYLEGE-FKD----IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHL  150 (311)
Q Consensus        80 l~~c~~~~----~~i~~~~L~~L~i~~~-~~~----~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l  150 (311)
                      +.+|....    .....++|+.|.+.++ ...    ..+..+++|+.++++.+...+.           ....+..+++|
T Consensus       133 l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~-----------~~~~~~~l~~L  201 (306)
T 2z66_A          133 ISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQL-----------SPTAFNSLSSL  201 (306)
T ss_dssp             CTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEE-----------CTTTTTTCTTC
T ss_pred             CCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCCcCCc-----------CHHHhcCCCCC
Confidence            88876432    1113467888888875 221    2345778888888766543321           12335677888


Q ss_pred             eEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCC-CcceEEEEeccCCc
Q 042404          151 EKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSP-NLKELHISGSSNTL  220 (311)
Q Consensus       151 ~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p-~L~~L~i~~~~~~~  220 (311)
                      +.|++..+.+..+.     ......+++|++|.+....+..     ..+..+..+| +|+.|++..++..+
T Consensus       202 ~~L~L~~N~l~~~~-----~~~~~~l~~L~~L~L~~N~l~~-----~~~~~~~~~~~~L~~L~L~~N~~~~  262 (306)
T 2z66_A          202 QVLNMSHNNFFSLD-----TFPYKCLNSLQVLDYSLNHIMT-----SKKQELQHFPSSLAFLNLTQNDFAC  262 (306)
T ss_dssp             CEEECTTSCCSBCC-----SGGGTTCTTCCEEECTTSCCCB-----CSSSSCCCCCTTCCEEECTTCCEEC
T ss_pred             CEEECCCCccCccC-----hhhccCcccCCEeECCCCCCcc-----cCHHHHHhhhccCCEEEccCCCeec
Confidence            88888776543211     1111246777777773211111     1123345554 78888887766543

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=98.80  E-value=4.5e-10  Score=98.24  Aligned_cols=199  Identities=13%  Similarity=0.051  Sum_probs=107.0

Q ss_pred             CceEEEEEeCCCeeeec-CCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRV-PSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~l-p~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      +++.|+|.-+..  ..+ |..+..+++|++|+|++|.+.  .|..+.++++|++|+++++.+..  ++.  ...++|++|
T Consensus        55 ~l~~L~l~~n~i--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~--l~~--~~~~~L~~L  128 (332)
T 2ft3_A           55 DTTLLDLQNNDI--SELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLVE--IPP--NLPSSLVEL  128 (332)
T ss_dssp             TCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSSCCCS--CCS--SCCTTCCEE
T ss_pred             CCeEEECCCCcC--CccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCCcCCc--cCc--cccccCCEE
Confidence            567777665543  344 446778888999999888775  34567788888888888887653  111  113677888


Q ss_pred             ccccccceeE----EEeCCCceEEEeecee-ee--e---eecCCCCcceeEEEEEEccccchhhc---------ccc-cc
Q 042404           79 SLSYFDSLDL----NICAPELKYLYLEGEF-KD--I---HLESTPLLVSMSIAMYMTDDIAEHFE---------QSS-SC  138 (311)
Q Consensus        79 ~l~~c~~~~~----~i~~~~L~~L~i~~~~-~~--~---~i~~~p~L~~l~l~~~~~~~~~~~~~---------~~~-~~  138 (311)
                      ++.++....+    ....++|+.|.+.++. ..  +   .+... +|+.++++.+...+......         ... ..
T Consensus       129 ~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~i~~  207 (332)
T 2ft3_A          129 RIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTGIPKDLPETLNELHLDHNKIQA  207 (332)
T ss_dssp             ECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCCSSSCSSCSCCBCCSSCCCC
T ss_pred             ECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCccCccccCCCCEEECCCCcCCc
Confidence            7777653221    1234567777776641 11  1   12122 55555554433222110000         000 00


Q ss_pred             hHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          139 NFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       139 ~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      .....+..+++|+.|++..+.+..+.    +.. ...+++|++|.+....+.      .++..+..+++|+.|++..+..
T Consensus       208 ~~~~~l~~l~~L~~L~L~~N~l~~~~----~~~-~~~l~~L~~L~L~~N~l~------~lp~~l~~l~~L~~L~l~~N~l  276 (332)
T 2ft3_A          208 IELEDLLRYSKLYRLGLGHNQIRMIE----NGS-LSFLPTLRELHLDNNKLS------RVPAGLPDLKLLQVVYLHTNNI  276 (332)
T ss_dssp             CCTTSSTTCTTCSCCBCCSSCCCCCC----TTG-GGGCTTCCEEECCSSCCC------BCCTTGGGCTTCCEEECCSSCC
T ss_pred             cCHHHhcCCCCCCEEECCCCcCCcCC----hhH-hhCCCCCCEEECCCCcCe------ecChhhhcCccCCEEECCCCCC
Confidence            00123456677777777766543211    111 224667777777321111      2333466778888888876543

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=98.80  E-value=1.9e-09  Score=92.54  Aligned_cols=211  Identities=16%  Similarity=0.122  Sum_probs=113.3

Q ss_pred             cccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEE--EeCCCceEE
Q 042404           22 LFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLN--ICAPELKYL   98 (311)
Q Consensus        22 ~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~--i~~~~L~~L   98 (311)
                      +.++++|+.+++.++.+. .|..+  .+.++.|+|+++.+..- ....+..+++|+.|.+.++....+.  ...++|+.|
T Consensus         6 ~~~l~~l~~l~~~~~~l~~ip~~~--~~~l~~L~L~~N~l~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L   82 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLTALPPDL--PKDTTILHLSENLLYTF-SLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTL   82 (290)
T ss_dssp             EECSTTCCEEECTTSCCSSCCSCC--CTTCCEEECTTSCCSEE-EGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEE
T ss_pred             ccccCCccEEECCCCCCCcCCCCC--CCCCCEEEcCCCcCCcc-CHHHhhcCCCCCEEECCCCccCcccCCCCCCcCCEE
Confidence            445666777777766664 33322  35677777777665432 1123556677777777766533311  234567777


Q ss_pred             Eeece-eeee--eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCcc
Q 042404           99 YLEGE-FKDI--HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPIT  175 (311)
Q Consensus        99 ~i~~~-~~~~--~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~  175 (311)
                      .+.++ ...+  .+..+++|+.++++.+......           ...+..+++|+.|++..+.+..+     +......
T Consensus        83 ~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~-----------~~~~~~l~~L~~L~L~~N~l~~~-----~~~~~~~  146 (290)
T 1p9a_G           83 DLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLP-----------LGALRGLGELQELYLKGNELKTL-----PPGLLTP  146 (290)
T ss_dssp             ECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCC-----------SSTTTTCTTCCEEECTTSCCCCC-----CTTTTTT
T ss_pred             ECCCCcCCcCchhhccCCCCCEEECCCCcCcccC-----------HHHHcCCCCCCEEECCCCCCCcc-----Chhhccc
Confidence            77664 2222  2346777777777665543211           12356777888888877755432     2122224


Q ss_pred             ccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEe--ec
Q 042404          176 YNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTD--IS  253 (311)
Q Consensus       176 f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~--~~  253 (311)
                      +++|+.|.+....+..     .....+..+++|+.|++..+.....     +...        ....+|+.+.+.+  +.
T Consensus       147 l~~L~~L~L~~N~l~~-----l~~~~~~~l~~L~~L~L~~N~l~~i-----p~~~--------~~~~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          147 TPKLEKLSLANNNLTE-----LPAGLLNGLENLDTLLLQENSLYTI-----PKGF--------FGSHLLPFAFLHGNPWL  208 (290)
T ss_dssp             CTTCCEEECTTSCCSC-----CCTTTTTTCTTCCEEECCSSCCCCC-----CTTT--------TTTCCCSEEECCSCCBC
T ss_pred             ccCCCEEECCCCcCCc-----cCHHHhcCcCCCCEEECCCCcCCcc-----Chhh--------cccccCCeEEeCCCCcc
Confidence            6677777773211111     1123456778888888876643311     1111        1234677777665  33


Q ss_pred             CCcchHHHHHHHHccC
Q 042404          254 GVPHEMELIKFLLSNS  269 (311)
Q Consensus       254 g~~~~~~l~~~ll~~a  269 (311)
                      .......+..++-++.
T Consensus       209 C~c~~~~l~~wl~~~~  224 (290)
T 1p9a_G          209 CNCEILYFRRWLQDNA  224 (290)
T ss_dssp             CSGGGHHHHHHHHHTG
T ss_pred             CcCccHHHHHHHHhCc
Confidence            3444445555655544

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.79  E-value=8.5e-11  Score=104.21  Aligned_cols=246  Identities=15%  Similarity=0.059  Sum_probs=137.8

Q ss_pred             cCCCcccCCCCcEEEccceeeCCC------CCCCCCC-cccEEEeeeeeeChH---HHHHHHhcC-ccccccccccccce
Q 042404           18 VPSCLFNCRKLTRLELFRCEFDPP------LTFTGFP-CLRSLNLHQVLVAPE---AIESLISSC-PLLESLSLSYFDSL   86 (311)
Q Consensus        18 lp~~~~~~~~L~~L~L~~~~l~~~------~~~~~l~-~L~~L~L~~~~~~~~---~l~~ll~~c-p~Le~L~l~~c~~~   86 (311)
                      +|..+...++|++|+|++|.+...      ..+.+++ +|++|+|++|.+++.   .+..++..+ ++|++|++.+|...
T Consensus        14 ~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~   93 (362)
T 3goz_A           14 VEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLS   93 (362)
T ss_dssp             HHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGG
T ss_pred             HHHHHhCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCC
Confidence            344444456799999999988632      2345677 899999999988753   455555554 99999999988743


Q ss_pred             e-----E---EEeC-CCceEEEeece-eeeee-------ecC-CCCcceeEEEEEEccccchhhcccccchHHHHhcCCC
Q 042404           87 D-----L---NICA-PELKYLYLEGE-FKDIH-------LES-TPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVP  148 (311)
Q Consensus        87 ~-----~---~i~~-~~L~~L~i~~~-~~~~~-------i~~-~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~  148 (311)
                      .     +   -... ++|++|.+.++ .....       +.. .++|++++++.+...+.       ....+...+...+
T Consensus        94 ~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~-------~~~~l~~~l~~~~  166 (362)
T 3goz_A           94 YKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIK-------SSDELIQILAAIP  166 (362)
T ss_dssp             GSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGS-------CHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHH-------HHHHHHHHHhcCC
Confidence            2     0   1112 68999999885 22211       212 35899998877654321       1123345556665


Q ss_pred             -cceEEEEeeeEEEEeecCCCCCCCCccc-cccceEEEeeeecCCHHHHHHHHHHHhc-CCCcceEEEEeccCCcccccC
Q 042404          149 -HLEKLVGYIYFTKYLSIGDDPGRLPITY-NHLKVIELYQVSFEDMKEILVVIRLITN-SPNLKELHISGSSNTLAAIEA  225 (311)
Q Consensus       149 -~l~~L~l~~~~~~~l~~~~~~~~~~~~f-~~L~~L~l~~~~~~~~~~~~~l~~~l~~-~p~L~~L~i~~~~~~~~~~~~  225 (311)
                       +|+.|+++.+.+......... .....+ ++|++|.+....+.. .+...++..+.. +++|++|++..+.....    
T Consensus       167 ~~L~~L~Ls~n~l~~~~~~~l~-~~l~~~~~~L~~L~Ls~N~i~~-~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~----  240 (362)
T 3goz_A          167 ANVNSLNLRGNNLASKNCAELA-KFLASIPASVTSLDLSANLLGL-KSYAELAYIFSSIPNHVVSLNLCLNCLHGP----  240 (362)
T ss_dssp             TTCCEEECTTSCGGGSCHHHHH-HHHHTSCTTCCEEECTTSCGGG-SCHHHHHHHHHHSCTTCCEEECCSSCCCCC----
T ss_pred             ccccEeeecCCCCchhhHHHHH-HHHHhCCCCCCEEECCCCCCCh-hHHHHHHHHHhcCCCCceEEECcCCCCCcH----
Confidence             899999887754321100000 011123 488888883322221 234456666666 56999999987653321    


Q ss_pred             CCchhhcccccCcccccceeEEEEEeecCCcchHHHHHHHHc---cCcccceEEEEec
Q 042404          226 PDLDFWEKECHADCSFKQLKLVKMTDISGVPHEMELIKFLLS---NSPVLEIMSITPC  280 (311)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~Lk~v~i~~~~g~~~~~~l~~~ll~---~a~~Le~l~i~~~  280 (311)
                       ..+....   .-..+++|+.+.+.+-.-..-..+.+..+.+   +.+.|+.+.+...
T Consensus       241 -~~~~l~~---~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N  294 (362)
T 3goz_A          241 -SLENLKL---LKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGK  294 (362)
T ss_dssp             -CHHHHHH---TTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSC
T ss_pred             -HHHHHHH---HHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCC
Confidence             1111110   0113577888887764311122233344444   4444444444433

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=98.79  E-value=5.8e-10  Score=95.78  Aligned_cols=165  Identities=17%  Similarity=0.112  Sum_probs=99.5

Q ss_pred             cCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee--EEEeCCCceEEEee
Q 042404           24 NCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD--LNICAPELKYLYLE  101 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~--~~i~~~~L~~L~i~  101 (311)
                      .+++|++|++++|.+...+.+..+++|+.|+++++.+.+-.  . +..+++|+.|.+.++....  -....++|++|.+.
T Consensus        44 ~l~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~l~~~~--~-l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~  120 (291)
T 1h6t_A           44 ELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIK--P-LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLE  120 (291)
T ss_dssp             HHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCG--G-GTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEECT
T ss_pred             hcCcccEEEccCCCcccChhHhcCCCCCEEEccCCccCCCc--c-cccCCCCCEEECCCCcCCCChhhccCCCCCEEECC
Confidence            45667777777766654444666777777777777665421  1 5667777777777665322  11123567777766


Q ss_pred             ce-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCcccccc
Q 042404          102 GE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHL  179 (311)
Q Consensus       102 ~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L  179 (311)
                      ++ ...+ .+..+++|+.++++.+...+             ...+..+++|+.|+++.+.+..+.     .  ...+++|
T Consensus       121 ~n~i~~~~~l~~l~~L~~L~l~~n~l~~-------------~~~l~~l~~L~~L~L~~N~l~~~~-----~--l~~l~~L  180 (291)
T 1h6t_A          121 HNGISDINGLVHLPQLESLYLGNNKITD-------------ITVLSRLTKLDTLSLEDNQISDIV-----P--LAGLTKL  180 (291)
T ss_dssp             TSCCCCCGGGGGCTTCCEEECCSSCCCC-------------CGGGGGCTTCSEEECCSSCCCCCG-----G--GTTCTTC
T ss_pred             CCcCCCChhhcCCCCCCEEEccCCcCCc-------------chhhccCCCCCEEEccCCccccch-----h--hcCCCcc
Confidence            64 2222 24577888888887665432             133577888888888877554321     1  2257788


Q ss_pred             ceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          180 KVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       180 ~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      ++|.+....+..      +. -+..+++|+.|++..+..
T Consensus       181 ~~L~L~~N~i~~------l~-~l~~l~~L~~L~l~~n~i  212 (291)
T 1h6t_A          181 QNLYLSKNHISD------LR-ALAGLKNLDVLELFSQEC  212 (291)
T ss_dssp             CEEECCSSCCCB------CG-GGTTCTTCSEEEEEEEEE
T ss_pred             CEEECCCCcCCC------Ch-hhccCCCCCEEECcCCcc
Confidence            888883322222      22 267888999999987653

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=98.78  E-value=3.6e-10  Score=108.31  Aligned_cols=35  Identities=14%  Similarity=-0.044  Sum_probs=19.3

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEcccee
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCE   37 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~   37 (311)
                      ++++|++.-+... ...|..+..+++|++|+|++|.
T Consensus       330 ~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~Ls~n~  364 (680)
T 1ziw_A          330 CLEHLNMEDNDIP-GIKSNMFTGLINLKYLSLSNSF  364 (680)
T ss_dssp             TCCEEECCSCCBC-CCCTTTTTTCTTCCEEECTTCB
T ss_pred             CCCEEECCCCccC-CCChhHhccccCCcEEECCCCc
Confidence            5677776544321 1223445566677777766654

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=98.77  E-value=2.4e-09  Score=89.85  Aligned_cols=152  Identities=20%  Similarity=0.205  Sum_probs=91.9

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE----
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL----   88 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~----   88 (311)
                      ...+|..+.  ++|+.|+|+++.+.  .+..+.++++|+.|+|+++.+... ....+..+++|+.|++.++....+    
T Consensus        26 l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~  102 (251)
T 3m19_A           26 LDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTL-SAGVFDDLTELGTLGLANNQLASLPLGV  102 (251)
T ss_dssp             CSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCC-CTTTTTTCTTCCEEECTTSCCCCCCTTT
T ss_pred             ccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCcc-CHhHhccCCcCCEEECCCCcccccChhH
Confidence            356777655  68999999999875  344577899999999999887653 233456789999999988764321    


Q ss_pred             EEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEee
Q 042404           89 NICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLS  164 (311)
Q Consensus        89 ~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~  164 (311)
                      .-..++|++|.+.++ ...+   .+..+++|+.++++.+...+..           ...++.+++|+.|++..+.+..+ 
T Consensus       103 ~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~-----------~~~~~~l~~L~~L~L~~N~l~~~-  170 (251)
T 3m19_A          103 FDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIP-----------AGAFDKLTNLQTLSLSTNQLQSV-  170 (251)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-----------TTTTTTCTTCCEEECCSSCCSCC-
T ss_pred             hcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccC-----------HHHcCcCcCCCEEECCCCcCCcc-
Confidence            113356777777664 2222   1345666666666555433211           12245666677777766644321 


Q ss_pred             cCCCCCCCCccccccceEEEe
Q 042404          165 IGDDPGRLPITYNHLKVIELY  185 (311)
Q Consensus       165 ~~~~~~~~~~~f~~L~~L~l~  185 (311)
                          +......+++|+.|.+.
T Consensus       171 ----~~~~~~~l~~L~~L~l~  187 (251)
T 3m19_A          171 ----PHGAFDRLGKLQTITLF  187 (251)
T ss_dssp             ----CTTTTTTCTTCCEEECC
T ss_pred             ----CHHHHhCCCCCCEEEee
Confidence                11111235566666663

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=98.76  E-value=2.2e-09  Score=100.70  Aligned_cols=41  Identities=24%  Similarity=0.322  Sum_probs=24.0

Q ss_pred             cccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          175 TYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       175 ~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      .+++|+.|.+..   +...++..++..+.++++|+.|++..+..
T Consensus       375 ~l~~L~~L~L~~---N~l~~~~~~~~~~~~l~~L~~L~l~~N~l  415 (562)
T 3a79_B          375 TLKRLQTLILQR---NGLKNFFKVALMTKNMSSLETLDVSLNSL  415 (562)
T ss_dssp             SCSSCCEEECCS---SCCCBTTHHHHTTTTCTTCCEEECTTSCC
T ss_pred             ccCCCCEEECCC---CCcCCcccchhhhcCCCCCCEEECCCCcC
Confidence            456677666632   22222224455677788888888876543

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=98.76  E-value=1.1e-09  Score=100.91  Aligned_cols=159  Identities=14%  Similarity=0.064  Sum_probs=91.7

Q ss_pred             CCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee-EEE-eCCCceEEEeece-eeeeeecCCCCcceeEEEE
Q 042404           46 GFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD-LNI-CAPELKYLYLEGE-FKDIHLESTPLLVSMSIAM  122 (311)
Q Consensus        46 ~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~-~~i-~~~~L~~L~i~~~-~~~~~i~~~p~L~~l~l~~  122 (311)
                      .+++|+.|+|+++.+.+- .+..+..+++|+.|+|++|...+ ..+ ..++|++|.++++ +..+.  ..|+|+.++++.
T Consensus        32 ~~~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~l~--~~~~L~~L~L~~  108 (487)
T 3oja_A           32 SAWNVKELDLSGNPLSQI-SAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELL--VGPSIETLHAAN  108 (487)
T ss_dssp             TGGGCCEEECCSSCCCCC-CGGGGTTCTTCCEEECTTSCCEEEEECTTCTTCCEEECCSSEEEEEE--ECTTCCEEECCS
T ss_pred             cCCCccEEEeeCCcCCCC-CHHHHhCCCCCCEEEeeCCCCCCCcccccCCCCCEEEecCCcCCCCC--CCCCcCEEECcC
Confidence            567999999999988763 22346789999999999998654 332 3478999999986 33333  458999999877


Q ss_pred             EEccccchh-h--------cccc-cchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCH
Q 042404          123 YMTDDIAEH-F--------EQSS-SCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDM  192 (311)
Q Consensus       123 ~~~~~~~~~-~--------~~~~-~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~  192 (311)
                      +...+.... +        .... .......++.+++|+.|+++.+.+..+..    ..+...+++|++|.+....+...
T Consensus       109 N~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~----~~l~~~l~~L~~L~Ls~N~l~~~  184 (487)
T 3oja_A          109 NNISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNF----AELAASSDTLEHLNLQYNFIYDV  184 (487)
T ss_dssp             SCCCCEEECCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEG----GGGGGGTTTCCEEECTTSCCCEE
T ss_pred             CcCCCCCccccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcCh----HHHhhhCCcccEEecCCCccccc
Confidence            654332110 0        0000 00112223455666666666654433211    11222356677776632111111


Q ss_pred             HHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          193 KEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       193 ~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                            + -...+|+|+.|++..+..
T Consensus       185 ------~-~~~~l~~L~~L~Ls~N~l  203 (487)
T 3oja_A          185 ------K-GQVVFAKLKTLDLSSNKL  203 (487)
T ss_dssp             ------E-CCCCCTTCCEEECCSSCC
T ss_pred             ------c-ccccCCCCCEEECCCCCC
Confidence                  1 122467777777776544

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=98.76  E-value=6e-10  Score=96.87  Aligned_cols=230  Identities=15%  Similarity=0.152  Sum_probs=150.7

Q ss_pred             CceEEEEEeCCCeeeecC-CCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccc
Q 042404            2 DIRELVLELGEGEWFRVP-SCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSL   80 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp-~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l   80 (311)
                      ++++|+|.-+..  ..+| ..+..+++|++|+|++|.+.....+..+++|++|+++++.+.+-      ..+++|++|.+
T Consensus        35 ~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~l------~~~~~L~~L~l  106 (317)
T 3o53_A           35 NVKELDLSGNPL--SQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQEL------LVGPSIETLHA  106 (317)
T ss_dssp             GCSEEECTTSCC--CCCCHHHHTTCTTCCEEECTTSCCEEEEEETTCTTCCEEECCSSEEEEE------EECTTCCEEEC
T ss_pred             CCCEEECcCCcc--CcCCHHHhhCCCcCCEEECCCCcCCcchhhhhcCCCCEEECcCCccccc------cCCCCcCEEEC
Confidence            577787765543  2344 46778999999999999876322378899999999999987652      25699999999


Q ss_pred             cccccee-EEEeCCCceEEEeece-ee---eeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEE
Q 042404           81 SYFDSLD-LNICAPELKYLYLEGE-FK---DIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVG  155 (311)
Q Consensus        81 ~~c~~~~-~~i~~~~L~~L~i~~~-~~---~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l  155 (311)
                      .++.... .....++|+.|.+.++ ..   ...+..+++|+.++++.+...+.          ....+...+++|+.|++
T Consensus       107 ~~n~l~~~~~~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~----------~~~~~~~~l~~L~~L~L  176 (317)
T 3o53_A          107 ANNNISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTV----------NFAELAASSDTLEHLNL  176 (317)
T ss_dssp             CSSCCSEEEECCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEE----------EGGGGGGGTTTCCEEEC
T ss_pred             CCCccCCcCccccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcc----------cHHHHhhccCcCCEEEC
Confidence            9987655 3334578999999986 22   23456789999999877654321          11333457899999999


Q ss_pred             eeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccc
Q 042404          156 YIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKEC  235 (311)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~  235 (311)
                      +.+.+..+..      .. .+++|++|.+....+.      .++..+..+++|+.|++..+.....     + ..     
T Consensus       177 ~~N~l~~~~~------~~-~l~~L~~L~Ls~N~l~------~l~~~~~~l~~L~~L~L~~N~l~~l-----~-~~-----  232 (317)
T 3o53_A          177 QYNFIYDVKG------QV-VFAKLKTLDLSSNKLA------FMGPEFQSAAGVTWISLRNNKLVLI-----E-KA-----  232 (317)
T ss_dssp             TTSCCCEEEC------CC-CCTTCCEEECCSSCCC------EECGGGGGGTTCSEEECTTSCCCEE-----C-TT-----
T ss_pred             CCCcCccccc------cc-ccccCCEEECCCCcCC------cchhhhcccCcccEEECcCCcccch-----h-hH-----
Confidence            9887665421      11 3788999998432222      2222367889999999987654321     0 00     


Q ss_pred             cCcccccceeEEEEEeecCCcchHHHHHHHHccCcccceEEEE
Q 042404          236 HADCSFKQLKLVKMTDISGVPHEMELIKFLLSNSPVLEIMSIT  278 (311)
Q Consensus       236 ~~~~~~~~Lk~v~i~~~~g~~~~~~l~~~ll~~a~~Le~l~i~  278 (311)
                       . ..+++|+.+.+.+   ....-..+...+.+.+.|+.+.+.
T Consensus       233 -~-~~l~~L~~L~l~~---N~~~~~~~~~~~~~~~~L~~l~l~  270 (317)
T 3o53_A          233 -L-RFSQNLEHFDLRG---NGFHCGTLRDFFSKNQRVQTVAKQ  270 (317)
T ss_dssp             -C-CCCTTCCEEECTT---CCCBHHHHHHHHHTCHHHHHHHHH
T ss_pred             -h-hcCCCCCEEEccC---CCccCcCHHHHHhccccceEEECC
Confidence             1 1246777776554   333322344445566666655544

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=98.74  E-value=4.4e-10  Score=97.49  Aligned_cols=183  Identities=20%  Similarity=0.108  Sum_probs=111.2

Q ss_pred             eecCCCcc-------cCCCCcEEEccceeeC--CCCCC--CCCCcccEEEeeeeeeChH--HHHHHHh-cCccccccccc
Q 042404           16 FRVPSCLF-------NCRKLTRLELFRCEFD--PPLTF--TGFPCLRSLNLHQVLVAPE--AIESLIS-SCPLLESLSLS   81 (311)
Q Consensus        16 ~~lp~~~~-------~~~~L~~L~L~~~~l~--~~~~~--~~l~~L~~L~L~~~~~~~~--~l~~ll~-~cp~Le~L~l~   81 (311)
                      ..+|..++       .+++|++|+|++|.+.  .|..+  ..+++|+.|+|+++.+.+.  .+..+.. .+++|++|++.
T Consensus        78 ~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~  157 (312)
T 1wwl_A           78 ARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIA  157 (312)
T ss_dssp             EECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEE
T ss_pred             CCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEee
Confidence            45666555       6889999999999875  35544  7889999999999987653  2322211 13899999999


Q ss_pred             ccccee----EEEeCCCceEEEeecee-e-------eeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCc
Q 042404           82 YFDSLD----LNICAPELKYLYLEGEF-K-------DIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPH  149 (311)
Q Consensus        82 ~c~~~~----~~i~~~~L~~L~i~~~~-~-------~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  149 (311)
                      ++....    .....++|++|.++++. .       .+.+..+++|++++++.+...+..        .....++..+++
T Consensus       158 ~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~--------~~~~~~~~~l~~  229 (312)
T 1wwl_A          158 QAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPS--------GVCSALAAARVQ  229 (312)
T ss_dssp             SCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHH--------HHHHHHHHTTCC
T ss_pred             CCCCccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchH--------HHHHHHHhcCCC
Confidence            886433    12245688888888752 1       112257888888888766543110        112344567788


Q ss_pred             ceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          150 LEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       150 l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      |+.|+++.+.+....    +......+++|++|.+....+.      .++..+.  ++|+.|++..+..
T Consensus       230 L~~L~Ls~N~l~~~~----~~~~~~~l~~L~~L~Ls~N~l~------~ip~~~~--~~L~~L~Ls~N~l  286 (312)
T 1wwl_A          230 LQGLDLSHNSLRDAA----GAPSCDWPSQLNSLNLSFTGLK------QVPKGLP--AKLSVLDLSYNRL  286 (312)
T ss_dssp             CSEEECTTSCCCSSC----CCSCCCCCTTCCEEECTTSCCS------SCCSSCC--SEEEEEECCSSCC
T ss_pred             CCEEECCCCcCCccc----chhhhhhcCCCCEEECCCCccC------hhhhhcc--CCceEEECCCCCC
Confidence            888888877543211    1111123567888877321111      1111121  6788888876543

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=98.74  E-value=1.3e-10  Score=100.90  Aligned_cols=190  Identities=21%  Similarity=0.155  Sum_probs=128.8

Q ss_pred             CceEEEEEeCCCeeeecCCCc--ccCCCCcEEEccceeeCC-CCCCCCC-----CcccEEEeeeeeeChHHHHHHHhcCc
Q 042404            2 DIRELVLELGEGEWFRVPSCL--FNCRKLTRLELFRCEFDP-PLTFTGF-----PCLRSLNLHQVLVAPEAIESLISSCP   73 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~--~~~~~L~~L~L~~~~l~~-~~~~~~l-----~~L~~L~L~~~~~~~~~l~~ll~~cp   73 (311)
                      ++++|+|.-+.. ...+|..+  ..+++|++|+|++|.+.. |..+..+     ++|+.|+|+++.+... ....+..++
T Consensus        96 ~L~~L~L~~n~l-~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~-~~~~~~~l~  173 (312)
T 1wwl_A           96 GLQELTLENLEV-TGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNF-SCEQVRVFP  173 (312)
T ss_dssp             CCCEEEEEEEBC-BSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCC-CTTTCCCCS
T ss_pred             CccEEEccCCcc-cchhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccc-hHHHhccCC
Confidence            678899877654 13577776  788999999999998863 3334444     8999999999987653 223467899


Q ss_pred             ccccccccccccee-------EE-EeCCCceEEEeece-ee---ee---eecCCCCcceeEEEEEEccccchhhcccccc
Q 042404           74 LLESLSLSYFDSLD-------LN-ICAPELKYLYLEGE-FK---DI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSC  138 (311)
Q Consensus        74 ~Le~L~l~~c~~~~-------~~-i~~~~L~~L~i~~~-~~---~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~  138 (311)
                      +|++|++.++...+       +. ...++|++|.+.++ ..   .+   .+..+++|+.++++.+...+..         
T Consensus       174 ~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~---------  244 (312)
T 1wwl_A          174 ALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAA---------  244 (312)
T ss_dssp             SCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSC---------
T ss_pred             CCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCccc---------
Confidence            99999999987322       11 34579999999986 22   11   1236689999999876543210         


Q ss_pred             hHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          139 NFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       139 ~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                       ....+..+++|+.|+++.+.+..     .|..+   +++|++|.+..   +...   .++. +..+|+|+.|++..++.
T Consensus       245 -~~~~~~~l~~L~~L~Ls~N~l~~-----ip~~~---~~~L~~L~Ls~---N~l~---~~p~-~~~l~~L~~L~L~~N~l  308 (312)
T 1wwl_A          245 -GAPSCDWPSQLNSLNLSFTGLKQ-----VPKGL---PAKLSVLDLSY---NRLD---RNPS-PDELPQVGNLSLKGNPF  308 (312)
T ss_dssp             -CCSCCCCCTTCCEEECTTSCCSS-----CCSSC---CSEEEEEECCS---SCCC---SCCC-TTTSCEEEEEECTTCTT
T ss_pred             -chhhhhhcCCCCEEECCCCccCh-----hhhhc---cCCceEEECCC---CCCC---CChh-HhhCCCCCEEeccCCCC
Confidence             01224567899999999886542     33322   27889888833   2222   2233 67889999999986643

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=98.73  E-value=7.9e-09  Score=83.30  Aligned_cols=143  Identities=17%  Similarity=0.133  Sum_probs=106.3

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++..+..  ..+| .+..+++|++|++++|.+..++.+..+++|++|+++++.+.+.... .++.+++|+.|++.
T Consensus        45 ~L~~L~l~~n~i--~~l~-~l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~-~l~~l~~L~~L~Ls  120 (197)
T 4ezg_A           45 SLTYITLANINV--TDLT-GIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIP-NLSGLTSLTLLDIS  120 (197)
T ss_dssp             TCCEEEEESSCC--SCCT-TGGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTCBGGGSC-CCTTCTTCCEEECC
T ss_pred             CccEEeccCCCc--cChH-HHhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCccCcccCh-hhcCCCCCCEEEec
Confidence            578888876654  3667 6888999999999999887766788899999999999988764333 36789999999999


Q ss_pred             ccccee----EEEeCCCceEEEeecee--eee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEE
Q 042404           82 YFDSLD----LNICAPELKYLYLEGEF--KDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLV  154 (311)
Q Consensus        82 ~c~~~~----~~i~~~~L~~L~i~~~~--~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~  154 (311)
                      +|....    .....++|++|.+.++.  ..+ .+..+|+|+.++++.+...+.            . .+..+++|+.|+
T Consensus       121 ~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~~l~~l~~L~~L~l~~n~i~~~------------~-~l~~l~~L~~L~  187 (197)
T 4ezg_A          121 HSAHDDSILTKINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFDGVHDY------------R-GIEDFPKLNQLY  187 (197)
T ss_dssp             SSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCGGGGGCSSCCEEECTTBCCCCC------------T-TGGGCSSCCEEE
T ss_pred             CCccCcHhHHHHhhCCCCCEEEccCCCCccccHhhcCCCCCCEEECCCCCCcCh------------H-HhccCCCCCEEE
Confidence            986432    11245789999998862  222 356889999999877654321            1 357889999999


Q ss_pred             EeeeEEE
Q 042404          155 GYIYFTK  161 (311)
Q Consensus       155 l~~~~~~  161 (311)
                      +.++.+.
T Consensus       188 l~~N~i~  194 (197)
T 4ezg_A          188 AFSQTIG  194 (197)
T ss_dssp             ECBC---
T ss_pred             eeCcccC
Confidence            9988653

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=98.72  E-value=2.9e-08  Score=92.02  Aligned_cols=81  Identities=12%  Similarity=0.029  Sum_probs=51.9

Q ss_pred             ccCCCCcEEEccceeeCC--CCCCCCCCcccEEEeeeeeeCh-HHHHHHHhcCcccccccccccccee-----EEEeCCC
Q 042404           23 FNCRKLTRLELFRCEFDP--PLTFTGFPCLRSLNLHQVLVAP-EAIESLISSCPLLESLSLSYFDSLD-----LNICAPE   94 (311)
Q Consensus        23 ~~~~~L~~L~L~~~~l~~--~~~~~~l~~L~~L~L~~~~~~~-~~l~~ll~~cp~Le~L~l~~c~~~~-----~~i~~~~   94 (311)
                      ..+++|++|+|++|.+..  |..+..+++|+.|+++++.+.+ ..++..+..+++|+.|++++|....     .....++
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~  400 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKS  400 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTT
T ss_pred             hhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCcc
Confidence            456777788887777653  5566677778888887777764 2355566777788888777765322     1122345


Q ss_pred             ceEEEeece
Q 042404           95 LKYLYLEGE  103 (311)
Q Consensus        95 L~~L~i~~~  103 (311)
                      |+.|.+.++
T Consensus       401 L~~L~Ls~N  409 (520)
T 2z7x_B          401 LLSLNMSSN  409 (520)
T ss_dssp             CCEEECCSS
T ss_pred             CCEEECcCC
Confidence            666666554

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=98.72  E-value=1.6e-09  Score=103.81  Aligned_cols=122  Identities=16%  Similarity=0.046  Sum_probs=76.4

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC--CC-CCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PP-LTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~-~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      .+++|++.-+... ...|..+..+++|++|+|++|.+.  .| ..+.++++|+.|+++++.+... ....+..+|+|+.|
T Consensus       382 ~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~~~~L~~L  459 (680)
T 1ziw_A          382 PLHILNLTKNKIS-KIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQL-TRNSFALVPSLQRL  459 (680)
T ss_dssp             CCCEEECTTSCCC-EECTTTTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEEC-CTTTTTTCTTCCEE
T ss_pred             cCceEECCCCCCC-eEChhhhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCccee-ChhhhhcCcccccc
Confidence            4566666544331 234566778889999999988763  22 4567888899999988876432 11224568888888


Q ss_pred             cccccccee------EEEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEc
Q 042404           79 SLSYFDSLD------LNICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMT  125 (311)
Q Consensus        79 ~l~~c~~~~------~~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~  125 (311)
                      .+.+|..-.      .....++|+.|.+.++ ...+   .+..+++|+.++++.+..
T Consensus       460 ~l~~n~l~~~~~~p~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l  516 (680)
T 1ziw_A          460 MLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNL  516 (680)
T ss_dssp             ECTTSCCBCTTCSSCTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             hhccccccccccCCcccccCCCCCEEECCCCCCCcCChhhhccccccCEEeCCCCCc
Confidence            887765321      1112357777777764 2222   244677777777766543

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=98.71  E-value=1.1e-09  Score=94.09  Aligned_cols=191  Identities=19%  Similarity=0.118  Sum_probs=120.7

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLS   79 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~   79 (311)
                      +++++++.-.  ....+|..+.  +++++|+|++|.+.  .+..+.++++|+.|+|+++.++.-..   ...+++|+.|+
T Consensus        11 ~l~~l~~~~~--~l~~ip~~~~--~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~---~~~l~~L~~L~   83 (290)
T 1p9a_G           11 SHLEVNCDKR--NLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQV---DGTLPVLGTLD   83 (290)
T ss_dssp             TCCEEECTTS--CCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEEC---CSCCTTCCEEE
T ss_pred             CccEEECCCC--CCCcCCCCCC--CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcccC---CCCCCcCCEEE
Confidence            3455554322  2346776654  68899999988875  34457788999999999887765211   15788899999


Q ss_pred             cccccceeE---EEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceE
Q 042404           80 LSYFDSLDL---NICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEK  152 (311)
Q Consensus        80 l~~c~~~~~---~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~  152 (311)
                      +.++....+   ....++|++|.+.++ ...+   .+..+++|+.++++.+......           ...+..+++|+.
T Consensus        84 Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~-----------~~~~~~l~~L~~  152 (290)
T 1p9a_G           84 LSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP-----------PGLLTPTPKLEK  152 (290)
T ss_dssp             CCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCC-----------TTTTTTCTTCCE
T ss_pred             CCCCcCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccC-----------hhhcccccCCCE
Confidence            988764331   123468888888875 2322   3557888888888766543211           233567788888


Q ss_pred             EEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcc
Q 042404          153 LVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLA  221 (311)
Q Consensus       153 L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~  221 (311)
                      |++..+.++.     .+......+++|++|.+....+.      .++.-+...+.|+.|++..++..+.
T Consensus       153 L~L~~N~l~~-----l~~~~~~~l~~L~~L~L~~N~l~------~ip~~~~~~~~L~~l~L~~Np~~C~  210 (290)
T 1p9a_G          153 LSLANNNLTE-----LPAGLLNGLENLDTLLLQENSLY------TIPKGFFGSHLLPFAFLHGNPWLCN  210 (290)
T ss_dssp             EECTTSCCSC-----CCTTTTTTCTTCCEEECCSSCCC------CCCTTTTTTCCCSEEECCSCCBCCS
T ss_pred             EECCCCcCCc-----cCHHHhcCcCCCCEEECCCCcCC------ccChhhcccccCCeEEeCCCCccCc
Confidence            8888776543     22222234677888887322111      2333445567888888887776543

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=98.71  E-value=4.6e-09  Score=90.15  Aligned_cols=159  Identities=24%  Similarity=0.250  Sum_probs=113.6

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++.-+..  ..+| .+..+++|++|+|++|.+...+.+.++++|+.|+++++.+.+-  +. +..+++|++|++.
T Consensus        47 ~L~~L~l~~~~i--~~~~-~~~~l~~L~~L~L~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~--~~-l~~l~~L~~L~L~  120 (291)
T 1h6t_A           47 SIDQIIANNSDI--KSVQ-GIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDL--SS-LKDLKKLKSLSLE  120 (291)
T ss_dssp             TCCEEECTTSCC--CCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCG--GG-GTTCTTCCEEECT
T ss_pred             cccEEEccCCCc--ccCh-hHhcCCCCCEEEccCCccCCCcccccCCCCCEEECCCCcCCCC--hh-hccCCCCCEEECC
Confidence            466776654432  3444 4788999999999999887433478899999999999988662  22 7789999999999


Q ss_pred             cccceeE--EEeCCCceEEEeece-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEee
Q 042404           82 YFDSLDL--NICAPELKYLYLEGE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYI  157 (311)
Q Consensus        82 ~c~~~~~--~i~~~~L~~L~i~~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~  157 (311)
                      +|....+  ....++|+.|.+.++ ...+ .+..+++|+.++++.+...+.            .. +..+++|+.|+++.
T Consensus       121 ~n~i~~~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~N~l~~~------------~~-l~~l~~L~~L~L~~  187 (291)
T 1h6t_A          121 HNGISDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDI------------VP-LAGLTKLQNLYLSK  187 (291)
T ss_dssp             TSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCC------------GG-GTTCTTCCEEECCS
T ss_pred             CCcCCCChhhcCCCCCCEEEccCCcCCcchhhccCCCCCEEEccCCccccc------------hh-hcCCCccCEEECCC
Confidence            8864331  123478999999886 2332 355789999999887654321            22 67889999999998


Q ss_pred             eEEEEeecCCCCCCCCccccccceEEEee
Q 042404          158 YFTKYLSIGDDPGRLPITYNHLKVIELYQ  186 (311)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~f~~L~~L~l~~  186 (311)
                      +.+..+     +. + ..+++|+.|.+..
T Consensus       188 N~i~~l-----~~-l-~~l~~L~~L~l~~  209 (291)
T 1h6t_A          188 NHISDL-----RA-L-AGLKNLDVLELFS  209 (291)
T ss_dssp             SCCCBC-----GG-G-TTCTTCSEEEEEE
T ss_pred             CcCCCC-----hh-h-ccCCCCCEEECcC
Confidence            876543     21 2 2578889888854

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=98.71  E-value=1.6e-09  Score=102.17  Aligned_cols=164  Identities=19%  Similarity=0.155  Sum_probs=87.8

Q ss_pred             cCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE--EEeCCCceEEEee
Q 042404           24 NCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL--NICAPELKYLYLE  101 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~--~i~~~~L~~L~i~  101 (311)
                      .+++|+.|+|.++.+...+.+..+++|+.|+|+++.+.+-..   +..+++|+.|.|.+|....+  ....++|+.|.+.
T Consensus        41 ~L~~L~~L~l~~n~i~~l~~l~~l~~L~~L~Ls~N~l~~~~~---l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls  117 (605)
T 1m9s_A           41 ELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP---LTNLKNLGWLFLDENKIKDLSSLKDLKKLKSLSLE  117 (605)
T ss_dssp             HHTTCCCCBCTTCCCCCCTTGGGCTTCCEEECTTSCCCCCGG---GGGCTTCCEEECCSSCCCCCTTSTTCTTCCEEECT
T ss_pred             cCCCCCEEECcCCCCCCChHHccCCCCCEEEeeCCCCCCChh---hccCCCCCEEECcCCCCCCChhhccCCCCCEEEec
Confidence            345666666666665544445566666666666665544211   55666666666666543221  1123456666666


Q ss_pred             ce-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCcccccc
Q 042404          102 GE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHL  179 (311)
Q Consensus       102 ~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L  179 (311)
                      ++ +..+ .+..+++|+.++++.+...+             ...+..+++|+.|+|+.+.+..+.    +   ...+++|
T Consensus       118 ~N~l~~l~~l~~l~~L~~L~Ls~N~l~~-------------l~~l~~l~~L~~L~Ls~N~l~~~~----~---l~~l~~L  177 (605)
T 1m9s_A          118 HNGISDINGLVHLPQLESLYLGNNKITD-------------ITVLSRLTKLDTLSLEDNQISDIV----P---LAGLTKL  177 (605)
T ss_dssp             TSCCCCCGGGGGCTTCSEEECCSSCCCC-------------CGGGGSCTTCSEEECCSSCCCCCG----G---GTTCTTC
T ss_pred             CCCCCCCccccCCCccCEEECCCCccCC-------------chhhcccCCCCEEECcCCcCCCch----h---hccCCCC
Confidence            54 2222 24466777777776554332             123566777777777766443211    1   1245667


Q ss_pred             ceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          180 KVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       180 ~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      ++|.+....+..      + ..+..+++|+.|++..+.
T Consensus       178 ~~L~Ls~N~i~~------l-~~l~~l~~L~~L~L~~N~  208 (605)
T 1m9s_A          178 QNLYLSKNHISD------L-RALAGLKNLDVLELFSQE  208 (605)
T ss_dssp             CEEECCSSCCCB------C-GGGTTCTTCSEEECCSEE
T ss_pred             CEEECcCCCCCC------C-hHHccCCCCCEEEccCCc
Confidence            777763222221      1 125667777777776553

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=98.70  E-value=2.1e-08  Score=92.97  Aligned_cols=128  Identities=19%  Similarity=0.109  Sum_probs=91.5

Q ss_pred             eeecCCCcccCCCCcEEEccceeeCC--CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEE-e
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFDP--PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNI-C   91 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~~--~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i-~   91 (311)
                      ...+|..++  ++|++|+|++|.+..  |..+.++++|++|+|+++.+.+. .+..+.++++|++|+++++....+.. .
T Consensus        12 l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L~Ls~N~l~~lp~~~   88 (520)
T 2z7x_B           12 LIHVPKDLS--QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYL-DISVFKFNQELEYLDLSHNKLVKISCHP   88 (520)
T ss_dssp             CSSCCCSCC--TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEE-EGGGGTTCTTCCEEECCSSCCCEEECCC
T ss_pred             ccccccccc--ccccEEECCCCcccccChhhccccccccEEecCCCccCCc-ChHHhhcccCCCEEecCCCceeecCccc
Confidence            357887776  899999999998863  23577899999999999987653 23346789999999999986544211 5


Q ss_pred             CCCceEEEeece-eee----eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcc--eEEEEeeeE
Q 042404           92 APELKYLYLEGE-FKD----IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHL--EKLVGYIYF  159 (311)
Q Consensus        92 ~~~L~~L~i~~~-~~~----~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l--~~L~l~~~~  159 (311)
                      .++|++|.+.++ ...    -.+..+++|++++++.+...+              ..+..++++  +.|++..+.
T Consensus        89 l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~--------------~~~~~l~~L~L~~L~l~~n~  149 (520)
T 2z7x_B           89 TVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK--------------SSVLPIAHLNISKVLLVLGE  149 (520)
T ss_dssp             CCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCG--------------GGGGGGTTSCEEEEEEEECT
T ss_pred             cCCccEEeccCCccccccchhhhccCCcceEEEecCcccch--------------hhccccccceeeEEEeeccc
Confidence            678999999986 222    245688999999998865431              113444555  777776653

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=98.67  E-value=9e-10  Score=96.31  Aligned_cols=196  Identities=15%  Similarity=0.091  Sum_probs=109.8

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCC-CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDP-PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSL   80 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~-~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l   80 (311)
                      ++++|+|.-+... ...|..+..+++|++|+|++|.+.. |..+  +++|++|+++++.+..- ....+.++++|+.|++
T Consensus        79 ~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~--~~~L~~L~l~~n~i~~~-~~~~~~~l~~L~~L~l  154 (332)
T 2ft3_A           79 HLYALVLVNNKIS-KIHEKAFSPLRKLQKLYISKNHLVEIPPNL--PSSLVELRIHDNRIRKV-PKGVFSGLRNMNCIEM  154 (332)
T ss_dssp             TCCEEECCSSCCC-EECGGGSTTCTTCCEEECCSSCCCSCCSSC--CTTCCEEECCSSCCCCC-CSGGGSSCSSCCEEEC
T ss_pred             CCcEEECCCCccC-ccCHhHhhCcCCCCEEECCCCcCCccCccc--cccCCEEECCCCccCcc-CHhHhCCCccCCEEEC
Confidence            5677776655431 2235567777888888888777652 3222  26777777777665432 1122456677777776


Q ss_pred             ccccce-------------------------eEE-EeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccch
Q 042404           81 SYFDSL-------------------------DLN-ICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAE  130 (311)
Q Consensus        81 ~~c~~~-------------------------~~~-i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~  130 (311)
                      .++...                         .+. .-.++|+.|.+.++ ...+   .+..+++|+.++++.+...+.. 
T Consensus       155 ~~n~l~~~~~~~~~~~~l~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~-  233 (332)
T 2ft3_A          155 GGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIE-  233 (332)
T ss_dssp             CSCCCBGGGSCTTSSCSCCCSCCBCCSSBCSSCCSSSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCC-
T ss_pred             CCCccccCCCCcccccCCccCEEECcCCCCCccCccccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCC-
Confidence            665421                         100 00145666666664 2222   2456778888887765543211 


Q ss_pred             hhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHH--HHhcCCCc
Q 042404          131 HFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIR--LITNSPNL  208 (311)
Q Consensus       131 ~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~--~l~~~p~L  208 (311)
                                ...+..+++|+.|++..+.+..     .|..+. .+++|+.|.+....+... +...+..  .....+.|
T Consensus       234 ----------~~~~~~l~~L~~L~L~~N~l~~-----lp~~l~-~l~~L~~L~l~~N~l~~~-~~~~~~~~~~~~~~~~l  296 (332)
T 2ft3_A          234 ----------NGSLSFLPTLRELHLDNNKLSR-----VPAGLP-DLKLLQVVYLHTNNITKV-GVNDFCPVGFGVKRAYY  296 (332)
T ss_dssp             ----------TTGGGGCTTCCEEECCSSCCCB-----CCTTGG-GCTTCCEEECCSSCCCBC-CTTSSSCSSCCSSSCCB
T ss_pred             ----------hhHhhCCCCCCEEECCCCcCee-----cChhhh-cCccCCEEECCCCCCCcc-ChhHccccccccccccc
Confidence                      2235788999999999886542     333333 578899998843222211 0001100  01125788


Q ss_pred             ceEEEEeccCC
Q 042404          209 KELHISGSSNT  219 (311)
Q Consensus       209 ~~L~i~~~~~~  219 (311)
                      +.|++..++..
T Consensus       297 ~~L~l~~N~~~  307 (332)
T 2ft3_A          297 NGISLFNNPVP  307 (332)
T ss_dssp             SEEECCSSSSC
T ss_pred             cceEeecCccc
Confidence            99999876543

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.67  E-value=1.4e-10  Score=102.74  Aligned_cols=206  Identities=15%  Similarity=0.134  Sum_probs=132.9

Q ss_pred             CceEEEEEeCCCeeeecC-----CCcccCC-CCcEEEccceeeCC--CCCCCC-----CCcccEEEeeeeeeCh---HHH
Q 042404            2 DIRELVLELGEGEWFRVP-----SCLFNCR-KLTRLELFRCEFDP--PLTFTG-----FPCLRSLNLHQVLVAP---EAI   65 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp-----~~~~~~~-~L~~L~L~~~~l~~--~~~~~~-----l~~L~~L~L~~~~~~~---~~l   65 (311)
                      ++++|+|..+..  ...+     ..+..++ +|++|+|++|.+..  +..+..     +++|++|+|++|.+++   ..+
T Consensus        23 ~L~~L~Ls~n~l--~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l  100 (362)
T 3goz_A           23 GVTSLDLSLNNL--YSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDEL  100 (362)
T ss_dssp             TCCEEECTTSCG--GGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHH
T ss_pred             CceEEEccCCCC--ChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHH
Confidence            578888765542  2222     4455677 89999999998864  222333     3899999999999875   345


Q ss_pred             HHHHhcC-ccccccccccccceeEE-------Ee--CCCceEEEeece-eeee-------eecCCC-CcceeEEEEEEcc
Q 042404           66 ESLISSC-PLLESLSLSYFDSLDLN-------IC--APELKYLYLEGE-FKDI-------HLESTP-LLVSMSIAMYMTD  126 (311)
Q Consensus        66 ~~ll~~c-p~Le~L~l~~c~~~~~~-------i~--~~~L~~L~i~~~-~~~~-------~i~~~p-~L~~l~l~~~~~~  126 (311)
                      ...+..+ ++|+.|++.+|......       +.  .++|++|.++++ ....       .+...+ +|++++++.+...
T Consensus       101 ~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~  180 (362)
T 3goz_A          101 VKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLA  180 (362)
T ss_dssp             HHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGG
T ss_pred             HHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCc
Confidence            5667777 89999999998743211       11  259999999986 2211       122444 9999999877543


Q ss_pred             ccchhhcccccchHHHHhcCCC-cceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcC
Q 042404          127 DIAEHFEQSSSCNFLKILGGVP-HLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNS  205 (311)
Q Consensus       127 ~~~~~~~~~~~~~~~~~l~~l~-~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~  205 (311)
                      +.       ....+...+...+ +|+.|+++.+.+........+..+....++|++|.+....+.. .+...+...++.+
T Consensus       181 ~~-------~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~-~~~~~l~~~~~~l  252 (362)
T 3goz_A          181 SK-------NCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHG-PSLENLKLLKDSL  252 (362)
T ss_dssp             GS-------CHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCC-CCHHHHHHTTTTT
T ss_pred             hh-------hHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCCCCc-HHHHHHHHHHhcC
Confidence            21       1123455666774 9999999987643211100111111113589999994432332 3445777888999


Q ss_pred             CCcceEEEEecc
Q 042404          206 PNLKELHISGSS  217 (311)
Q Consensus       206 p~L~~L~i~~~~  217 (311)
                      ++|+.|++..+.
T Consensus       253 ~~L~~L~L~~n~  264 (362)
T 3goz_A          253 KHLQTVYLDYDI  264 (362)
T ss_dssp             TTCSEEEEEHHH
T ss_pred             CCccEEEeccCC
Confidence            999999999875

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=98.67  E-value=6.6e-09  Score=98.03  Aligned_cols=141  Identities=25%  Similarity=0.244  Sum_probs=80.5

Q ss_pred             CcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE--EEeCCCceEE
Q 042404           21 CLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL--NICAPELKYL   98 (311)
Q Consensus        21 ~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~--~i~~~~L~~L   98 (311)
                      .+..+++|+.|+|++|.+...+.+..+++|+.|+|+++.+.+-  + .+..+++|+.|+|.+|....+  ....++|+.|
T Consensus        60 ~l~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~l--~-~l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L  136 (605)
T 1m9s_A           60 GIQYLPNVTKLFLNGNKLTDIKPLTNLKNLGWLFLDENKIKDL--S-SLKDLKKLKSLSLEHNGISDINGLVHLPQLESL  136 (605)
T ss_dssp             TGGGCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCC--T-TSTTCTTCCEEECTTSCCCCCGGGGGCTTCSEE
T ss_pred             HHccCCCCCEEEeeCCCCCCChhhccCCCCCEEECcCCCCCCC--h-hhccCCCCCEEEecCCCCCCCccccCCCccCEE
Confidence            4666777777777777665333366677777777777766542  1 255677777777776653221  1123567777


Q ss_pred             Eeece-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccc
Q 042404           99 YLEGE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITY  176 (311)
Q Consensus        99 ~i~~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f  176 (311)
                      .+.++ ...+ .+..+++|+.|+++.+...+.            .. +..+++|+.|+|+.+.+..+     + .+ ..+
T Consensus       137 ~Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~~------------~~-l~~l~~L~~L~Ls~N~i~~l-----~-~l-~~l  196 (605)
T 1m9s_A          137 YLGNNKITDITVLSRLTKLDTLSLEDNQISDI------------VP-LAGLTKLQNLYLSKNHISDL-----R-AL-AGL  196 (605)
T ss_dssp             ECCSSCCCCCGGGGSCTTCSEEECCSSCCCCC------------GG-GTTCTTCCEEECCSSCCCBC-----G-GG-TTC
T ss_pred             ECCCCccCCchhhcccCCCCEEECcCCcCCCc------------hh-hccCCCCCEEECcCCCCCCC-----h-HH-ccC
Confidence            77664 2222 244667777777665543321            11 45666677777666654432     1 11 135


Q ss_pred             cccceEEE
Q 042404          177 NHLKVIEL  184 (311)
Q Consensus       177 ~~L~~L~l  184 (311)
                      ++|+.|.+
T Consensus       197 ~~L~~L~L  204 (605)
T 1m9s_A          197 KNLDVLEL  204 (605)
T ss_dssp             TTCSEEEC
T ss_pred             CCCCEEEc
Confidence            66666666

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=98.66  E-value=2.8e-09  Score=89.35  Aligned_cols=144  Identities=17%  Similarity=0.126  Sum_probs=103.5

Q ss_pred             CceEEEEEeCCCeeeecC-CCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVP-SCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp-~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|.-...  ..++ ..+..+++|++|+|++|.+.  .+..+..+++|+.|+|+++.+..- ....+..+++|+.|
T Consensus        36 ~l~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L  112 (251)
T 3m19_A           36 DTEKLDLQSTGL--ATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASL-PLGVFDHLTQLDKL  112 (251)
T ss_dssp             TCCEEECTTSCC--CCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCC-CTTTTTTCTTCCEE
T ss_pred             CCCEEEccCCCc--CccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCccccc-ChhHhcccCCCCEE
Confidence            456666654433  2344 45778999999999999886  344478899999999999988753 22346789999999


Q ss_pred             ccccccceeE----EEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcc
Q 042404           79 SLSYFDSLDL----NICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHL  150 (311)
Q Consensus        79 ~l~~c~~~~~----~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l  150 (311)
                      ++.++....+    ....++|+.|.+.++ ...+   .+..+++|+.++++.+...+..           ...+..+++|
T Consensus       113 ~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~-----------~~~~~~l~~L  181 (251)
T 3m19_A          113 YLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVP-----------HGAFDRLGKL  181 (251)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCC-----------TTTTTTCTTC
T ss_pred             EcCCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCccC-----------HHHHhCCCCC
Confidence            9999864331    123578999999986 3332   3557899999999887654321           2346788999


Q ss_pred             eEEEEeeeE
Q 042404          151 EKLVGYIYF  159 (311)
Q Consensus       151 ~~L~l~~~~  159 (311)
                      +.|++.++.
T Consensus       182 ~~L~l~~N~  190 (251)
T 3m19_A          182 QTITLFGNQ  190 (251)
T ss_dssp             CEEECCSCC
T ss_pred             CEEEeeCCc
Confidence            999998764

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=98.66  E-value=6.5e-08  Score=91.46  Aligned_cols=109  Identities=16%  Similarity=0.055  Sum_probs=69.5

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|+|.-+..  ..+|.   .+++|++|+|++|.+...+.  .+++|+.|+++++.+..-  +   ...++|+.|++.
T Consensus        62 ~L~~L~L~~N~l--~~lp~---~l~~L~~L~Ls~N~l~~lp~--~l~~L~~L~Ls~N~l~~l--~---~~l~~L~~L~L~  129 (622)
T 3g06_A           62 HITTLVIPDNNL--TSLPA---LPPELRTLEVSGNQLTSLPV--LPPGLLELSIFSNPLTHL--P---ALPSGLCKLWIF  129 (622)
T ss_dssp             TCSEEEECSCCC--SCCCC---CCTTCCEEEECSCCCSCCCC--CCTTCCEEEECSCCCCCC--C---CCCTTCCEEECC
T ss_pred             CCcEEEecCCCC--CCCCC---cCCCCCEEEcCCCcCCcCCC--CCCCCCEEECcCCcCCCC--C---CCCCCcCEEECC
Confidence            577888766643  35666   46889999999988763332  678899999988876541  1   156778888888


Q ss_pred             cccceeEEEeCCCceEEEeece-eeeeeecCCCCcceeEEEEE
Q 042404           82 YFDSLDLNICAPELKYLYLEGE-FKDIHLESTPLLVSMSIAMY  123 (311)
Q Consensus        82 ~c~~~~~~i~~~~L~~L~i~~~-~~~~~i~~~p~L~~l~l~~~  123 (311)
                      +|....+....++|++|.++++ ...+. ...++|+.+.++.+
T Consensus       130 ~N~l~~lp~~l~~L~~L~Ls~N~l~~l~-~~~~~L~~L~L~~N  171 (622)
T 3g06_A          130 GNQLTSLPVLPPGLQELSVSDNQLASLP-ALPSELCKLWAYNN  171 (622)
T ss_dssp             SSCCSCCCCCCTTCCEEECCSSCCSCCC-CCCTTCCEEECCSS
T ss_pred             CCCCCcCCCCCCCCCEEECcCCcCCCcC-CccCCCCEEECCCC
Confidence            7753333323477888877775 22221 13445555555443

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=98.64  E-value=6.6e-08  Score=90.57  Aligned_cols=107  Identities=17%  Similarity=0.050  Sum_probs=81.1

Q ss_pred             eeecCCCcccCCCCcEEEccceeeCC--CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee--EEE
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFDP--PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD--LNI   90 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~~--~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~--~~i   90 (311)
                      ...+|..+.  ++|++|+|++|.+..  +..+.++++|++|+|+++.+++- .+..+.++++|++|++.++....  .. 
T Consensus        43 L~~ip~~~~--~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~Ls~N~l~~lp~~-  118 (562)
T 3a79_B           43 LTHVPKDLP--PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSL-DFHVFLFNQDLEYLDVSHNRLQNISCC-  118 (562)
T ss_dssp             CCSCCTTSC--TTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEE-CTTTTTTCTTCCEEECTTSCCCEECSC-
T ss_pred             CccCCCCCC--CCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcC-CHHHhCCCCCCCEEECCCCcCCccCcc-
Confidence            346787665  899999999998863  34688999999999999987653 22346789999999999987443  22 


Q ss_pred             eCCCceEEEeece-eeee----eecCCCCcceeEEEEEEc
Q 042404           91 CAPELKYLYLEGE-FKDI----HLESTPLLVSMSIAMYMT  125 (311)
Q Consensus        91 ~~~~L~~L~i~~~-~~~~----~i~~~p~L~~l~l~~~~~  125 (311)
                      ..++|++|.+.++ ...+    .+..+++|+.++++.+..
T Consensus       119 ~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l  158 (562)
T 3a79_B          119 PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKF  158 (562)
T ss_dssp             CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBC
T ss_pred             ccccCCEEECCCCCccccCchHhhcccCcccEEecCCCcc
Confidence            5689999999986 3322    356889999999988654

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.63  E-value=4.8e-09  Score=82.23  Aligned_cols=135  Identities=20%  Similarity=0.178  Sum_probs=81.7

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++.-+......+|..+..+++|++|+|++|.+.....+..+++|+.|+++++.+.+. ++..+..+++|+.|++.
T Consensus        25 ~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~Ls  103 (168)
T 2ell_A           25 AVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGG-LDMLAEKLPNLTHLNLS  103 (168)
T ss_dssp             SCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCCCSC-CCHHHHHCTTCCEEECB
T ss_pred             cCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcCchH-HHHHHhhCCCCCEEecc
Confidence            46666665443211256666677777777777777765445566777777777777776553 44445567777777777


Q ss_pred             cccceeEEEeCCCceEEEeeceeee-eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEE
Q 042404           82 YFDSLDLNICAPELKYLYLEGEFKD-IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFT  160 (311)
Q Consensus        82 ~c~~~~~~i~~~~L~~L~i~~~~~~-~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~  160 (311)
                      +|....                ... -.+..+++|+.++++.+...+..        ......+..+++|+.|++..+..
T Consensus       104 ~N~l~~----------------~~~~~~l~~l~~L~~L~l~~N~l~~~~--------~~~~~~~~~l~~L~~L~l~~n~~  159 (168)
T 2ell_A          104 GNKLKD----------------ISTLEPLKKLECLKSLDLFNCEVTNLN--------DYRESVFKLLPQLTYLDGYDRED  159 (168)
T ss_dssp             SSSCCS----------------SGGGGGGSSCSCCCEEECCSSGGGTST--------THHHHHHTTCSSCCEETTEETTS
T ss_pred             CCccCc----------------chhHHHHhcCCCCCEEEeeCCcCcchH--------HHHHHHHHhCccCcEecCCCCCh
Confidence            664211                011 12346777888877665443211        00123567888888888877654


Q ss_pred             E
Q 042404          161 K  161 (311)
Q Consensus       161 ~  161 (311)
                      .
T Consensus       160 ~  160 (168)
T 2ell_A          160 Q  160 (168)
T ss_dssp             C
T ss_pred             h
Confidence            3

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=98.63  E-value=7.3e-09  Score=86.11  Aligned_cols=186  Identities=11%  Similarity=0.041  Sum_probs=119.4

Q ss_pred             CceEEEEEeCCCeeeecCC-CcccCCCCcEEEcccee-eC--CCCCCCCCCcccEEEeee-eeeChHHHHHHHhcCcccc
Q 042404            2 DIRELVLELGEGEWFRVPS-CLFNCRKLTRLELFRCE-FD--PPLTFTGFPCLRSLNLHQ-VLVAPEAIESLISSCPLLE   76 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~-~~~~~~~L~~L~L~~~~-l~--~~~~~~~l~~L~~L~L~~-~~~~~~~l~~ll~~cp~Le   76 (311)
                      ++++|+|.-...  ..+|. .+..+++|++|+|++|. +.  .+..+.++++|+.|++++ +.+..- ....+.++++|+
T Consensus        32 ~l~~L~l~~n~l--~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i-~~~~f~~l~~L~  108 (239)
T 2xwt_C           32 STQTLKLIETHL--RTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYI-DPDALKELPLLK  108 (239)
T ss_dssp             TCCEEEEESCCC--SEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEE-CTTSEECCTTCC
T ss_pred             cccEEEEeCCcc--eEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEc-CHHHhCCCCCCC
Confidence            578888877654  45665 57789999999999996 65  334677899999999998 666542 122366899999


Q ss_pred             ccccccccceeEE--EeCCCce---EEEeece--eeee---eecCCCCcc-eeEEEEEEccccchhhcccccchHHHHhc
Q 042404           77 SLSLSYFDSLDLN--ICAPELK---YLYLEGE--FKDI---HLESTPLLV-SMSIAMYMTDDIAEHFEQSSSCNFLKILG  145 (311)
Q Consensus        77 ~L~l~~c~~~~~~--i~~~~L~---~L~i~~~--~~~~---~i~~~p~L~-~l~l~~~~~~~~~~~~~~~~~~~~~~~l~  145 (311)
                      .|++.++....+.  ...++|+   .|.+.++  ...+   .+..+++|+ .++++.+......           ...+.
T Consensus       109 ~L~l~~n~l~~lp~~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~-----------~~~~~  177 (239)
T 2xwt_C          109 FLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQ-----------GYAFN  177 (239)
T ss_dssp             EEEEEEECCCSCCCCTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEEC-----------TTTTT
T ss_pred             EEeCCCCCCccccccccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcccC-----------HhhcC
Confidence            9999988643211  1224555   8888875  2333   255788999 8888765433211           11233


Q ss_pred             CCCcceEEEEeeeE-EEEeecCCCCCCCCccc-cccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEe
Q 042404          146 GVPHLEKLVGYIYF-TKYLSIGDDPGRLPITY-NHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISG  215 (311)
Q Consensus       146 ~l~~l~~L~l~~~~-~~~l~~~~~~~~~~~~f-~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~  215 (311)
                      . ++|+.|++..+. +..+..+     ....+ ++|+.|.+....+..      ++.  ..+++|+.|.+..
T Consensus       178 ~-~~L~~L~L~~n~~l~~i~~~-----~~~~l~~~L~~L~l~~N~l~~------l~~--~~~~~L~~L~l~~  235 (239)
T 2xwt_C          178 G-TKLDAVYLNKNKYLTVIDKD-----AFGGVYSGPSLLDVSQTSVTA------LPS--KGLEHLKELIARN  235 (239)
T ss_dssp             T-CEEEEEECTTCTTCCEECTT-----TTTTCSBCCSEEECTTCCCCC------CCC--TTCTTCSEEECTT
T ss_pred             C-CCCCEEEcCCCCCcccCCHH-----HhhccccCCcEEECCCCcccc------CCh--hHhccCceeeccC
Confidence            3 789999998773 5543221     11235 788888883221211      111  1577888887753

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.61  E-value=3.6e-09  Score=81.21  Aligned_cols=82  Identities=23%  Similarity=0.272  Sum_probs=61.5

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++..+......+|..+..+++|++|+|++|.+.....+..+++|+.|+++++.+.+. ++..+..+++|+.|++.
T Consensus        18 ~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~n~i~~~-~~~~~~~l~~L~~L~ls   96 (149)
T 2je0_A           18 DVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGG-LEVLAEKCPNLTHLNLS   96 (149)
T ss_dssp             GCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCCTTCCCCTTCCEEECCSSCCCSC-THHHHHHCTTCCEEECT
T ss_pred             cCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCchhhhcCCCCCEEECCCCcccch-HHHHhhhCCCCCEEECC
Confidence            46677765543311267887788899999999988876556677888999999998887764 55666778888888888


Q ss_pred             ccc
Q 042404           82 YFD   84 (311)
Q Consensus        82 ~c~   84 (311)
                      +|.
T Consensus        97 ~N~   99 (149)
T 2je0_A           97 GNK   99 (149)
T ss_dssp             TSC
T ss_pred             CCc
Confidence            875

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=98.61  E-value=6e-09  Score=88.48  Aligned_cols=185  Identities=14%  Similarity=0.093  Sum_probs=128.7

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++.-+..  ..+ ..+..+++|++|+|++|.+..++.+..+++|++|+++++.+..- ....+..+++|+.|++.
T Consensus        42 ~L~~L~l~~~~i--~~~-~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~L~  117 (272)
T 3rfs_A           42 SIDQIIANNSDI--KSV-QGIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSL-PNGVFDKLTNLKELVLV  117 (272)
T ss_dssp             TCCEEECTTSCC--CCC-TTGGGCTTCCEEECTTSCCCCCGGGTTCTTCCEEECTTSCCCCC-CTTTTTTCTTCCEEECT
T ss_pred             ceeeeeeCCCCc--ccc-cccccCCCCcEEECCCCCCCCchhhcCCCCCCEEECCCCccCcc-ChhHhcCCcCCCEEECC
Confidence            466666544432  233 35788999999999999987666788999999999999988753 23346789999999999


Q ss_pred             cccceeE----EEeCCCceEEEeece-eeeee---ecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEE
Q 042404           82 YFDSLDL----NICAPELKYLYLEGE-FKDIH---LESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKL  153 (311)
Q Consensus        82 ~c~~~~~----~i~~~~L~~L~i~~~-~~~~~---i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L  153 (311)
                      +|....+    .-..++|++|.+.++ +..+.   +..+++|+.++++.+...+..           ...++.+++|+.|
T Consensus       118 ~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-----------~~~~~~l~~L~~L  186 (272)
T 3rfs_A          118 ENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLP-----------EGVFDKLTQLKDL  186 (272)
T ss_dssp             TSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-----------TTTTTTCTTCCEE
T ss_pred             CCcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCccC-----------HHHhcCCccCCEE
Confidence            9874431    123578999999986 33332   457899999999887644321           2335788999999


Q ss_pred             EEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          154 VGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       154 ~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      ++..+.+..     .+......+++|+.|.+..   +..         ...||.|+.|.+..+..
T Consensus       187 ~L~~N~l~~-----~~~~~~~~l~~L~~L~l~~---N~~---------~~~~~~l~~l~~~~n~~  234 (272)
T 3rfs_A          187 RLYQNQLKS-----VPDGVFDRLTSLQYIWLHD---NPW---------DCTCPGIRYLSEWINKH  234 (272)
T ss_dssp             ECCSSCCSC-----CCTTTTTTCTTCCEEECCS---SCB---------CCCTTTTHHHHHHHHHT
T ss_pred             ECCCCcCCc-----cCHHHHhCCcCCCEEEccC---CCc---------cccCcHHHHHHHHHHhC
Confidence            999887653     2222223588999999833   221         13477777776665443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=98.57  E-value=6.3e-10  Score=96.39  Aligned_cols=176  Identities=16%  Similarity=0.045  Sum_probs=114.5

Q ss_pred             cCCCCcEEEccceeeC--CCCCC--CCCCcccEEEeeeeeeChH--HHH-HHHhcCcccccccccccccee----EEEeC
Q 042404           24 NCRKLTRLELFRCEFD--PPLTF--TGFPCLRSLNLHQVLVAPE--AIE-SLISSCPLLESLSLSYFDSLD----LNICA   92 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~--~~~~~--~~l~~L~~L~L~~~~~~~~--~l~-~ll~~cp~Le~L~l~~c~~~~----~~i~~   92 (311)
                      .+++|++|+|++|.+.  .|..+  ..+++|++|+|+++.+.+.  .+. .-+..+++|++|++.+|....    .....
T Consensus        89 ~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l  168 (310)
T 4glp_A           89 AYSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAF  168 (310)
T ss_dssp             HHSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCC
T ss_pred             ccCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccC
Confidence            4567999999999875  34444  7899999999999988752  111 224479999999999987533    22255


Q ss_pred             CCceEEEeecee-ee-------eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEee
Q 042404           93 PELKYLYLEGEF-KD-------IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLS  164 (311)
Q Consensus        93 ~~L~~L~i~~~~-~~-------~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~  164 (311)
                      ++|++|.++++. ..       ..+..+|+|++++++.+......        .....+++.+++|+.|+++.+.+....
T Consensus       169 ~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~--------~~~~~l~~~l~~L~~L~Ls~N~l~~~~  240 (310)
T 4glp_A          169 PALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPT--------GVCAALAAAGVQPHSLDLSHNSLRATV  240 (310)
T ss_dssp             TTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHH--------HHHHHHHHHTCCCSSEECTTSCCCCCC
T ss_pred             CCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchH--------HHHHHHHhcCCCCCEEECCCCCCCccc
Confidence            789999999862 21       22357899999999877643210        111234577899999999988655321


Q ss_pred             cCCCCCCCCc--cccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCC
Q 042404          165 IGDDPGRLPI--TYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNT  219 (311)
Q Consensus       165 ~~~~~~~~~~--~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~  219 (311)
                          |..+..  ..++|++|.+....+.      .++..+  +++|+.|++..+...
T Consensus       241 ----p~~~~~~~~~~~L~~L~Ls~N~l~------~lp~~~--~~~L~~L~Ls~N~l~  285 (310)
T 4glp_A          241 ----NPSAPRCMWSSALNSLNLSFAGLE------QVPKGL--PAKLRVLDLSSNRLN  285 (310)
T ss_dssp             ----CSCCSSCCCCTTCCCEECCSSCCC------SCCSCC--CSCCSCEECCSCCCC
T ss_pred             ----hhhHHhccCcCcCCEEECCCCCCC------chhhhh--cCCCCEEECCCCcCC
Confidence                222221  1368999888432222      112211  479999999876543

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=98.57  E-value=3e-08  Score=85.77  Aligned_cols=162  Identities=15%  Similarity=0.076  Sum_probs=108.1

Q ss_pred             CceEEEEEeCCCeeeecC----CCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChH-HHH--HHHhcC
Q 042404            2 DIRELVLELGEGEWFRVP----SCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPE-AIE--SLISSC   72 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp----~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~-~l~--~ll~~c   72 (311)
                      ++++|+|.-.... ...|    ..+..+++|++|+|++|.+.  .+..+.++++|++|+|+++.+.+. .+.  ..+..+
T Consensus       118 ~L~~L~Ls~n~i~-~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l  196 (310)
T 4glp_A          118 ALSSLRLRNVSWA-TGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKF  196 (310)
T ss_dssp             CCSSCEEESCCCS-STTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSS
T ss_pred             CCCEEEeeccccc-chhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcC
Confidence            5778888765431 1111    23346889999999999875  345677899999999999986542 222  223578


Q ss_pred             cccccccccccccee---E----EEeCCCceEEEeece-eeee---eecC---CCCcceeEEEEEEccccchhhcccccc
Q 042404           73 PLLESLSLSYFDSLD---L----NICAPELKYLYLEGE-FKDI---HLES---TPLLVSMSIAMYMTDDIAEHFEQSSSC  138 (311)
Q Consensus        73 p~Le~L~l~~c~~~~---~----~i~~~~L~~L~i~~~-~~~~---~i~~---~p~L~~l~l~~~~~~~~~~~~~~~~~~  138 (311)
                      |+|++|.+.+|..-.   .    .-..++|++|.++++ ....   .+..   .++|++++++.+.....          
T Consensus       197 ~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~~l----------  266 (310)
T 4glp_A          197 PAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLEQV----------  266 (310)
T ss_dssp             CCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCCSC----------
T ss_pred             CCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCCch----------
Confidence            999999999986432   1    124479999999985 2222   1223   37999999987765422          


Q ss_pred             hHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEe
Q 042404          139 NFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELY  185 (311)
Q Consensus       139 ~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~  185 (311)
                        ...+  .++|+.|+++.+.+..+     +.  +..+++|+.|.+.
T Consensus       267 --p~~~--~~~L~~L~Ls~N~l~~~-----~~--~~~l~~L~~L~L~  302 (310)
T 4glp_A          267 --PKGL--PAKLRVLDLSSNRLNRA-----PQ--PDELPEVDNLTLD  302 (310)
T ss_dssp             --CSCC--CSCCSCEECCSCCCCSC-----CC--TTSCCCCSCEECS
T ss_pred             --hhhh--cCCCCEEECCCCcCCCC-----ch--hhhCCCccEEECc
Confidence              1111  27899999999876632     22  2357889999883

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.55  E-value=1.4e-08  Score=85.79  Aligned_cols=99  Identities=18%  Similarity=0.158  Sum_probs=64.8

Q ss_pred             CcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE-EEeCCCceEEE
Q 042404           21 CLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL-NICAPELKYLY   99 (311)
Q Consensus        21 ~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~-~i~~~~L~~L~   99 (311)
                      .+..+++|++|++++|.+...+.+..+++|+.|+|+++.+.+-..   +..+++|+.|++.+|..-++ .+..++|+.|.
T Consensus        36 ~~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L~~N~i~~~~~---l~~l~~L~~L~L~~N~l~~l~~~~~~~L~~L~  112 (263)
T 1xeu_A           36 SQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSP---LKDLTKLEELSVNRNRLKNLNGIPSACLSRLF  112 (263)
T ss_dssp             CHHHHTTCSEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG---GTTCSSCCEEECCSSCCSCCTTCCCSSCCEEE
T ss_pred             chhhcCcCcEEECcCCCcccchHHhhCCCCCEEECCCCccCCChh---hccCCCCCEEECCCCccCCcCccccCcccEEE
Confidence            456788999999999988755567889999999999998876322   77899999999998863220 00115566666


Q ss_pred             eece-eeee-eecCCCCcceeEEEE
Q 042404          100 LEGE-FKDI-HLESTPLLVSMSIAM  122 (311)
Q Consensus       100 i~~~-~~~~-~i~~~p~L~~l~l~~  122 (311)
                      +.++ ...+ .+..+++|+.++++.
T Consensus       113 L~~N~l~~~~~l~~l~~L~~L~Ls~  137 (263)
T 1xeu_A          113 LDNNELRDTDSLIHLKNLEILSIRN  137 (263)
T ss_dssp             CCSSCCSBSGGGTTCTTCCEEECTT
T ss_pred             ccCCccCCChhhcCcccccEEECCC
Confidence            5553 1111 133444444444433

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=98.50  E-value=2.1e-07  Score=87.89  Aligned_cols=97  Identities=18%  Similarity=0.169  Sum_probs=45.7

Q ss_pred             CCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEE----EeCCCceEEEe
Q 042404           27 KLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLN----ICAPELKYLYL  100 (311)
Q Consensus        27 ~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~----i~~~~L~~L~i  100 (311)
                      ++++|+|++|.++  .+.++.++++|+.|+|+++.++.- .+..+.++++|++|+|.++..-.+.    -..++|++|.+
T Consensus        53 ~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i-~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L~L  131 (635)
T 4g8a_A           53 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTI-EDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA  131 (635)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEE-CTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTCCEEEC
T ss_pred             CCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCc-ChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCCCEEEC
Confidence            4556666655554  223455556666666665544321 0112345556666666555421111    12245555555


Q ss_pred             ece-eee---eeecCCCCcceeEEEEEE
Q 042404          101 EGE-FKD---IHLESTPLLVSMSIAMYM  124 (311)
Q Consensus       101 ~~~-~~~---~~i~~~p~L~~l~l~~~~  124 (311)
                      .++ ...   ..+..+++|+.++++.+.
T Consensus       132 s~N~l~~l~~~~~~~L~~L~~L~Ls~N~  159 (635)
T 4g8a_A          132 VETNLASLENFPIGHLKTLKELNVAHNL  159 (635)
T ss_dssp             TTSCCCCSTTCCCTTCTTCCEEECCSSC
T ss_pred             CCCcCCCCChhhhhcCcccCeeccccCc
Confidence            553 111   224455566666555443

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.50  E-value=2.7e-08  Score=81.72  Aligned_cols=157  Identities=15%  Similarity=0.139  Sum_probs=96.4

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeC
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICA   92 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~   92 (311)
                      ...+|..+.  ++|+.|+|+++.+.  .+..+..+++|+.|+|+++.+..- .+..+.++++|+.|+|.++....     
T Consensus        23 l~~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~-~~~~~~~l~~L~~L~Ls~N~l~~-----   94 (220)
T 2v9t_B           23 LTEIPTNLP--ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISEL-APDAFQGLRSLNSLVLYGNKITE-----   94 (220)
T ss_dssp             CSSCCSSCC--TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEE-CTTTTTTCSSCCEEECCSSCCCC-----
T ss_pred             cCcCCCccC--cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCc-CHHHhhCCcCCCEEECCCCcCCc-----
Confidence            456777655  68999999998876  344677889999999999877642 12335678888888888764211     


Q ss_pred             CCceEEEeeceeeeeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCC
Q 042404           93 PELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRL  172 (311)
Q Consensus        93 ~~L~~L~i~~~~~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~  172 (311)
                                 .....+..+++|+.++++.+......           ...+..+++|+.|++..+.+..+..     ..
T Consensus        95 -----------l~~~~f~~l~~L~~L~L~~N~l~~~~-----------~~~~~~l~~L~~L~L~~N~l~~~~~-----~~  147 (220)
T 2v9t_B           95 -----------LPKSLFEGLFSLQLLLLNANKINCLR-----------VDAFQDLHNLNLLSLYDNKLQTIAK-----GT  147 (220)
T ss_dssp             -----------CCTTTTTTCTTCCEEECCSSCCCCCC-----------TTTTTTCTTCCEEECCSSCCSCCCT-----TT
T ss_pred             -----------cCHhHccCCCCCCEEECCCCCCCEeC-----------HHHcCCCCCCCEEECCCCcCCEECH-----HH
Confidence                       11111345677777777665543211           2235677888888888887654332     22


Q ss_pred             CccccccceEEEeeeecCCHHHHHHHHHHHhcCC
Q 042404          173 PITYNHLKVIELYQVSFEDMKEILVVIRLITNSP  206 (311)
Q Consensus       173 ~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p  206 (311)
                      ...+++|++|.+..-.+.-.-++.++...++..+
T Consensus       148 ~~~l~~L~~L~L~~N~~~c~c~l~~l~~~l~~~~  181 (220)
T 2v9t_B          148 FSPLRAIQTMHLAQNPFICDCHLKWLADYLHTNP  181 (220)
T ss_dssp             TTTCTTCCEEECCSSCEECSGGGHHHHHHHHHCC
T ss_pred             HhCCCCCCEEEeCCCCcCCCCccHHHHHHHHhCC
Confidence            2246778888874322211123446666665543

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.45  E-value=2.7e-08  Score=83.99  Aligned_cols=140  Identities=14%  Similarity=0.040  Sum_probs=101.3

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++.-+..  ..+| .+..+++|++|+|++|.+...+.+..+++|+.|+++++.+++-  +. +.. ++|+.|++.
T Consensus        42 ~L~~L~l~~n~i--~~l~-~l~~l~~L~~L~L~~N~i~~~~~l~~l~~L~~L~L~~N~l~~l--~~-~~~-~~L~~L~L~  114 (263)
T 1xeu_A           42 GVQNFNGDNSNI--QSLA-GMQFFTNLKELHLSHNQISDLSPLKDLTKLEELSVNRNRLKNL--NG-IPS-ACLSRLFLD  114 (263)
T ss_dssp             TCSEEECTTSCC--CCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSCCSCC--TT-CCC-SSCCEEECC
T ss_pred             cCcEEECcCCCc--ccch-HHhhCCCCCEEECCCCccCCChhhccCCCCCEEECCCCccCCc--Cc-ccc-CcccEEEcc
Confidence            567777655533  3566 6888999999999999887433488999999999999988652  22 223 899999999


Q ss_pred             cccceeE--EEeCCCceEEEeece-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEee
Q 042404           82 YFDSLDL--NICAPELKYLYLEGE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYI  157 (311)
Q Consensus        82 ~c~~~~~--~i~~~~L~~L~i~~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~  157 (311)
                      +|..-.+  ....++|+.|.+.++ ...+ .+..+++|+.++++.+...+             ...+..+++|+.|++.+
T Consensus       115 ~N~l~~~~~l~~l~~L~~L~Ls~N~i~~~~~l~~l~~L~~L~L~~N~i~~-------------~~~l~~l~~L~~L~l~~  181 (263)
T 1xeu_A          115 NNELRDTDSLIHLKNLEILSIRNNKLKSIVMLGFLSKLEVLDLHGNEITN-------------TGGLTRLKKVNWIDLTG  181 (263)
T ss_dssp             SSCCSBSGGGTTCTTCCEEECTTSCCCBCGGGGGCTTCCEEECTTSCCCB-------------CTTSTTCCCCCEEEEEE
T ss_pred             CCccCCChhhcCcccccEEECCCCcCCCChHHccCCCCCEEECCCCcCcc-------------hHHhccCCCCCEEeCCC
Confidence            9864331  113478999999885 3332 35578999999887765432             13467889999999998


Q ss_pred             eEEE
Q 042404          158 YFTK  161 (311)
Q Consensus       158 ~~~~  161 (311)
                      +.+.
T Consensus       182 N~~~  185 (263)
T 1xeu_A          182 QKCV  185 (263)
T ss_dssp             EEEE
T ss_pred             Cccc
Confidence            8764

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.43  E-value=4.8e-08  Score=80.69  Aligned_cols=154  Identities=14%  Similarity=0.110  Sum_probs=92.7

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeC
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICA   92 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~   92 (311)
                      ...+|..+.  ++|++|+|++|.+.  .+..+.++++|+.|+|+++.+..- ....+.++++|+.|+|.++....     
T Consensus        31 l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i-~~~~~~~l~~L~~L~Ls~N~l~~-----  102 (229)
T 3e6j_A           31 HASVPAGIP--TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGAL-PVGVFDSLTQLTVLDLGTNQLTV-----  102 (229)
T ss_dssp             CSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC-CTTTTTTCTTCCEEECCSSCCCC-----
T ss_pred             cCccCCCCC--CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCc-ChhhcccCCCcCEEECCCCcCCc-----
Confidence            356776554  78999999988875  345577888999999998877542 12335677888888888764211     


Q ss_pred             CCceEEEeeceeeeeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCC
Q 042404           93 PELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRL  172 (311)
Q Consensus        93 ~~L~~L~i~~~~~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~  172 (311)
                                 .....+..+++|+.++++.+.....            ...+..+++|+.|+++.+.+..+..     ..
T Consensus       103 -----------l~~~~~~~l~~L~~L~Ls~N~l~~l------------p~~~~~l~~L~~L~L~~N~l~~~~~-----~~  154 (229)
T 3e6j_A          103 -----------LPSAVFDRLVHLKELFMCCNKLTEL------------PRGIERLTHLTHLALDQNQLKSIPH-----GA  154 (229)
T ss_dssp             -----------CCTTTTTTCTTCCEEECCSSCCCSC------------CTTGGGCTTCSEEECCSSCCCCCCT-----TT
T ss_pred             -----------cChhHhCcchhhCeEeccCCccccc------------CcccccCCCCCEEECCCCcCCccCH-----HH
Confidence                       0111133566777777665543321            1224677888888888886654322     22


Q ss_pred             CccccccceEEEeeeecC-CHHHHHHHHHHHhc
Q 042404          173 PITYNHLKVIELYQVSFE-DMKEILVVIRLITN  204 (311)
Q Consensus       173 ~~~f~~L~~L~l~~~~~~-~~~~~~~l~~~l~~  204 (311)
                      ...+++|+.|.+.+..+. +..++..+..++..
T Consensus       155 ~~~l~~L~~L~l~~N~~~c~c~~~~~l~~~~~~  187 (229)
T 3e6j_A          155 FDRLSSLTHAYLFGNPWDCECRDIMYLRNWVAD  187 (229)
T ss_dssp             TTTCTTCCEEECTTSCBCTTBGGGHHHHHHHHH
T ss_pred             HhCCCCCCEEEeeCCCccCCcchhHHHHHHHHh
Confidence            235778888888432221 11234455555543

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.40  E-value=2.4e-08  Score=88.22  Aligned_cols=185  Identities=13%  Similarity=0.107  Sum_probs=102.8

Q ss_pred             CCCcEEEccceeeC-C---------CCCCCCCCcccEEEeeeeeeC--------hHHHHHHHhcCcccccccccccccee
Q 042404           26 RKLTRLELFRCEFD-P---------PLTFTGFPCLRSLNLHQVLVA--------PEAIESLISSCPLLESLSLSYFDSLD   87 (311)
Q Consensus        26 ~~L~~L~L~~~~l~-~---------~~~~~~l~~L~~L~L~~~~~~--------~~~l~~ll~~cp~Le~L~l~~c~~~~   87 (311)
                      ..++.|.++.+.+. .         ..+...|++|+.|.+..+...        ..++..++..+|+|++|.|.+|.+..
T Consensus       107 ~~v~~L~lg~~~~~~~~~~~~~~~L~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l~  186 (362)
T 2ra8_A          107 PSLKQITIGXWGYEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLS  186 (362)
T ss_dssp             GGCSEEEECCCCSSSCCSHHHHHHHHTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTCB
T ss_pred             hhcceEEEcccccCCCcHHHHHHHHHHhhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCce
Confidence            35677777766533 1         111335788888888654322        12477888999999999998885444


Q ss_pred             -EEEeCCCceEEEeecee-e-----eeeecCCCCcceeEEEEEEccccchhhcccccchHHHHh--cCCCcceEEEEeee
Q 042404           88 -LNICAPELKYLYLEGEF-K-----DIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKIL--GGVPHLEKLVGYIY  158 (311)
Q Consensus        88 -~~i~~~~L~~L~i~~~~-~-----~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l--~~l~~l~~L~l~~~  158 (311)
                       -.+..++|++|.+..+- .     .+....+|+|+++.++..... +..   ......+...+  ..+|+|+.|.+..+
T Consensus       187 l~~~~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~-~~~---~~~~~~l~~~l~~~~~p~Lr~L~L~~~  262 (362)
T 2ra8_A          187 IGKKPRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVED-YGF---DGDMNVFRPLFSKDRFPNLKWLGIVDA  262 (362)
T ss_dssp             CCSCBCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGG-GTC---CSCGGGTGGGSCTTTCTTCCEEEEESC
T ss_pred             eccccCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccc-ccc---chhHHHHHHHHhcCCCCCcCEEeCCCC
Confidence             22346889999887642 1     112236788888887642211 000   00001112222  24678888888654


Q ss_pred             EEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          159 FTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       159 ~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      .+........ ...+ .+++|++|.+ ..+.-...+...+...++++|+|+.|++..+.
T Consensus       263 ~i~~~~~~~l-a~a~-~~~~L~~LdL-s~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~  318 (362)
T 2ra8_A          263 EEQNVVVEMF-LESD-ILPQLETMDI-SAGVLTDEGARLLLDHVDKIKHLKFINMKYNY  318 (362)
T ss_dssp             TTHHHHHHHH-HHCS-SGGGCSEEEC-CSSCCBHHHHHHHHTTHHHHTTCSEEECCSBB
T ss_pred             CCchHHHHHH-HhCc-cCCCCCEEEC-CCCCCChHHHHHHHhhcccCCcceEEECCCCc
Confidence            3211000000 0011 3677888888 33333333444555555677888888886553

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=98.38  E-value=4.7e-08  Score=91.45  Aligned_cols=112  Identities=15%  Similarity=0.087  Sum_probs=69.0

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      +++.|+|.-...  ..+|..++  ++|++|+|++|.+...+  ..+++|+.|+|+++.++.  ++. +..  +|+.|++.
T Consensus        60 ~L~~L~Ls~n~L--~~lp~~l~--~~L~~L~Ls~N~l~~ip--~~l~~L~~L~Ls~N~l~~--ip~-l~~--~L~~L~Ls  128 (571)
T 3cvr_A           60 QFSELQLNRLNL--SSLPDNLP--PQITVLEITQNALISLP--ELPASLEYLDACDNRLST--LPE-LPA--SLKHLDVD  128 (571)
T ss_dssp             TCSEEECCSSCC--SCCCSCCC--TTCSEEECCSSCCSCCC--CCCTTCCEEECCSSCCSC--CCC-CCT--TCCEEECC
T ss_pred             CccEEEeCCCCC--CccCHhHc--CCCCEEECcCCCCcccc--cccCCCCEEEccCCCCCC--cch-hhc--CCCEEECC
Confidence            567777655433  34777664  67888888888776333  457888888888887654  332 222  77888877


Q ss_pred             cccceeEEEeCCCceEEEeece-eeeeeecCCCCcceeEEEEEEc
Q 042404           82 YFDSLDLNICAPELKYLYLEGE-FKDIHLESTPLLVSMSIAMYMT  125 (311)
Q Consensus        82 ~c~~~~~~i~~~~L~~L~i~~~-~~~~~i~~~p~L~~l~l~~~~~  125 (311)
                      ++....+....++|+.|.+.++ ...+.- ..++|+.++++.+..
T Consensus       129 ~N~l~~lp~~l~~L~~L~Ls~N~l~~lp~-~l~~L~~L~Ls~N~L  172 (571)
T 3cvr_A          129 NNQLTMLPELPALLEYINADNNQLTMLPE-LPTSLEVLSVRNNQL  172 (571)
T ss_dssp             SSCCSCCCCCCTTCCEEECCSSCCSCCCC-CCTTCCEEECCSSCC
T ss_pred             CCcCCCCCCcCccccEEeCCCCccCcCCC-cCCCcCEEECCCCCC
Confidence            7654331114567777777764 222222 456677777665543

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=98.38  E-value=1.7e-07  Score=88.60  Aligned_cols=60  Identities=12%  Similarity=0.127  Sum_probs=36.3

Q ss_pred             cCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCC
Q 042404          145 GGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNT  219 (311)
Q Consensus       145 ~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~  219 (311)
                      ..+++|+.|+++.+.+..         ++..+++|+.|.+..   +...   .++..+.++|+|+.|++..++..
T Consensus       238 ~~l~~L~~L~Ls~N~L~~---------lp~~~~~L~~L~Ls~---N~L~---~lp~~l~~l~~L~~L~L~~N~l~  297 (622)
T 3g06_A          238 VLPSELKELMVSGNRLTS---------LPMLPSGLLSLSVYR---NQLT---RLPESLIHLSSETTVNLEGNPLS  297 (622)
T ss_dssp             CCCTTCCEEECCSSCCSC---------CCCCCTTCCEEECCS---SCCC---SCCGGGGGSCTTCEEECCSCCCC
T ss_pred             CCCCcCcEEECCCCCCCc---------CCcccccCcEEeCCC---CCCC---cCCHHHhhccccCEEEecCCCCC
Confidence            345677777777664431         222467788888732   2211   33445778888888888877653

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=98.35  E-value=7.2e-08  Score=91.15  Aligned_cols=194  Identities=16%  Similarity=0.137  Sum_probs=120.5

Q ss_pred             CceEEEEEeCCCeeeecCC-CcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPS-CLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~-~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|.....  ..+|+ ++.++++|++|+|++|.+.  ++.++.++++|++|+|+++.++.- ....+.++++|++|
T Consensus        53 ~~~~LdLs~N~i--~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l-~~~~f~~L~~L~~L  129 (635)
T 4g8a_A           53 STKNLDLSFNPL--RHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSL-ALGAFSGLSSLQKL  129 (635)
T ss_dssp             TCCEEECTTSCC--CEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEE-CGGGGTTCTTCCEE
T ss_pred             CCCEEEeeCCCC--CCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCC-CHHHhcCCCCCCEE
Confidence            577888766544  46664 6778999999999999886  455688999999999999987642 12346789999999


Q ss_pred             cccccccee---E-EEeCCCceEEEeece-eeee----eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCC-
Q 042404           79 SLSYFDSLD---L-NICAPELKYLYLEGE-FKDI----HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVP-  148 (311)
Q Consensus        79 ~l~~c~~~~---~-~i~~~~L~~L~i~~~-~~~~----~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~-  148 (311)
                      ++.+|....   . .-..++|++|.+.++ ...+    .+..+++|+.++++.+...+...       ..+.. +..++ 
T Consensus       130 ~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-------~~l~~-L~~l~~  201 (635)
T 4g8a_A          130 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYC-------TDLRV-LHQMPL  201 (635)
T ss_dssp             ECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECG-------GGGHH-HHTCTT
T ss_pred             ECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCcccccccc-------ccccc-hhhhhh
Confidence            999986433   1 223578999999985 2222    24578999999987765432210       11122 23333 


Q ss_pred             cceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEec
Q 042404          149 HLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGS  216 (311)
Q Consensus       149 ~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~  216 (311)
                      ....+.+..+.+..+..+.     . ....+..|.+ ..+...   .......+...+.++...+...
T Consensus       202 ~~~~~~ls~n~l~~i~~~~-----~-~~~~~~~l~l-~~n~~~---~~~~~~~~~~l~~l~~~~l~~~  259 (635)
T 4g8a_A          202 LNLSLDLSLNPMNFIQPGA-----F-KEIRLHKLTL-RNNFDS---LNVMKTCIQGLAGLEVHRLVLG  259 (635)
T ss_dssp             CCCEEECTTCCCCEECTTT-----T-TTCEEEEEEE-ESCCSS---HHHHHHHHHTTTTCEEEEEEEE
T ss_pred             hhhhhhcccCcccccCccc-----c-cchhhhhhhh-hccccc---ccccchhhcCCccccccccccc
Confidence            2345666555544332211     1 1223444444 212222   2344566777777776666543

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.33  E-value=1.1e-07  Score=77.02  Aligned_cols=156  Identities=15%  Similarity=0.101  Sum_probs=92.5

Q ss_pred             eeecCCCcccCCCCcEEEccceeeCC--CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeC
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFDP--PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICA   92 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~~--~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~   92 (311)
                      ...+|..+  .++|++|+|+++.+..  +..+.++++|+.|++.++.+..- ....+..+++|++|++.++....     
T Consensus        19 l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~Ls~n~l~~-----   90 (208)
T 2o6s_A           19 RTSVPTGI--PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSL-PNGVFNKLTSLTYLNLSTNQLQS-----   90 (208)
T ss_dssp             CSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCC-CTTTTTTCTTCCEEECCSSCCCC-----
T ss_pred             ccCCCCCC--CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCcc-ChhhcCCCCCcCEEECCCCcCCc-----
Confidence            34666655  3589999999998763  33467899999999999887642 22335678888888888764211     


Q ss_pred             CCceEEEeeceeeeeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCC
Q 042404           93 PELKYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRL  172 (311)
Q Consensus        93 ~~L~~L~i~~~~~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~  172 (311)
                                 .....+..+++|+.++++.+...+..           ...+..+++|+.|++..+.+..     .+...
T Consensus        91 -----------~~~~~~~~l~~L~~L~L~~N~l~~~~-----------~~~~~~l~~L~~L~l~~N~l~~-----~~~~~  143 (208)
T 2o6s_A           91 -----------LPNGVFDKLTQLKELALNTNQLQSLP-----------DGVFDKLTQLKDLRLYQNQLKS-----VPDGV  143 (208)
T ss_dssp             -----------CCTTTTTTCTTCCEEECCSSCCCCCC-----------TTTTTTCTTCCEEECCSSCCSC-----CCTTT
T ss_pred             -----------cCHhHhcCccCCCEEEcCCCcCcccC-----------HhHhccCCcCCEEECCCCccce-----eCHHH
Confidence                       01111235566666666554332110           2224667778888887765542     22222


Q ss_pred             CccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          173 PITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       173 ~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      ...+++|++|.+..   +..         ...||.|+.|.+..+.
T Consensus       144 ~~~l~~L~~L~l~~---N~~---------~~~~~~l~~L~~~~n~  176 (208)
T 2o6s_A          144 FDRLTSLQYIWLHD---NPW---------DCTCPGIRYLSEWINK  176 (208)
T ss_dssp             TTTCTTCCEEECCS---CCB---------CCCTTTTHHHHHHHHH
T ss_pred             hccCCCccEEEecC---CCe---------ecCCCCHHHHHHHHHh
Confidence            22467777777732   221         1346666666665544

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=98.33  E-value=8.3e-08  Score=84.47  Aligned_cols=181  Identities=17%  Similarity=0.126  Sum_probs=102.4

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC-CC-CCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee-E---
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD-PP-LTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD-L---   88 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~-~~-~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~-~---   88 (311)
                      ...+|..+.  +++++|+|++|.+. .| .++.++++|++|+|+++.+...--...+.++++|.++.+..+..+. +   
T Consensus        21 Lt~iP~~l~--~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~   98 (350)
T 4ay9_X           21 VTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPE   98 (350)
T ss_dssp             CCSCCTTCC--TTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTT
T ss_pred             CCccCcCcC--CCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccCch
Confidence            457787763  68999999999886 33 4578999999999999875332111235677887776665554433 2   


Q ss_pred             -EEeCCCceEEEeece-eee---eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCC-CcceEEEEeeeEEEE
Q 042404           89 -NICAPELKYLYLEGE-FKD---IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGV-PHLEKLVGYIYFTKY  162 (311)
Q Consensus        89 -~i~~~~L~~L~i~~~-~~~---~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~l~~L~l~~~~~~~  162 (311)
                       .-..++|++|.+.++ ...   .......++..+.+.........         . ...+..+ ..++.|++..+.++.
T Consensus        99 ~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l---------~-~~~f~~~~~~l~~L~L~~N~i~~  168 (350)
T 4ay9_X           99 AFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTI---------E-RNSFVGLSFESVILWLNKNGIQE  168 (350)
T ss_dssp             SBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEE---------C-TTSSTTSBSSCEEEECCSSCCCE
T ss_pred             hhhhccccccccccccccccCCchhhcccchhhhhhhccccccccc---------c-ccchhhcchhhhhhccccccccC
Confidence             224578888888875 222   12223444445544332211100         0 1112333 457888888877665


Q ss_pred             eecCCCCCCCCccccccceEEEeeeecCCHHHHHHHH-HHHhcCCCcceEEEEeccC
Q 042404          163 LSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVI-RLITNSPNLKELHISGSSN  218 (311)
Q Consensus       163 l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~-~~l~~~p~L~~L~i~~~~~  218 (311)
                      +..+     .. ...++++|.+...  +.   +..++ ..++.+++|+.|+++.+..
T Consensus       169 i~~~-----~f-~~~~L~~l~l~~~--n~---l~~i~~~~f~~l~~L~~LdLs~N~l  214 (350)
T 4ay9_X          169 IHNS-----AF-NGTQLDELNLSDN--NN---LEELPNDVFHGASGPVILDISRTRI  214 (350)
T ss_dssp             ECTT-----SS-TTEEEEEEECTTC--TT---CCCCCTTTTTTEECCSEEECTTSCC
T ss_pred             CChh-----hc-cccchhHHhhccC--Cc---ccCCCHHHhccCcccchhhcCCCCc
Confidence            4321     11 2345666655211  11   11222 3467788888888886654

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.31  E-value=1.6e-07  Score=77.01  Aligned_cols=132  Identities=15%  Similarity=0.107  Sum_probs=87.8

Q ss_pred             eecCCCcccCCCCcEEEccceeeCC--C-CCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE----
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFDP--P-LTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL----   88 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~~--~-~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~----   88 (311)
                      ..+|..+.  ..+++|+|++|.+..  + ..+..+++|+.|+|+++.++.- ....+.++++|+.|++.++....+    
T Consensus        24 ~~iP~~~~--~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i-~~~~~~~l~~L~~L~Ls~N~l~~~~~~~  100 (220)
T 2v70_A           24 NKIPEHIP--QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDI-EEGAFEGASGVNEILLTSNRLENVQHKM  100 (220)
T ss_dssp             SSCCSCCC--TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEE-CTTTTTTCTTCCEEECCSSCCCCCCGGG
T ss_pred             ccCccCCC--CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEE-CHHHhCCCCCCCEEECCCCccCccCHhH
Confidence            45666553  356788888887752  2 2356788888888888876542 122356788888888888764331    


Q ss_pred             EEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEE
Q 042404           89 NICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTK  161 (311)
Q Consensus        89 ~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~  161 (311)
                      ....++|++|.+.++ ...+   .+..+++|+.++++.+...+..           ...+..+++|+.|++..+.+.
T Consensus       101 ~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~-----------~~~~~~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A          101 FKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVA-----------PGAFDTLHSLSTLNLLANPFN  166 (220)
T ss_dssp             GTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBC-----------TTTTTTCTTCCEEECCSCCEE
T ss_pred             hcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEEC-----------HHHhcCCCCCCEEEecCcCCc
Confidence            123468888888875 2222   3557888999988776543221           234678899999999988754

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.29  E-value=4e-08  Score=76.93  Aligned_cols=128  Identities=20%  Similarity=0.132  Sum_probs=84.2

Q ss_pred             CCCCcEEEccceeeC---CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCCceEEEee
Q 042404           25 CRKLTRLELFRCEFD---PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLE  101 (311)
Q Consensus        25 ~~~L~~L~L~~~~l~---~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~L~~L~i~  101 (311)
                      .++|++|+|++|.+.   .|..+..+++|+.|+++++.+..-   ..+..+++|+.|++.+|.....             
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~---~~~~~l~~L~~L~Ls~N~l~~~-------------   86 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV---SNLPKLPKLKKLELSENRIFGG-------------   86 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC---SSCCCCSSCCEEEEESCCCCSC-------------
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh---hhhccCCCCCEEECcCCcCchH-------------
Confidence            478999999998875   455567889999999999887653   3456778888888877652110             


Q ss_pred             ceeeeeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCC---CCCccccc
Q 042404          102 GEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPG---RLPITYNH  178 (311)
Q Consensus       102 ~~~~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~---~~~~~f~~  178 (311)
                         ....+..+++|+.++++.+...+.          .....+..+++|+.|++..+.+..     .+.   .....+++
T Consensus        87 ---~~~~~~~l~~L~~L~Ls~N~l~~~----------~~~~~l~~l~~L~~L~l~~N~l~~-----~~~~~~~~~~~l~~  148 (168)
T 2ell_A           87 ---LDMLAEKLPNLTHLNLSGNKLKDI----------STLEPLKKLECLKSLDLFNCEVTN-----LNDYRESVFKLLPQ  148 (168)
T ss_dssp             ---CCHHHHHCTTCCEEECBSSSCCSS----------GGGGGGSSCSCCCEEECCSSGGGT-----STTHHHHHHTTCSS
T ss_pred             ---HHHHHhhCCCCCEEeccCCccCcc----------hhHHHHhcCCCCCEEEeeCCcCcc-----hHHHHHHHHHhCcc
Confidence               001122477788887776654321          012446889999999999886432     222   12235788


Q ss_pred             cceEEEee
Q 042404          179 LKVIELYQ  186 (311)
Q Consensus       179 L~~L~l~~  186 (311)
                      |++|.+..
T Consensus       149 L~~L~l~~  156 (168)
T 2ell_A          149 LTYLDGYD  156 (168)
T ss_dssp             CCEETTEE
T ss_pred             CcEecCCC
Confidence            99888843

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.29  E-value=1.3e-07  Score=77.51  Aligned_cols=81  Identities=26%  Similarity=0.266  Sum_probs=62.2

Q ss_pred             CceEEEEEeCCCeeeecCC-CcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPS-CLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~-~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|.-...  ..+|. .+..+++|++|+|++|.+.  .|..+.++++|+.|+|+++.+..- ....+.++++|+.|
T Consensus        33 ~l~~L~l~~n~i--~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l-~~~~f~~l~~L~~L  109 (220)
T 2v9t_B           33 TITEIRLEQNTI--KVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITEL-PKSLFEGLFSLQLL  109 (220)
T ss_dssp             TCCEEECCSSCC--CEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCCCC-CTTTTTTCTTCCEE
T ss_pred             CCCEEECCCCcC--CCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCCcc-CHhHccCCCCCCEE
Confidence            567777765543  35555 5777899999999999886  466788999999999999988642 22345678999999


Q ss_pred             ccccccc
Q 042404           79 SLSYFDS   85 (311)
Q Consensus        79 ~l~~c~~   85 (311)
                      +|.++..
T Consensus       110 ~L~~N~l  116 (220)
T 2v9t_B          110 LLNANKI  116 (220)
T ss_dssp             ECCSSCC
T ss_pred             ECCCCCC
Confidence            9998753

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.28  E-value=1.3e-07  Score=83.52  Aligned_cols=137  Identities=19%  Similarity=0.080  Sum_probs=84.8

Q ss_pred             eecCCCcccCCCCcEEEccceeeC--CCCCCC-CCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEE---
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFD--PPLTFT-GFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLN---   89 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~-~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~---   89 (311)
                      ..+|..+.  +.++.|+|++|.+.  .+..+. ++++|+.|+|+++.+..- ....+.++++|+.|+|+++....+.   
T Consensus        31 ~~iP~~~~--~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i-~~~~~~~l~~L~~L~Ls~N~l~~~~~~~  107 (361)
T 2xot_A           31 PNVPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFI-SSEAFVPVPNLRYLDLSSNHLHTLDEFL  107 (361)
T ss_dssp             SSCCSSCC--TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEE-CTTTTTTCTTCCEEECCSSCCCEECTTT
T ss_pred             CccCccCC--CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCcc-ChhhccCCCCCCEEECCCCcCCcCCHHH
Confidence            45666554  35788888888775  233354 788888888888876542 1123567888888888887643221   


Q ss_pred             -EeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEe
Q 042404           90 -ICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYL  163 (311)
Q Consensus        90 -i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l  163 (311)
                       ...++|+.|.+.++ ...+   .+..+++|+.++++.+........        ...-+..+++|+.|++..+.+..+
T Consensus       108 ~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~--------~~~~~~~l~~L~~L~L~~N~l~~l  178 (361)
T 2xot_A          108 FSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVE--------LIKDGNKLPKLMLLDLSSNKLKKL  178 (361)
T ss_dssp             TTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGG--------GTC----CTTCCEEECCSSCCCCC
T ss_pred             hCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHH--------HhcCcccCCcCCEEECCCCCCCcc
Confidence             13467888888875 2222   355788888888877654432110        011115678888888888776543

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=98.26  E-value=1.5e-07  Score=85.86  Aligned_cols=116  Identities=12%  Similarity=0.114  Sum_probs=67.9

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++..+..  ..+| .+..+++|++|++++|.+...+.  ..++|+.|+++++.+.+  ++. +.++++|+.|++.
T Consensus       132 ~L~~L~L~~n~l--~~lp-~~~~l~~L~~L~l~~N~l~~lp~--~~~~L~~L~L~~n~l~~--l~~-~~~l~~L~~L~l~  203 (454)
T 1jl5_A          132 LLEYLGVSNNQL--EKLP-ELQNSSFLKIIDVDNNSLKKLPD--LPPSLEFIAAGNNQLEE--LPE-LQNLPFLTAIYAD  203 (454)
T ss_dssp             TCCEEECCSSCC--SSCC-CCTTCTTCCEEECCSSCCSCCCC--CCTTCCEEECCSSCCSS--CCC-CTTCTTCCEEECC
T ss_pred             CCCEEECcCCCC--CCCc-ccCCCCCCCEEECCCCcCcccCC--CcccccEEECcCCcCCc--Ccc-ccCCCCCCEEECC
Confidence            345555444332  2355 46667777777777766543221  23467777777776654  222 5677888888887


Q ss_pred             cccceeEEEeCCCceEEEeecee-eee-eecCCCCcceeEEEEEEc
Q 042404           82 YFDSLDLNICAPELKYLYLEGEF-KDI-HLESTPLLVSMSIAMYMT  125 (311)
Q Consensus        82 ~c~~~~~~i~~~~L~~L~i~~~~-~~~-~i~~~p~L~~l~l~~~~~  125 (311)
                      +|...++....++|++|.+.++. ..+ .+..+++|+.++++.+..
T Consensus       204 ~N~l~~l~~~~~~L~~L~l~~n~l~~lp~~~~l~~L~~L~l~~N~l  249 (454)
T 1jl5_A          204 NNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLL  249 (454)
T ss_dssp             SSCCSSCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCC
T ss_pred             CCcCCcCCCCcCcccEEECcCCcCCcccccCCCCCCCEEECCCCcC
Confidence            77543322223578888887752 222 355777888888766543

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.26  E-value=3.6e-07  Score=71.62  Aligned_cols=71  Identities=8%  Similarity=0.111  Sum_probs=54.0

Q ss_pred             eecCCCcccCCCCcEEEccceeeCC--CCCCCCCCcccEEEeeeee-eChHHHHHHHhc---Cccccccccccccce
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFDP--PLTFTGFPCLRSLNLHQVL-VAPEAIESLISS---CPLLESLSLSYFDSL   86 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~~--~~~~~~l~~L~~L~L~~~~-~~~~~l~~ll~~---cp~Le~L~l~~c~~~   86 (311)
                      ..+|..-...-.|+.|+|++|.+++  ...+.++++|++|+|++|. +++..+..+-..   |++|++|+|++|..+
T Consensus        51 ~~LP~~~~~~~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~I  127 (176)
T 3e4g_A           51 NHLPTGPLDKYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNV  127 (176)
T ss_dssp             GGSCCCSTTCCCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTC
T ss_pred             ccCCcccCCCceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcC
Confidence            4577654445689999999988753  2235688999999999996 888888886653   788999999998754

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.25  E-value=1.8e-07  Score=76.70  Aligned_cols=158  Identities=13%  Similarity=0.130  Sum_probs=103.8

Q ss_pred             CcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEE----EeCCCceEEEeec
Q 042404           28 LTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLN----ICAPELKYLYLEG  102 (311)
Q Consensus        28 L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~----i~~~~L~~L~i~~  102 (311)
                      .+.++++++.+. .|..+  .+.++.|+|+++.+..-.....+..+++|+.|++.++....+.    -..++|++|.+.+
T Consensus        13 ~~~l~~s~n~l~~iP~~~--~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   90 (220)
T 2v70_A           13 GTTVDCSNQKLNKIPEHI--PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTS   90 (220)
T ss_dssp             TTEEECCSSCCSSCCSCC--CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CCEeEeCCCCcccCccCC--CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCC
Confidence            468899988876 34333  4567999999998765322234678999999999988643321    1346899999998


Q ss_pred             e-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccc
Q 042404          103 E-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNH  178 (311)
Q Consensus       103 ~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~  178 (311)
                      + ...+   .+..+++|+.++++.+...+..           ...+..+++|+.|++..+.+..+.    +..+. .+++
T Consensus        91 N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~-----------~~~~~~l~~L~~L~L~~N~l~~~~----~~~~~-~l~~  154 (220)
T 2v70_A           91 NRLENVQHKMFKGLESLKTLMLRSNRITCVG-----------NDSFIGLSSVRLLSLYDNQITTVA----PGAFD-TLHS  154 (220)
T ss_dssp             SCCCCCCGGGGTTCSSCCEEECTTSCCCCBC-----------TTSSTTCTTCSEEECTTSCCCCBC----TTTTT-TCTT
T ss_pred             CccCccCHhHhcCCcCCCEEECCCCcCCeEC-----------HhHcCCCccCCEEECCCCcCCEEC----HHHhc-CCCC
Confidence            5 3322   2567899999998776644321           233578899999999988776532    22232 5788


Q ss_pred             cceEEEeeeecCCHHHHHHHHHHHh
Q 042404          179 LKVIELYQVSFEDMKEILVVIRLIT  203 (311)
Q Consensus       179 L~~L~l~~~~~~~~~~~~~l~~~l~  203 (311)
                      |++|.+..-.+...-++.++...++
T Consensus       155 L~~L~L~~N~l~c~c~l~~l~~~~~  179 (220)
T 2v70_A          155 LSTLNLLANPFNCNCYLAWLGEWLR  179 (220)
T ss_dssp             CCEEECCSCCEECSGGGHHHHHHHH
T ss_pred             CCEEEecCcCCcCCCchHHHHHHHH
Confidence            9999884332222223445555555

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.20  E-value=4.7e-07  Score=74.64  Aligned_cols=81  Identities=16%  Similarity=0.095  Sum_probs=61.1

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCC-C-CCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDP-P-LTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLS   79 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~-~-~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~   79 (311)
                      ++++|+|...... ...|..+..+++|++|+|++|.+.. + ..+.++++|+.|+|+++.+..- ....+..+++|+.|+
T Consensus        41 ~L~~L~Ls~n~i~-~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l-~~~~~~~l~~L~~L~  118 (229)
T 3e6j_A           41 NAQILYLHDNQIT-KLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVL-PSAVFDRLVHLKELF  118 (229)
T ss_dssp             TCSEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC-CTTTTTTCTTCCEEE
T ss_pred             CCCEEEcCCCccC-ccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCcc-ChhHhCcchhhCeEe
Confidence            5778887666442 2336667889999999999999863 3 3467899999999999988642 223456789999999


Q ss_pred             ccccc
Q 042404           80 LSYFD   84 (311)
Q Consensus        80 l~~c~   84 (311)
                      +.++.
T Consensus       119 Ls~N~  123 (229)
T 3e6j_A          119 MCCNK  123 (229)
T ss_dssp             CCSSC
T ss_pred             ccCCc
Confidence            98875

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.19  E-value=8.3e-08  Score=73.48  Aligned_cols=58  Identities=17%  Similarity=0.011  Sum_probs=47.6

Q ss_pred             CCCCcEEEccceeeC---CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccc
Q 042404           25 CRKLTRLELFRCEFD---PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDS   85 (311)
Q Consensus        25 ~~~L~~L~L~~~~l~---~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~   85 (311)
                      .++|+.|++++|.+.   .|..+..+++|+.|+++++.+.+-   ..+..+++|+.|++.+|..
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~---~~~~~l~~L~~L~Ls~n~i   76 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI---ANLPKLNKLKKLELSDNRV   76 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC---TTCCCCTTCCEEECCSSCC
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc---hhhhcCCCCCEEECCCCcc
Confidence            478999999999886   455668899999999999987664   4467889999999988763

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.17  E-value=3.2e-07  Score=74.35  Aligned_cols=80  Identities=21%  Similarity=0.183  Sum_probs=59.6

Q ss_pred             CceEEEEEeCCCeeeecCCC-cccCCCCcEEEccceeeCC-C-CCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPSC-LFNCRKLTRLELFRCEFDP-P-LTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~-~~~~~~L~~L~L~~~~l~~-~-~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|++.....  ..+|.. +..+++|++|+|+++.+.. + ..+..+++|++|+++++.+..- ....+..+++|+.|
T Consensus        29 ~l~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~l~~L~~L  105 (208)
T 2o6s_A           29 QTTYLDLETNSL--KSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSL-PNGVFDKLTQLKEL  105 (208)
T ss_dssp             TCSEEECCSSCC--CCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC-CTTTTTTCTTCCEE
T ss_pred             CCcEEEcCCCcc--CcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCcc-CHhHhcCccCCCEE
Confidence            567777765543  356655 5689999999999998863 3 3367899999999999987642 22335678999999


Q ss_pred             cccccc
Q 042404           79 SLSYFD   84 (311)
Q Consensus        79 ~l~~c~   84 (311)
                      ++.++.
T Consensus       106 ~L~~N~  111 (208)
T 2o6s_A          106 ALNTNQ  111 (208)
T ss_dssp             ECCSSC
T ss_pred             EcCCCc
Confidence            998775

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=98.16  E-value=1.4e-06  Score=79.45  Aligned_cols=190  Identities=17%  Similarity=0.117  Sum_probs=106.1

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|++..+..  ..+| .+..+++|++|++++|.+...+..  .++|+.|+++++.+..  ++. +..+++|+.|++.
T Consensus       174 ~L~~L~L~~n~l--~~l~-~~~~l~~L~~L~l~~N~l~~l~~~--~~~L~~L~l~~n~l~~--lp~-~~~l~~L~~L~l~  245 (454)
T 1jl5_A          174 SLEFIAAGNNQL--EELP-ELQNLPFLTAIYADNNSLKKLPDL--PLSLESIVAGNNILEE--LPE-LQNLPFLTTIYAD  245 (454)
T ss_dssp             TCCEEECCSSCC--SSCC-CCTTCTTCCEEECCSSCCSSCCCC--CTTCCEEECCSSCCSS--CCC-CTTCTTCCEEECC
T ss_pred             cccEEECcCCcC--CcCc-cccCCCCCCEEECCCCcCCcCCCC--cCcccEEECcCCcCCc--ccc-cCCCCCCCEEECC
Confidence            467788766543  3466 578889999999998887632222  3588888888887762  332 5678888888888


Q ss_pred             cccceeEEEeCCCceEEEeece-eeeeeecCCCCcceeEEEEEEccccch---hhc--ccccchHHHHhcCC-CcceEEE
Q 042404           82 YFDSLDLNICAPELKYLYLEGE-FKDIHLESTPLLVSMSIAMYMTDDIAE---HFE--QSSSCNFLKILGGV-PHLEKLV  154 (311)
Q Consensus        82 ~c~~~~~~i~~~~L~~L~i~~~-~~~~~i~~~p~L~~l~l~~~~~~~~~~---~~~--~~~~~~~~~~l~~l-~~l~~L~  154 (311)
                      ++....+....++|+.|.+.++ ...+.- ..++|+.++++.+...+...   ...  +-....+.. +..+ ++++.|+
T Consensus       246 ~N~l~~l~~~~~~L~~L~l~~N~l~~l~~-~~~~L~~L~ls~N~l~~l~~~~~~L~~L~l~~N~l~~-i~~~~~~L~~L~  323 (454)
T 1jl5_A          246 NNLLKTLPDLPPSLEALNVRDNYLTDLPE-LPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRS-LCDLPPSLEELN  323 (454)
T ss_dssp             SSCCSSCCSCCTTCCEEECCSSCCSCCCC-CCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSE-ECCCCTTCCEEE
T ss_pred             CCcCCcccccccccCEEECCCCcccccCc-ccCcCCEEECcCCccCcccCcCCcCCEEECcCCcCCc-ccCCcCcCCEEE
Confidence            8753322112367777777764 222221 34666777665544322100   000  000000011 1223 3566666


Q ss_pred             EeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCC
Q 042404          155 GYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNT  219 (311)
Q Consensus       155 l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~  219 (311)
                      ++.+.+.         .++..+++|+.|.+....+.      .++.   .+++|+.|++..+...
T Consensus       324 Ls~N~l~---------~lp~~~~~L~~L~L~~N~l~------~lp~---~l~~L~~L~L~~N~l~  370 (454)
T 1jl5_A          324 VSNNKLI---------ELPALPPRLERLIASFNHLA------EVPE---LPQNLKQLHVEYNPLR  370 (454)
T ss_dssp             CCSSCCS---------CCCCCCTTCCEEECCSSCCS------CCCC---CCTTCCEEECCSSCCS
T ss_pred             CCCCccc---------cccccCCcCCEEECCCCccc------cccc---hhhhccEEECCCCCCC
Confidence            6655332         12333678888888322111      2222   4688888888866543

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.13  E-value=1.9e-07  Score=75.21  Aligned_cols=61  Identities=28%  Similarity=0.329  Sum_probs=31.0

Q ss_pred             CcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccc
Q 042404           21 CLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYF   83 (311)
Q Consensus        21 ~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c   83 (311)
                      .+..+++|++|+|++|.+...+.+.++++|+.|+++++.+..  ++..+..+|+|+.|++.+|
T Consensus        43 ~~~~l~~L~~L~ls~n~l~~l~~~~~l~~L~~L~l~~n~l~~--l~~~~~~~~~L~~L~L~~N  103 (198)
T 1ds9_A           43 TLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKK--IENLDAVADTLEELWISYN  103 (198)
T ss_dssp             HHHHTTTCSEEECSEEEESCCCCHHHHTTCCEEEEEEEEECS--CSSHHHHHHHCSEEEEEEE
T ss_pred             HHhcCCCCCEEECCCCCCccccccccCCCCCEEECCCCCccc--ccchhhcCCcCCEEECcCC
Confidence            455555666666665555432244455556666666555542  2233334455555555543

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.11  E-value=5.1e-07  Score=79.72  Aligned_cols=146  Identities=20%  Similarity=0.127  Sum_probs=83.6

Q ss_pred             CceEEEEEeCCCeeeecCCCcc--cCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLF--NCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLES   77 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~--~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~   77 (311)
                      ++++|+|.....  ..+|...+  .+++|++|+|++|.+.  .+..+.++++|+.|+|+++.+..- ....+.++++|+.
T Consensus        40 ~l~~L~Ls~N~l--~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~  116 (361)
T 2xot_A           40 YTALLDLSHNNL--SRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTL-DEFLFSDLQALEV  116 (361)
T ss_dssp             TCSEEECCSSCC--CEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEE-CTTTTTTCTTCCE
T ss_pred             CCCEEECCCCCC--CccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCCcC-CHHHhCCCcCCCE
Confidence            355566554432  34554433  6778888888877765  334567778888888888776542 1223567788888


Q ss_pred             cccccccceeE----EEeCCCceEEEeece-eeeee---e---cCCCCcceeEEEEEEccccchhhcccccchHHHHhcC
Q 042404           78 LSLSYFDSLDL----NICAPELKYLYLEGE-FKDIH---L---ESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGG  146 (311)
Q Consensus        78 L~l~~c~~~~~----~i~~~~L~~L~i~~~-~~~~~---i---~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~  146 (311)
                      |+|.++....+    .-..++|+.|.+.++ ...+.   +   ..+++|+.++++.+......           ...+..
T Consensus       117 L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~-----------~~~~~~  185 (361)
T 2xot_A          117 LLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLP-----------LTDLQK  185 (361)
T ss_dssp             EECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSCCCCCC-----------HHHHHH
T ss_pred             EECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCCCCccC-----------HHHhhh
Confidence            88877754321    112367778877774 22221   1   34777777777665543211           122344


Q ss_pred             CCc--ceEEEEeeeEEE
Q 042404          147 VPH--LEKLVGYIYFTK  161 (311)
Q Consensus       147 l~~--l~~L~l~~~~~~  161 (311)
                      ++.  ++.|++..+.+.
T Consensus       186 l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          186 LPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             SCHHHHTTEECCSSCEE
T ss_pred             ccHhhcceEEecCCCcc
Confidence            444  366777665543

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.09  E-value=2.9e-07  Score=72.59  Aligned_cols=127  Identities=13%  Similarity=0.055  Sum_probs=66.1

Q ss_pred             ccCCCCcEEEccceeeCCCCCCCCCC-cccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE----EEeCCCceE
Q 042404           23 FNCRKLTRLELFRCEFDPPLTFTGFP-CLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL----NICAPELKY   97 (311)
Q Consensus        23 ~~~~~L~~L~L~~~~l~~~~~~~~l~-~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~----~i~~~~L~~   97 (311)
                      .++.+|+.|+|++|.+...+.+..+. +|+.|+++++.+++-   ..+..+++|+.|+++++....+    ....++|++
T Consensus        16 ~~~~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~---~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~   92 (176)
T 1a9n_A           16 TNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKL---DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTE   92 (176)
T ss_dssp             ECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEE---CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCE
T ss_pred             CCcCCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCcc---cccccCCCCCEEECCCCcccccCcchhhcCCCCCE
Confidence            44556666666665554322333333 566666666555432   2244556666666665543221    112355666


Q ss_pred             EEeece-eeee----eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEE
Q 042404           98 LYLEGE-FKDI----HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFT  160 (311)
Q Consensus        98 L~i~~~-~~~~----~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~  160 (311)
                      |.+.++ ...+    .+..+|+|+.++++.+......        ......+..+++|+.|++..+..
T Consensus        93 L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~--------~~~~~~~~~l~~L~~Ld~~~n~~  152 (176)
T 1a9n_A           93 LILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKK--------HYRLYVIYKVPQVRVLDFQKVKL  152 (176)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGST--------THHHHHHHHCTTCSEETTEECCH
T ss_pred             EECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcH--------hHHHHHHHHCCccceeCCCcCCH
Confidence            666553 1111    2446777888877665443210        01122456778888888876653

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.08  E-value=8.1e-07  Score=71.24  Aligned_cols=107  Identities=20%  Similarity=0.203  Sum_probs=72.0

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE----E
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL----N   89 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~----~   89 (311)
                      ...+|..+.  ++|++|+|+++.+. .|..+.++++|+.|+|+++.++.- ....+.++++|+.|+|+++....+    .
T Consensus        22 l~~ip~~~~--~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i-~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f   98 (193)
T 2wfh_A           22 LKVLPKGIP--RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTL-SNQSFSNMTQLLTLILSYNRLRCIPPRTF   98 (193)
T ss_dssp             CSSCCSCCC--TTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCC-CTTTTTTCTTCCEEECCSSCCCBCCTTTT
T ss_pred             CCcCCCCCC--CCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEe-CHhHccCCCCCCEEECCCCccCEeCHHHh
Confidence            346676554  57888888888775 445677788888888888877642 222356788888888888764331    1


Q ss_pred             EeCCCceEEEeece-eeee---eecCCCCcceeEEEEEE
Q 042404           90 ICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYM  124 (311)
Q Consensus        90 i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~  124 (311)
                      ...++|+.|.+.++ ...+   .+..+++|+.++++.+.
T Consensus        99 ~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           99 DGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANP  137 (193)
T ss_dssp             TTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCC
Confidence            13467888888875 2222   24568889998887654

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.04  E-value=3.3e-07  Score=72.30  Aligned_cols=57  Identities=18%  Similarity=0.135  Sum_probs=27.0

Q ss_pred             CCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           27 KLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        27 ~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      +|++|+|++|.+...+.+..+++|++|+++++.+..- ...++..+|+|+.|++.++.
T Consensus        43 ~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~L~~N~   99 (176)
T 1a9n_A           43 QFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRI-GEGLDQALPDLTELILTNNS   99 (176)
T ss_dssp             CCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEE-CSCHHHHCTTCCEEECCSCC
T ss_pred             CCCEEECCCCCCCcccccccCCCCCEEECCCCccccc-CcchhhcCCCCCEEECCCCc
Confidence            5555555555444223444555555555555544321 11123445555555555543

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.03  E-value=5.4e-08  Score=86.39  Aligned_cols=99  Identities=11%  Similarity=0.026  Sum_probs=59.8

Q ss_pred             CCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecC
Q 042404          111 STPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFE  190 (311)
Q Consensus       111 ~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~  190 (311)
                      ..++|++++++.+...+.       ....+...+...++|+.|++..+.+...........+ ...++|++|.+.. +.-
T Consensus       153 ~~~~L~~L~Ls~n~l~~~-------~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L-~~~~~L~~L~Ls~-N~i  223 (372)
T 3un9_A          153 DQCQITTLRLSNNPLTAA-------GVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQL-DRNRQLQELNVAY-NGA  223 (372)
T ss_dssp             TTCCCCEEECCSSCCHHH-------HHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHG-GGCSCCCEEECCS-SCC
T ss_pred             cCCccceeeCCCCCCChH-------HHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHH-hcCCCcCeEECCC-CCC
Confidence            456788887776653210       1123445557788899999887754321110001111 2356788888843 323


Q ss_pred             CHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          191 DMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       191 ~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      ...+...++..+..+|+|++|++..+..
T Consensus       224 ~~~g~~~l~~~L~~~~~L~~L~Ls~N~i  251 (372)
T 3un9_A          224 GDTAALALARAAREHPSLELLHLYFNEL  251 (372)
T ss_dssp             CHHHHHHHHHHHHHCSSCCEEECTTSSC
T ss_pred             CHHHHHHHHHHHHhCCCCCEEeccCCCC
Confidence            3345667888888999999999987754

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.00  E-value=1.5e-06  Score=69.58  Aligned_cols=141  Identities=10%  Similarity=-0.022  Sum_probs=86.5

Q ss_pred             CcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCCceEEEeeceeee
Q 042404           28 LTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKD  106 (311)
Q Consensus        28 L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~L~~L~i~~~~~~  106 (311)
                      -++++++++.+. .|..+  .++|+.|+|.++.++.  ++..+.++++|+.|++.++....                ...
T Consensus        12 ~~~l~~~~~~l~~ip~~~--~~~l~~L~L~~n~i~~--ip~~~~~l~~L~~L~Ls~N~i~~----------------i~~   71 (193)
T 2wfh_A           12 DTVVRCSNKGLKVLPKGI--PRDVTELYLDGNQFTL--VPKELSNYKHLTLIDLSNNRIST----------------LSN   71 (193)
T ss_dssp             TTEEECTTSCCSSCCSCC--CTTCCEEECCSSCCCS--CCGGGGGCTTCCEEECCSSCCCC----------------CCT
T ss_pred             CCEEEcCCCCCCcCCCCC--CCCCCEEECCCCcCch--hHHHhhcccCCCEEECCCCcCCE----------------eCH
Confidence            367888888876 34333  4789999999998763  33456788899999988765211                111


Q ss_pred             eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEee
Q 042404          107 IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQ  186 (311)
Q Consensus       107 ~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~  186 (311)
                      -.+..+++|+.++++.+......           ...+..+++|+.|++..+.+..+..     .....+++|+.|.+..
T Consensus        72 ~~f~~l~~L~~L~Ls~N~l~~i~-----------~~~f~~l~~L~~L~L~~N~l~~~~~-----~~~~~l~~L~~L~L~~  135 (193)
T 2wfh_A           72 QSFSNMTQLLTLILSYNRLRCIP-----------PRTFDGLKSLRLLSLHGNDISVVPE-----GAFNDLSALSHLAIGA  135 (193)
T ss_dssp             TTTTTCTTCCEEECCSSCCCBCC-----------TTTTTTCTTCCEEECCSSCCCBCCT-----TTTTTCTTCCEEECCS
T ss_pred             hHccCCCCCCEEECCCCccCEeC-----------HHHhCCCCCCCEEECCCCCCCeeCh-----hhhhcCccccEEEeCC
Confidence            12346677777777665543211           2235788889999998887664332     2222477888888843


Q ss_pred             eecCCHHHHHHHHHHHhc
Q 042404          187 VSFEDMKEILVVIRLITN  204 (311)
Q Consensus       187 ~~~~~~~~~~~l~~~l~~  204 (311)
                      ..+.-.-++.++...++.
T Consensus       136 N~~~C~c~l~~l~~~~~~  153 (193)
T 2wfh_A          136 NPLYCDCNMQWLSDWVKS  153 (193)
T ss_dssp             SCEECSGGGHHHHHHHHH
T ss_pred             CCeecCCcCHHHHHHHHh
Confidence            222111233455555543

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=97.96  E-value=8.4e-07  Score=77.96  Aligned_cols=197  Identities=13%  Similarity=0.068  Sum_probs=111.3

Q ss_pred             CCceEEEEEeCCCeeeecCCC-cccCCCCcEEEccceee-C--CCCCCCCCCcccEE-EeeeeeeChHHHHHHHhcCccc
Q 042404            1 NDIRELVLELGEGEWFRVPSC-LFNCRKLTRLELFRCEF-D--PPLTFTGFPCLRSL-NLHQVLVAPEAIESLISSCPLL   75 (311)
Q Consensus         1 ~~v~~L~l~~~~~~~~~lp~~-~~~~~~L~~L~L~~~~l-~--~~~~~~~l~~L~~L-~L~~~~~~~~~l~~ll~~cp~L   75 (311)
                      +++++|+|.....  ..+|.. +.++++|++|+|++|.+ .  ++..+.++++|+.+ .+.++.+..- .+..+.++++|
T Consensus        30 ~~l~~L~Ls~N~i--~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l-~~~~f~~l~~L  106 (350)
T 4ay9_X           30 RNAIELRFVLTKL--RVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYI-NPEAFQNLPNL  106 (350)
T ss_dssp             TTCSEEEEESCCC--SEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEE-CTTSBCCCTTC
T ss_pred             CCCCEEEccCCcC--CCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCccccc-Cchhhhhcccc
Confidence            3688999887754  478875 56799999999999875 3  23456778887764 4444544431 12336789999


Q ss_pred             ccccccccccee----EEEeCCCceEEEeecee--eeee---ecCC-CCcceeEEEEEEccccchhh---------c--c
Q 042404           76 ESLSLSYFDSLD----LNICAPELKYLYLEGEF--KDIH---LEST-PLLVSMSIAMYMTDDIAEHF---------E--Q  134 (311)
Q Consensus        76 e~L~l~~c~~~~----~~i~~~~L~~L~i~~~~--~~~~---i~~~-p~L~~l~l~~~~~~~~~~~~---------~--~  134 (311)
                      +.|++.++....    ......++..+.+.++.  ..+.   +... ..++.++++.+.........         .  .
T Consensus       107 ~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~~f~~~~L~~l~l~~  186 (350)
T 4ay9_X          107 QYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSD  186 (350)
T ss_dssp             CEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTSSTTEEEEEEECTT
T ss_pred             ccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCCChhhccccchhHHhhcc
Confidence            999999875322    12234456666665531  1111   1122 34555555543322211100         0  0


Q ss_pred             -cccchH-HHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEE
Q 042404          135 -SSSCNF-LKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELH  212 (311)
Q Consensus       135 -~~~~~~-~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~  212 (311)
                       ..-..+ ...++++++|+.|+++.+.+..+     |.   ..|.+|++|.+...  ...   ..++ -++++++|+.++
T Consensus       187 ~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~l-----p~---~~~~~L~~L~~l~~--~~l---~~lP-~l~~l~~L~~l~  252 (350)
T 4ay9_X          187 NNNLEELPNDVFHGASGPVILDISRTRIHSL-----PS---YGLENLKKLRARST--YNL---KKLP-TLEKLVALMEAS  252 (350)
T ss_dssp             CTTCCCCCTTTTTTEECCSEEECTTSCCCCC-----CS---SSCTTCCEEECTTC--TTC---CCCC-CTTTCCSCCEEE
T ss_pred             CCcccCCCHHHhccCcccchhhcCCCCcCcc-----Ch---hhhccchHhhhccC--CCc---CcCC-CchhCcChhhCc
Confidence             000111 23467888899999988765532     21   23677777776221  111   1222 256777888887


Q ss_pred             EE
Q 042404          213 IS  214 (311)
Q Consensus       213 i~  214 (311)
                      +.
T Consensus       253 l~  254 (350)
T 4ay9_X          253 LT  254 (350)
T ss_dssp             CS
T ss_pred             CC
Confidence            75

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=97.90  E-value=1.8e-06  Score=69.07  Aligned_cols=67  Identities=18%  Similarity=0.148  Sum_probs=49.0

Q ss_pred             eeecCCCcccCCCCcEEEccceeeCC-CC--CCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFDP-PL--TFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~~-~~--~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ...+|..+..  +|++|+|+++.+.. ++  .+..+++|++|+|+++.++.- .+..+.++++|+.|++.++.
T Consensus        20 l~~ip~~~~~--~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~L~Ls~N~   89 (192)
T 1w8a_A           20 LKEIPRDIPL--HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGI-EPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             CSSCCSCCCT--TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCB-CTTTTTTCTTCCEEECCSCC
T ss_pred             cCcCccCCCC--CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCc-CHhHcCCcccCCEEECCCCc
Confidence            3567776654  89999999988752 22  267889999999999887653 23346678888888888765

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=97.90  E-value=2.7e-06  Score=68.01  Aligned_cols=80  Identities=24%  Similarity=0.243  Sum_probs=59.9

Q ss_pred             CceEEEEEeCCCeeeecCCC--cccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccc
Q 042404            2 DIRELVLELGEGEWFRVPSC--LFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLES   77 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~--~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~   77 (311)
                      ++++|++.-...  ..+|..  +..+++|++|+|++|.+.  .|..+.++++|+.|+|+++.+..- ....+.+.++|+.
T Consensus        30 ~l~~L~l~~n~i--~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l~~L~~  106 (192)
T 1w8a_A           30 HTTELLLNDNEL--GRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEI-SNKMFLGLHQLKT  106 (192)
T ss_dssp             TCSEEECCSCCC--CSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEE-CSSSSTTCTTCCE
T ss_pred             CCCEEECCCCcC--CccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCcc-CHHHhcCCCCCCE
Confidence            466777655533  355553  778999999999999886  356788999999999999988753 1223557888888


Q ss_pred             ccccccc
Q 042404           78 LSLSYFD   84 (311)
Q Consensus        78 L~l~~c~   84 (311)
                      |++.++.
T Consensus       107 L~L~~N~  113 (192)
T 1w8a_A          107 LNLYDNQ  113 (192)
T ss_dssp             EECCSSC
T ss_pred             EECCCCc
Confidence            8888765

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=97.90  E-value=5.7e-06  Score=77.33  Aligned_cols=157  Identities=11%  Similarity=0.034  Sum_probs=102.4

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|+|.-+..  ..+|   ..+++|++|+|++|.+...+.+.+  +|+.|+|+++.++.  ++.   .+++|+.|+++
T Consensus        81 ~L~~L~Ls~N~l--~~ip---~~l~~L~~L~Ls~N~l~~ip~l~~--~L~~L~Ls~N~l~~--lp~---~l~~L~~L~Ls  148 (571)
T 3cvr_A           81 QITVLEITQNAL--ISLP---ELPASLEYLDACDNRLSTLPELPA--SLKHLDVDNNQLTM--LPE---LPALLEYINAD  148 (571)
T ss_dssp             TCSEEECCSSCC--SCCC---CCCTTCCEEECCSSCCSCCCCCCT--TCCEEECCSSCCSC--CCC---CCTTCCEEECC
T ss_pred             CCCEEECcCCCC--cccc---cccCCCCEEEccCCCCCCcchhhc--CCCEEECCCCcCCC--CCC---cCccccEEeCC
Confidence            578888766644  3677   447899999999998863332433  99999999998876  332   68999999999


Q ss_pred             cccceeEEEeCCCceEEEeece-eeeeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEE
Q 042404           82 YFDSLDLNICAPELKYLYLEGE-FKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFT  160 (311)
Q Consensus        82 ~c~~~~~~i~~~~L~~L~i~~~-~~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~  160 (311)
                      ++....+....++|+.|.+.++ ...+.. -.++|+.++++.+.....+. +.       ..+....+.++.|++..+.+
T Consensus       149 ~N~l~~lp~~l~~L~~L~Ls~N~L~~lp~-l~~~L~~L~Ls~N~L~~lp~-~~-------~~L~~~~~~L~~L~Ls~N~l  219 (571)
T 3cvr_A          149 NNQLTMLPELPTSLEVLSVRNNQLTFLPE-LPESLEALDVSTNLLESLPA-VP-------VRNHHSEETEIFFRCRENRI  219 (571)
T ss_dssp             SSCCSCCCCCCTTCCEEECCSSCCSCCCC-CCTTCCEEECCSSCCSSCCC-CC---------------CCEEEECCSSCC
T ss_pred             CCccCcCCCcCCCcCEEECCCCCCCCcch-hhCCCCEEECcCCCCCchhh-HH-------HhhhcccccceEEecCCCcc
Confidence            9874433224579999999986 222221 12899999998775442210 00       01112223349999988866


Q ss_pred             EEeecCCCCCCCCccccccceEEEe
Q 042404          161 KYLSIGDDPGRLPITYNHLKVIELY  185 (311)
Q Consensus       161 ~~l~~~~~~~~~~~~f~~L~~L~l~  185 (311)
                      ..     .|..+. .+++|+.|.+.
T Consensus       220 ~~-----lp~~l~-~l~~L~~L~L~  238 (571)
T 3cvr_A          220 TH-----IPENIL-SLDPTCTIILE  238 (571)
T ss_dssp             CC-----CCGGGG-GSCTTEEEECC
T ss_pred             ee-----cCHHHh-cCCCCCEEEee
Confidence            53     343344 47889999884

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.89  E-value=1.8e-06  Score=80.91  Aligned_cols=105  Identities=15%  Similarity=0.065  Sum_probs=58.4

Q ss_pred             CCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCCceEEEeeceeee
Q 042404           27 KLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKD  106 (311)
Q Consensus        27 ~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~L~~L~i~~~~~~  106 (311)
                      .|++|+|++|.+...+.+.++++|+.|+|+++.+.  .++..+.++++|+.|+|+++..          ..      .+ 
T Consensus       442 ~L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~l~--~lp~~~~~l~~L~~L~Ls~N~l----------~~------lp-  502 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLR--ALPPALAALRCLEVLQASDNAL----------EN------VD-  502 (567)
T ss_dssp             TCSEEECTTSCCSSCCCGGGGTTCCEEECCSSCCC--CCCGGGGGCTTCCEEECCSSCC----------CC------CG-
T ss_pred             CceEEEecCCCCCCCcCccccccCcEeecCccccc--ccchhhhcCCCCCEEECCCCCC----------CC------Cc-
Confidence            46777777776653333666777777777777665  2333456677777777766531          11      11 


Q ss_pred             eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEE
Q 042404          107 IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTK  161 (311)
Q Consensus       107 ~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~  161 (311)
                       .+..+++|+.++++.+...+..          ....++.+++|+.|+++++.+.
T Consensus       503 -~l~~l~~L~~L~Ls~N~l~~~~----------~p~~l~~l~~L~~L~L~~N~l~  546 (567)
T 1dce_A          503 -GVANLPRLQELLLCNNRLQQSA----------AIQPLVSCPRLVLLNLQGNSLC  546 (567)
T ss_dssp             -GGTTCSSCCEEECCSSCCCSSS----------TTGGGGGCTTCCEEECTTSGGG
T ss_pred             -ccCCCCCCcEEECCCCCCCCCC----------CcHHHhcCCCCCEEEecCCcCC
Confidence             2345566666666554432210          0223456667777777666543

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=97.85  E-value=3e-06  Score=66.68  Aligned_cols=67  Identities=22%  Similarity=0.189  Sum_probs=47.5

Q ss_pred             eeecCCCcccCCCCcEEEccceeeCC--CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFDP--PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~~--~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ...+|..+.  ++|++|+|+++.+..  +..+.++++|+.|+++++.+..- ....+..+++|+.|++.++.
T Consensus        19 l~~~p~~~~--~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~N~   87 (177)
T 2o6r_A           19 LTSVPTGIP--SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSL-PDGVFDKLTKLTILYLHENK   87 (177)
T ss_dssp             CSSCCTTCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCC-CTTTTTTCTTCCEEECCSSC
T ss_pred             CccCCCCCC--CCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEe-ChhHccCCCccCEEECCCCC
Confidence            345665544  689999999888752  33457889999999998877642 22335678888888888764

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=97.83  E-value=4.9e-06  Score=65.43  Aligned_cols=80  Identities=21%  Similarity=0.231  Sum_probs=59.3

Q ss_pred             CceEEEEEeCCCeeeecCCC-cccCCCCcEEEccceeeCC-C-CCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPSC-LFNCRKLTRLELFRCEFDP-P-LTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~-~~~~~~L~~L~L~~~~l~~-~-~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|++.-...  ..+|.. +..+++|++|+|++|.+.. + ..+.++++|+.|+++++.++.- ....+..+++|+.|
T Consensus        29 ~l~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~-~~~~~~~l~~L~~L  105 (177)
T 2o6r_A           29 SATRLELESNKL--QSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSL-PNGVFDKLTQLKEL  105 (177)
T ss_dssp             TCSEEECCSSCC--CCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC-CTTTTTTCTTCCEE
T ss_pred             CCcEEEeCCCcc--cEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCcccc-CHHHhhCCcccCEE
Confidence            567777665543  356655 4678999999999998863 3 3467899999999999988642 22335678889999


Q ss_pred             cccccc
Q 042404           79 SLSYFD   84 (311)
Q Consensus        79 ~l~~c~   84 (311)
                      ++.++.
T Consensus       106 ~l~~N~  111 (177)
T 2o6r_A          106 ALDTNQ  111 (177)
T ss_dssp             ECCSSC
T ss_pred             ECcCCc
Confidence            988764

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.79  E-value=4.6e-06  Score=65.33  Aligned_cols=83  Identities=11%  Similarity=0.104  Sum_probs=62.1

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEcccee-eCCC--CCCCC----CCcccEEEeeeee-eChHHHHHHHhcCc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCE-FDPP--LTFTG----FPCLRSLNLHQVL-VAPEAIESLISSCP   73 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~-l~~~--~~~~~----l~~L~~L~L~~~~-~~~~~l~~ll~~cp   73 (311)
                      .+++|+++-+......+ ..+..|++|++|+|++|. +++.  ..++.    .++|+.|+|++|. +++..+.. ++.||
T Consensus        62 ~L~~LDLs~~~Itd~GL-~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~-L~~~~  139 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGF-DHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIA-LHHFR  139 (176)
T ss_dssp             CEEEEEEESCCCCGGGG-GGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHH-GGGCT
T ss_pred             eEeEEeCcCCCccHHHH-HHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHH-HhcCC
Confidence            47899998665422233 235689999999999995 5531  11233    3579999999996 99988987 46899


Q ss_pred             cccccccccccce
Q 042404           74 LLESLSLSYFDSL   86 (311)
Q Consensus        74 ~Le~L~l~~c~~~   86 (311)
                      +|++|++.+|..+
T Consensus       140 ~L~~L~L~~c~~I  152 (176)
T 3e4g_A          140 NLKYLFLSDLPGV  152 (176)
T ss_dssp             TCCEEEEESCTTC
T ss_pred             CCCEEECCCCCCC
Confidence            9999999999754

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.72  E-value=7.5e-06  Score=72.16  Aligned_cols=80  Identities=15%  Similarity=0.034  Sum_probs=42.9

Q ss_pred             CCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecC
Q 042404          111 STPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFE  190 (311)
Q Consensus       111 ~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~  190 (311)
                      ..|+|+.+.+..+...+.       ....+.. ...+++|+.|+++.+.+...........+ ..+++|+.|.+. .+.-
T Consensus       250 ~~p~Lr~L~L~~~~i~~~-------~~~~la~-a~~~~~L~~LdLs~n~L~d~G~~~L~~~L-~~l~~L~~L~L~-~n~i  319 (362)
T 2ra8_A          250 RFPNLKWLGIVDAEEQNV-------VVEMFLE-SDILPQLETMDISAGVLTDEGARLLLDHV-DKIKHLKFINMK-YNYL  319 (362)
T ss_dssp             TCTTCCEEEEESCTTHHH-------HHHHHHH-CSSGGGCSEEECCSSCCBHHHHHHHHTTH-HHHTTCSEEECC-SBBC
T ss_pred             CCCCcCEEeCCCCCCchH-------HHHHHHh-CccCCCCCEEECCCCCCChHHHHHHHhhc-ccCCcceEEECC-CCcC
Confidence            578999998876543210       0011111 13678999999987654321111111122 357899999994 3333


Q ss_pred             CHHHHHHHHH
Q 042404          191 DMKEILVVIR  200 (311)
Q Consensus       191 ~~~~~~~l~~  200 (311)
                      ....+..+..
T Consensus       320 ~d~~~~~l~~  329 (362)
T 2ra8_A          320 SDEMKKELQK  329 (362)
T ss_dssp             CHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            4334444444

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=97.71  E-value=1e-05  Score=63.25  Aligned_cols=67  Identities=19%  Similarity=0.199  Sum_probs=48.9

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ...+|..+.  ++|++|+|++|.+.  .|..+.++++|+.|+|+++.++.- ....+.++++|+.|+|.++.
T Consensus        21 l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l-~~~~f~~l~~L~~L~L~~N~   89 (170)
T 3g39_A           21 LASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVL-PAGVFDKLTQLTQLSLNDNQ   89 (170)
T ss_dssp             CSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCC-CTTTTTTCTTCCEEECCSSC
T ss_pred             cCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCcc-ChhhccCCCCCCEEECCCCc
Confidence            356777664  78899999998875  345577889999999999887642 22335677888888888764

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.71  E-value=5.9e-06  Score=77.33  Aligned_cols=111  Identities=21%  Similarity=0.236  Sum_probs=81.8

Q ss_pred             ceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            3 IRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         3 v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++.|+|..+..  ..+|. +..+++|+.|+|++|.+. .|..+.++++|+.|+|+++.++.  ++ -+.++++|+.|+++
T Consensus       443 L~~L~Ls~n~l--~~lp~-~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~--lp-~l~~l~~L~~L~Ls  516 (567)
T 1dce_A          443 VRVLHLAHKDL--TVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALEN--VD-GVANLPRLQELLLC  516 (567)
T ss_dssp             CSEEECTTSCC--SSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCC--CG-GGTTCSSCCEEECC
T ss_pred             ceEEEecCCCC--CCCcC-ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCC--Cc-ccCCCCCCcEEECC
Confidence            56666654433  45786 889999999999999886 56678899999999999998876  44 47889999999999


Q ss_pred             cccceeE-----EEeCCCceEEEeece-eeee------eecCCCCcceeE
Q 042404           82 YFDSLDL-----NICAPELKYLYLEGE-FKDI------HLESTPLLVSMS  119 (311)
Q Consensus        82 ~c~~~~~-----~i~~~~L~~L~i~~~-~~~~------~i~~~p~L~~l~  119 (311)
                      ++....+     ....++|+.|.+.++ +...      .+..+|+|+.++
T Consensus       517 ~N~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          517 NNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             SSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             CCCCCCCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccC
Confidence            8864322     123578999999985 2221      122478888774

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=97.69  E-value=6.4e-05  Score=65.21  Aligned_cols=164  Identities=12%  Similarity=0.150  Sum_probs=95.1

Q ss_pred             CCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccc-----------------ccc
Q 042404           25 CRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSY-----------------FDS   85 (311)
Q Consensus        25 ~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~-----------------c~~   85 (311)
                      |++|+.|.|.. .+.  ...+|.+|++|+.+.+..+.+..- -...+.+|..+..+.+..                 |..
T Consensus       100 ~~~L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n~i~~i-~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~  177 (329)
T 3sb4_A          100 KQTLEKVILSE-KIKNIEDAAFKGCDNLKICQIRKKTAPNL-LPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEP  177 (329)
T ss_dssp             CTTCCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCSSCCEE-CTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCC
T ss_pred             cCCCcEEECCc-cccchhHHHhhcCcccceEEcCCCCcccc-chhhhcCCCceEEecCcchhhhhccccccccccccccc
Confidence            89999999998 443  345688999999999988753210 001234455555554433                 111


Q ss_pred             ee--EEE---------------------------------------eCCCceEEEeece-eeee---eecCCCCcceeEE
Q 042404           86 LD--LNI---------------------------------------CAPELKYLYLEGE-FKDI---HLESTPLLVSMSI  120 (311)
Q Consensus        86 ~~--~~i---------------------------------------~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l  120 (311)
                      +.  +.+                                       .+++|+.+.+.++ ...+   .+.++++|+++.+
T Consensus       178 L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l  257 (329)
T 3sb4_A          178 LETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKL  257 (329)
T ss_dssp             CEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCEEEC
T ss_pred             cceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCEEEC
Confidence            11  011                                       1578999998874 3333   4668899999987


Q ss_pred             EEEEccccchhhcccccchHHHHhcCCCcce-EEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHH
Q 042404          121 AMYMTDDIAEHFEQSSSCNFLKILGGVPHLE-KLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVI  199 (311)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~-~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~  199 (311)
                      ...- ....           ...|.++++|+ .+.+.. .++.+..+     .-..+++|++|.+..-......     .
T Consensus       258 ~~ni-~~I~-----------~~aF~~~~~L~~~l~l~~-~l~~I~~~-----aF~~c~~L~~l~l~~n~i~~I~-----~  314 (329)
T 3sb4_A          258 PHNL-KTIG-----------QRVFSNCGRLAGTLELPA-SVTAIEFG-----AFMGCDNLRYVLATGDKITTLG-----D  314 (329)
T ss_dssp             CTTC-CEEC-----------TTTTTTCTTCCEEEEECT-TCCEECTT-----TTTTCTTEEEEEECSSCCCEEC-----T
T ss_pred             Cccc-ceeh-----------HHHhhCChhccEEEEEcc-cceEEchh-----hhhCCccCCEEEeCCCccCccc-----h
Confidence            5531 1100           22367888998 998865 34333322     1124677777776211111110     2


Q ss_pred             HHHhcCCCcceEEE
Q 042404          200 RLITNSPNLKELHI  213 (311)
Q Consensus       200 ~~l~~~p~L~~L~i  213 (311)
                      ..+.+|++|+.++.
T Consensus       315 ~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          315 ELFGNGVPSKLIYK  328 (329)
T ss_dssp             TTTCTTCCCCEEEC
T ss_pred             hhhcCCcchhhhcc
Confidence            35788999998864

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=97.69  E-value=1.7e-05  Score=61.96  Aligned_cols=80  Identities=19%  Similarity=0.153  Sum_probs=59.5

Q ss_pred             CceEEEEEeCCCeeeec-CCCcccCCCCcEEEccceeeC-CC-CCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRV-PSCLFNCRKLTRLELFRCEFD-PP-LTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~l-p~~~~~~~~L~~L~L~~~~l~-~~-~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|.-...  ..+ |..+..+++|++|+|++|.+. .+ ..+.++++|+.|+|+++.+..- ....+..+++|+.|
T Consensus        31 ~l~~L~L~~N~i--~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~-~~~~~~~l~~L~~L  107 (170)
T 3g39_A           31 TTQVLYLYDNQI--TKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLKSI-PRGAFDNLKSLTHI  107 (170)
T ss_dssp             TCSEEECCSSCC--CCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC-CTTTTTTCTTCCEE
T ss_pred             CCcEEEcCCCcC--CccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCccCEe-CHHHhcCCCCCCEE
Confidence            567777765543  345 556778999999999999986 33 3467899999999999988652 22336678888888


Q ss_pred             cccccc
Q 042404           79 SLSYFD   84 (311)
Q Consensus        79 ~l~~c~   84 (311)
                      +|.++.
T Consensus       108 ~L~~N~  113 (170)
T 3g39_A          108 WLLNNP  113 (170)
T ss_dssp             ECCSSC
T ss_pred             EeCCCC
Confidence            888753

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=97.68  E-value=1.2e-05  Score=63.20  Aligned_cols=67  Identities=18%  Similarity=0.155  Sum_probs=48.6

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ...+|..+.  ++|++|+|++|.+.  .|..+.++++|+.|+|+++.+..- ....+.++++|+.|+|.++.
T Consensus        24 l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i-~~~~~~~l~~L~~L~L~~N~   92 (174)
T 2r9u_A           24 LASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAI-PTGVFDKLTQLTQLDLNDNH   92 (174)
T ss_dssp             CSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC-CTTTTTTCTTCCEEECCSSC
T ss_pred             CCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCcc-ChhHhCCcchhhEEECCCCc
Confidence            356777664  78999999988876  345577889999999998887652 12234567888888887764

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=97.67  E-value=1.9e-05  Score=62.03  Aligned_cols=80  Identities=16%  Similarity=0.152  Sum_probs=59.7

Q ss_pred             CceEEEEEeCCCeeeec-CCCcccCCCCcEEEccceeeC-CCC-CCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRV-PSCLFNCRKLTRLELFRCEFD-PPL-TFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~l-p~~~~~~~~L~~L~L~~~~l~-~~~-~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|+|.-...  ..+ |..+..+++|++|+|++|.+. .|+ .+.++++|+.|+|+++.+..- ....+..+++|+.|
T Consensus        34 ~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~~l-~~~~~~~l~~L~~L  110 (174)
T 2r9u_A           34 DKQRLWLNNNQI--TKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSI-PRGAFDNLKSLTHI  110 (174)
T ss_dssp             TCSEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC-CTTTTTTCTTCSEE
T ss_pred             CCcEEEeCCCCc--cccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCcccee-CHHHhccccCCCEE
Confidence            577777766543  345 556778999999999999986 333 357899999999999987642 22336678888888


Q ss_pred             cccccc
Q 042404           79 SLSYFD   84 (311)
Q Consensus        79 ~l~~c~   84 (311)
                      .+.++.
T Consensus       111 ~L~~N~  116 (174)
T 2r9u_A          111 YLYNNP  116 (174)
T ss_dssp             ECCSSC
T ss_pred             EeCCCC
Confidence            888754

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=97.57  E-value=3.4e-06  Score=81.34  Aligned_cols=108  Identities=15%  Similarity=0.102  Sum_probs=74.7

Q ss_pred             ecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE---EEeC
Q 042404           17 RVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL---NICA   92 (311)
Q Consensus        17 ~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~---~i~~   92 (311)
                      ..|..+..+++|+.|+|++|.+. .|..+..+++|+.|+|+++.++  .++.-+..+++|+.|+|+++....+   ....
T Consensus       215 ~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N~l~--~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l  292 (727)
T 4b8c_D          215 MPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLTRLYLNGNSLT--ELPAEIKNLSNLRVLDLSHNRLTSLPAELGSC  292 (727)
T ss_dssp             -------CCCCCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTSCCS--CCCGGGGGGTTCCEEECTTSCCSSCCSSGGGG
T ss_pred             cChhhhccCCCCcEEECCCCCCCCCChhhcCCCCCCEEEeeCCcCc--ccChhhhCCCCCCEEeCcCCcCCccChhhcCC
Confidence            34566777889999999998875 4555668899999999998877  2444467899999999998864321   1234


Q ss_pred             CCceEEEeece-eeee--eecCCCCcceeEEEEEEcc
Q 042404           93 PELKYLYLEGE-FKDI--HLESTPLLVSMSIAMYMTD  126 (311)
Q Consensus        93 ~~L~~L~i~~~-~~~~--~i~~~p~L~~l~l~~~~~~  126 (311)
                      ++|++|.+.++ +..+  .+..+++|+.++++.+...
T Consensus       293 ~~L~~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N~l~  329 (727)
T 4b8c_D          293 FQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLE  329 (727)
T ss_dssp             TTCSEEECCSSCCCCCCSSTTSCTTCCCEECTTSCCC
T ss_pred             CCCCEEECCCCCCCccChhhhcCCCccEEeCCCCccC
Confidence            68899998885 3322  3567889999988776654

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=97.53  E-value=1.1e-05  Score=64.68  Aligned_cols=78  Identities=18%  Similarity=0.041  Sum_probs=61.3

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCC-CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDP-PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSL   80 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~-~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l   80 (311)
                      ++++|+|.-+..  ..+| .+..+++|+.|+|++|.+.. |..+..+++|+.|+++++.+.+  ++ -+..+++|+.|++
T Consensus        49 ~L~~L~ls~n~l--~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~--l~-~~~~l~~L~~L~l  122 (198)
T 1ds9_A           49 ACKHLALSTNNI--EKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIAS--LS-GIEKLVNLRVLYM  122 (198)
T ss_dssp             TCSEEECSEEEE--SCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCC--HH-HHHHHHHSSEEEE
T ss_pred             CCCEEECCCCCC--cccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCc--CC-ccccCCCCCEEEC
Confidence            578888765532  3477 88899999999999999873 4334457899999999999876  33 3678999999999


Q ss_pred             ccccc
Q 042404           81 SYFDS   85 (311)
Q Consensus        81 ~~c~~   85 (311)
                      .++..
T Consensus       123 ~~N~i  127 (198)
T 1ds9_A          123 SNNKI  127 (198)
T ss_dssp             SEEEC
T ss_pred             CCCcC
Confidence            98863

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.34  E-value=4.3e-05  Score=66.72  Aligned_cols=86  Identities=21%  Similarity=0.183  Sum_probs=63.8

Q ss_pred             eeecCCCcccCCCCcEEEccc-eeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEE--
Q 042404           15 WFRVPSCLFNCRKLTRLELFR-CEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLN--   89 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~-~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~--   89 (311)
                      ...+|. +..+++|+.|+|++ |.+.  .+..+.++++|+.|+|+++.+..- .+..+.++++|+.|+|+++..-.+.  
T Consensus        21 l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~-~~~~~~~l~~L~~L~l~~N~l~~~~~~   98 (347)
T 2ifg_A           21 LDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFV-APDAFHFTPRLSRLNLSFNALESLSWK   98 (347)
T ss_dssp             CTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEE-CTTGGGSCSCCCEEECCSSCCSCCCST
T ss_pred             CCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCcccee-CHHHhcCCcCCCEEeCCCCccceeCHH
Confidence            457899 88999999999996 8876  334588999999999999988763 2334678999999999987632211  


Q ss_pred             -EeCCCceEEEeec
Q 042404           90 -ICAPELKYLYLEG  102 (311)
Q Consensus        90 -i~~~~L~~L~i~~  102 (311)
                       +...+|+.|.+.+
T Consensus        99 ~~~~~~L~~l~l~~  112 (347)
T 2ifg_A           99 TVQGLSLQELVLSG  112 (347)
T ss_dssp             TTCSCCCCEEECCS
T ss_pred             HcccCCceEEEeeC
Confidence             1122377777766

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=97.25  E-value=2.9e-05  Score=74.93  Aligned_cols=97  Identities=23%  Similarity=0.218  Sum_probs=52.6

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSL   80 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l   80 (311)
                      +++.|+|.-...  ..+|..++.+++|++|+|++|.+. .|..+.++++|+.|+|++|.++  .++.-+.++++|+.|.|
T Consensus       225 ~L~~L~Ls~n~l--~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~--~lp~~~~~l~~L~~L~L  300 (727)
T 4b8c_D          225 LWHALDLSNLQI--FNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLT--SLPAELGSCFQLKYFYF  300 (727)
T ss_dssp             CCCEEECTTSCC--SCCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCS--SCCSSGGGGTTCSEEEC
T ss_pred             CCcEEECCCCCC--CCCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCC--ccChhhcCCCCCCEEEC
Confidence            345555543322  356666666666666666666654 3444556666666666666655  23333555666666666


Q ss_pred             ccccceeEE---EeCCCceEEEeec
Q 042404           81 SYFDSLDLN---ICAPELKYLYLEG  102 (311)
Q Consensus        81 ~~c~~~~~~---i~~~~L~~L~i~~  102 (311)
                      .+|..-.+.   ...++|+.|.+.+
T Consensus       301 ~~N~l~~lp~~~~~l~~L~~L~L~~  325 (727)
T 4b8c_D          301 FDNMVTTLPWEFGNLCNLQFLGVEG  325 (727)
T ss_dssp             CSSCCCCCCSSTTSCTTCCCEECTT
T ss_pred             CCCCCCccChhhhcCCCccEEeCCC
Confidence            665421110   1224566666655

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=97.15  E-value=8.7e-05  Score=64.37  Aligned_cols=82  Identities=20%  Similarity=0.120  Sum_probs=48.1

Q ss_pred             CCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccc-eEEEeeeecC
Q 042404          112 TPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK-VIELYQVSFE  190 (311)
Q Consensus       112 ~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~-~L~l~~~~~~  190 (311)
                      +++|+.+++..+.....           -...+.++++|+.+++..+ ++.+..+     .-..+++|+ .+.+.. ...
T Consensus       225 ~~~L~~l~L~~n~i~~I-----------~~~aF~~~~~L~~l~l~~n-i~~I~~~-----aF~~~~~L~~~l~l~~-~l~  286 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTI-----------PDFTFAQKKYLLKIKLPHN-LKTIGQR-----VFSNCGRLAGTLELPA-SVT  286 (329)
T ss_dssp             CTTCCEEECTTBCCCEE-----------CTTTTTTCTTCCEEECCTT-CCEECTT-----TTTTCTTCCEEEEECT-TCC
T ss_pred             cCCCeEEECCCCCccee-----------cHhhhhCCCCCCEEECCcc-cceehHH-----HhhCChhccEEEEEcc-cce
Confidence            56677666654322111           0234688999999999765 4444322     122456677 777721 111


Q ss_pred             CHHHHHHH-HHHHhcCCCcceEEEEecc
Q 042404          191 DMKEILVV-IRLITNSPNLKELHISGSS  217 (311)
Q Consensus       191 ~~~~~~~l-~~~l~~~p~L~~L~i~~~~  217 (311)
                            .+ ...+.+|++|+.+++....
T Consensus       287 ------~I~~~aF~~c~~L~~l~l~~n~  308 (329)
T 3sb4_A          287 ------AIEFGAFMGCDNLRYVLATGDK  308 (329)
T ss_dssp             ------EECTTTTTTCTTEEEEEECSSC
T ss_pred             ------EEchhhhhCCccCCEEEeCCCc
Confidence                  11 2457899999999986543

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=96.64  E-value=0.0005  Score=59.89  Aligned_cols=79  Identities=22%  Similarity=0.173  Sum_probs=57.4

Q ss_pred             CceEEEEEe-CCCeeeecC-CCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccc
Q 042404            2 DIRELVLEL-GEGEWFRVP-SCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLES   77 (311)
Q Consensus         2 ~v~~L~l~~-~~~~~~~lp-~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~   77 (311)
                      ++++|+|.- ...  ..+| ..+..+++|+.|+|++|.+.  +|..+.++++|+.|+|+++.+..- ...++...+ |+.
T Consensus        32 ~L~~L~l~~~n~l--~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~-~~~~~~~~~-L~~  107 (347)
T 2ifg_A           32 NLTELYIENQQHL--QHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESL-SWKTVQGLS-LQE  107 (347)
T ss_dssp             CCSEEECCSCSSC--CEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCC-CSTTTCSCC-CCE
T ss_pred             CeeEEEccCCCCC--CCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCcccee-CHHHcccCC-ceE
Confidence            577888763 543  4566 45778999999999999886  455678999999999999988642 112233344 999


Q ss_pred             ccccccc
Q 042404           78 LSLSYFD   84 (311)
Q Consensus        78 L~l~~c~   84 (311)
                      |.|.++.
T Consensus       108 l~l~~N~  114 (347)
T 2ifg_A          108 LVLSGNP  114 (347)
T ss_dssp             EECCSSC
T ss_pred             EEeeCCC
Confidence            9998653

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=96.54  E-value=0.00021  Score=63.12  Aligned_cols=102  Identities=21%  Similarity=0.188  Sum_probs=68.6

Q ss_pred             CceEEEEEeCCCee---eecCCCc-ccCCCCcEEEccceeeCC------CCCCCCCCcccEEEeeeeeeChHH---HHHH
Q 042404            2 DIRELVLELGEGEW---FRVPSCL-FNCRKLTRLELFRCEFDP------PLTFTGFPCLRSLNLHQVLVAPEA---IESL   68 (311)
Q Consensus         2 ~v~~L~l~~~~~~~---~~lp~~~-~~~~~L~~L~L~~~~l~~------~~~~~~l~~L~~L~L~~~~~~~~~---l~~l   68 (311)
                      ++++|+|..+....   ..+...+ ..+++|++|+|++|.++.      +..+...++|++|+|++|.+++..   +...
T Consensus       127 ~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~  206 (372)
T 3un9_A          127 RARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQ  206 (372)
T ss_dssp             TEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHH
T ss_pred             hccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHH
Confidence            46778876554311   1222222 246789999999998752      122346889999999999988754   4455


Q ss_pred             HhcCcccccccccccccee-----E---EEeCCCceEEEeece
Q 042404           69 ISSCPLLESLSLSYFDSLD-----L---NICAPELKYLYLEGE  103 (311)
Q Consensus        69 l~~cp~Le~L~l~~c~~~~-----~---~i~~~~L~~L~i~~~  103 (311)
                      +..+++|++|+|.+|...+     +   -...++|++|++.++
T Consensus       207 L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N  249 (372)
T 3un9_A          207 LDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLYFN  249 (372)
T ss_dssp             GGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTS
T ss_pred             HhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCC
Confidence            6778999999999986422     1   013467888888775

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=96.50  E-value=0.0014  Score=58.39  Aligned_cols=33  Identities=9%  Similarity=-0.023  Sum_probs=16.6

Q ss_pred             CCCcEEEccceeeC-CCCCCCCCCcccEEEeeee
Q 042404           26 RKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQV   58 (311)
Q Consensus        26 ~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~   58 (311)
                      .+|+.+.|...--. ...++.+|++|+++.|..+
T Consensus       157 ~~L~~i~lp~~l~~I~~~aF~~c~~L~~l~l~~n  190 (401)
T 4fdw_A          157 STVQEIVFPSTLEQLKEDIFYYCYNLKKADLSKT  190 (401)
T ss_dssp             CCCCEEECCTTCCEECSSTTTTCTTCCEEECTTS
T ss_pred             CCceEEEeCCCccEehHHHhhCcccCCeeecCCC
Confidence            35666666542111 2234556666666666543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=96.49  E-value=0.00024  Score=56.26  Aligned_cols=102  Identities=13%  Similarity=0.046  Sum_probs=68.9

Q ss_pred             CceEEEEEeC-CC---eeeecCCCcccCCCCcEEEccceeeCCC------CCCCCCCcccEEEeeeeeeChHH---HHHH
Q 042404            2 DIRELVLELG-EG---EWFRVPSCLFNCRKLTRLELFRCEFDPP------LTFTGFPCLRSLNLHQVLVAPEA---IESL   68 (311)
Q Consensus         2 ~v~~L~l~~~-~~---~~~~lp~~~~~~~~L~~L~L~~~~l~~~------~~~~~l~~L~~L~L~~~~~~~~~---l~~l   68 (311)
                      .+++|+|.-+ ..   ....+...+..+++|++|+|++|.+.+.      ..+...+.|++|+|+++.+.+..   +...
T Consensus        37 ~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~l~~~  116 (185)
T 1io0_A           37 DLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEA  116 (185)
T ss_dssp             TCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHG
T ss_pred             CCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHHHHHH
Confidence            5778887654 32   1134555666789999999999988632      12335678999999999998865   4444


Q ss_pred             HhcCcccccccc--cccccee--------EEEeCCCceEEEeece
Q 042404           69 ISSCPLLESLSL--SYFDSLD--------LNICAPELKYLYLEGE  103 (311)
Q Consensus        69 l~~cp~Le~L~l--~~c~~~~--------~~i~~~~L~~L~i~~~  103 (311)
                      +..++.|++|+|  .++..-.        .-...++|++|.+.++
T Consensus       117 L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n  161 (185)
T 1io0_A          117 LQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFT  161 (185)
T ss_dssp             GGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCC
Confidence            667889999999  6564211        1112357777777664

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=96.46  E-value=0.00061  Score=57.12  Aligned_cols=58  Identities=24%  Similarity=0.171  Sum_probs=31.2

Q ss_pred             CCCCcEEEccceeeCCCC----CCCCCCcccEEEeeeeeeChH-HHHHHHhcCcccccccccccc
Q 042404           25 CRKLTRLELFRCEFDPPL----TFTGFPCLRSLNLHQVLVAPE-AIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        25 ~~~L~~L~L~~~~l~~~~----~~~~l~~L~~L~L~~~~~~~~-~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      +++|+.|+|++|.+....    .+..+++|+.|+|+++.+.+- .+.. +.+. +|++|.|.++.
T Consensus       169 l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~~l~~-l~~l-~L~~L~L~~Np  231 (267)
T 3rw6_A          169 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDK-IKGL-KLEELWLDGNS  231 (267)
T ss_dssp             CTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGGGGG-GTTS-CCSEEECTTST
T ss_pred             CCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchhhhh-cccC-CcceEEccCCc
Confidence            456666666666654321    122566666666666666542 2322 2223 66666666543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=94.93  E-value=0.0065  Score=47.81  Aligned_cols=60  Identities=10%  Similarity=0.102  Sum_probs=31.5

Q ss_pred             cCCCCcEEEccce-eeCC------CCCCCCCCcccEEEeeeeeeChHH---HHHHHhcCccccccccccc
Q 042404           24 NCRKLTRLELFRC-EFDP------PLTFTGFPCLRSLNLHQVLVAPEA---IESLISSCPLLESLSLSYF   83 (311)
Q Consensus        24 ~~~~L~~L~L~~~-~l~~------~~~~~~l~~L~~L~L~~~~~~~~~---l~~ll~~cp~Le~L~l~~c   83 (311)
                      .+++|++|+|++| .+.+      ...+...++|++|+|+++.+.++.   +...+..++.|++|+|.+|
T Consensus        34 ~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N  103 (185)
T 1io0_A           34 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN  103 (185)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS
T ss_pred             cCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCC
Confidence            4566666666666 5532      111234456666666666665532   3333444555555555554

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=94.50  E-value=0.011  Score=52.66  Aligned_cols=171  Identities=15%  Similarity=0.251  Sum_probs=91.7

Q ss_pred             ecCC-CcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeee--eChHHHHHHHhcCcccccccccccc-------
Q 042404           17 RVPS-CLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVL--VAPEAIESLISSCPLLESLSLSYFD-------   84 (311)
Q Consensus        17 ~lp~-~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~--~~~~~l~~ll~~cp~Le~L~l~~c~-------   84 (311)
                      .++. ++..|.+|+.++|..+.+.  ....+. +.+|+.+.|....  +...    .+.+|++|+.+.+...-       
T Consensus       170 ~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~-~~~L~~l~lp~~l~~I~~~----aF~~~~~L~~l~l~~~l~~I~~~a  244 (401)
T 4fdw_A          170 QLKEDIFYYCYNLKKADLSKTKITKLPASTFV-YAGIEEVLLPVTLKEIGSQ----AFLKTSQLKTIEIPENVSTIGQEA  244 (401)
T ss_dssp             EECSSTTTTCTTCCEEECTTSCCSEECTTTTT-TCCCSEEECCTTCCEECTT----TTTTCTTCCCEECCTTCCEECTTT
T ss_pred             EehHHHhhCcccCCeeecCCCcceEechhhEe-ecccCEEEeCCchheehhh----HhhCCCCCCEEecCCCccCccccc
Confidence            3443 4557899999999877654  223343 5788888886431  3332    25678888888886421       


Q ss_pred             ----cee-EEE-------------eCCCceEEEeeceee------ee---eecCCCCcceeEEEEEEccccchhhccccc
Q 042404           85 ----SLD-LNI-------------CAPELKYLYLEGEFK------DI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSS  137 (311)
Q Consensus        85 ----~~~-~~i-------------~~~~L~~L~i~~~~~------~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~  137 (311)
                          .+. +.+             .+++|+.+.+.+...      .+   .+.++++|+.+.+... ....         
T Consensus       245 F~~~~L~~i~lp~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~~-i~~I---------  314 (401)
T 4fdw_A          245 FRESGITTVKLPNGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPES-IRIL---------  314 (401)
T ss_dssp             TTTCCCSEEEEETTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCTT-CCEE---------
T ss_pred             cccCCccEEEeCCCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCCc-eEEE---------
Confidence                011 111             224566666554311      11   2446667776665421 0000         


Q ss_pred             chHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCC-CcceEEEEec
Q 042404          138 CNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSP-NLKELHISGS  216 (311)
Q Consensus       138 ~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p-~L~~L~i~~~  216 (311)
                        -...+.++.+|+.+.+..+ ++.+..+.    .. .+ +|+++.+........     ....+.++| .+.++++-..
T Consensus       315 --~~~aF~~c~~L~~l~lp~~-l~~I~~~a----F~-~~-~L~~l~l~~n~~~~l-----~~~~F~~~~~~l~~l~vp~~  380 (401)
T 4fdw_A          315 --GQGLLGGNRKVTQLTIPAN-VTQINFSA----FN-NT-GIKEVKVEGTTPPQV-----FEKVWYGFPDDITVIRVPAE  380 (401)
T ss_dssp             --CTTTTTTCCSCCEEEECTT-CCEECTTS----SS-SS-CCCEEEECCSSCCBC-----CCSSCCCSCTTCCEEEECGG
T ss_pred             --hhhhhcCCCCccEEEECcc-ccEEcHHh----CC-CC-CCCEEEEcCCCCccc-----ccccccCCCCCccEEEeCHH
Confidence              0223678899999998543 33333221    12 35 788888843211111     112345664 7888888644

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=94.10  E-value=0.011  Score=49.36  Aligned_cols=40  Identities=30%  Similarity=0.378  Sum_probs=31.9

Q ss_pred             CCCCcccEEEeeeeeeCh-HHHHHHHhcCcccccccccccc
Q 042404           45 TGFPCLRSLNLHQVLVAP-EAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        45 ~~l~~L~~L~L~~~~~~~-~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      .++++|++|+|+++.+.+ ..++..+..+|+|+.|+|+++.
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~  207 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNE  207 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSC
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCc
Confidence            368899999999998876 3355667789999999998775

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=87.37  E-value=0.25  Score=43.52  Aligned_cols=15  Identities=7%  Similarity=-0.077  Sum_probs=9.5

Q ss_pred             hcCCCcceEEEEeee
Q 042404          144 LGGVPHLEKLVGYIY  158 (311)
Q Consensus       144 l~~l~~l~~L~l~~~  158 (311)
                      +.++.+|+.+++..+
T Consensus       353 F~~C~~L~~i~~~~~  367 (394)
T 4gt6_A          353 FSNCTALNNIEYSGS  367 (394)
T ss_dssp             GTTCTTCCEEEESSC
T ss_pred             hhCCCCCCEEEECCc
Confidence            456666777666554

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=86.54  E-value=0.62  Score=33.97  Aligned_cols=43  Identities=21%  Similarity=0.239  Sum_probs=32.1

Q ss_pred             ecCCCcccCCCCcEEEccceeeC-C-CCCCCCCCcccEEEeeeeeeC
Q 042404           17 RVPSCLFNCRKLTRLELFRCEFD-P-PLTFTGFPCLRSLNLHQVLVA   61 (311)
Q Consensus        17 ~lp~~~~~~~~L~~L~L~~~~l~-~-~~~~~~l~~L~~L~L~~~~~~   61 (311)
                      .+|..+.  .+|+.|+|++|.+. . +..+..+++|++|.|.++.+.
T Consensus        24 ~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           24 SLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             TSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             cCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCCee
Confidence            5665433  36899999999886 3 334678899999999998764

---

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	311
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.2
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.97
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	98.88
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.85
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	98.75
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.75
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.72
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	98.7
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	98.64
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	98.62
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	98.59
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.58
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.56
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.54
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.44
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.44
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.38
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.36
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.31
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.29
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.19
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.19
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.18
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.12
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.11
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.84
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	97.83
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	97.82
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.76
d2ifga3	156	High affinity nerve growth factor receptor, N-term	97.48
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	97.43
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	97.4
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	96.8
d2ifga3	156	High affinity nerve growth factor receptor, N-term	96.55
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	96.14
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.47
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.17
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	94.81
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	93.92
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	93.27
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	93.25
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	89.22

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=1.6e-13  Score=115.75  Aligned_cols=79  Identities=15%  Similarity=0.146  Sum_probs=40.6

Q ss_pred             cCCCCcEEEccceeeCC---CCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee------EEEeCCC
Q 042404           24 NCRKLTRLELFRCEFDP---PLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD------LNICAPE   94 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~~---~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~------~~i~~~~   94 (311)
                      ...+|++|+|++|.+..   ...+.++++|++|.|.++.+++..+.. +..+|+|++|++.+|..++      +.-..|+
T Consensus        44 ~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~-l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~  122 (284)
T d2astb2          44 SPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNT-LAKNSNLVRLNLSGCSGFSEFALQTLLSSCSR  122 (284)
T ss_dssp             CCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHH-HTTCTTCSEEECTTCBSCCHHHHHHHHHHCTT
T ss_pred             cCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHH-HhcCCCCcCccccccccccccccchhhHHHHh
Confidence            34456666666555431   111345566666666666555543433 3455666666666655432      1113356


Q ss_pred             ceEEEeece
Q 042404           95 LKYLYLEGE  103 (311)
Q Consensus        95 L~~L~i~~~  103 (311)
                      |++|++.+|
T Consensus       123 L~~L~ls~c  131 (284)
T d2astb2         123 LDELNLSWC  131 (284)
T ss_dssp             CCEEECCCC
T ss_pred             ccccccccc
Confidence            666666554

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.97  E-value=2.5e-11  Score=101.99  Aligned_cols=217  Identities=16%  Similarity=0.135  Sum_probs=118.6

Q ss_pred             CCcEEEccceeeCCC-CCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee----EEEeCCCceEEEee
Q 042404           27 KLTRLELFRCEFDPP-LTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD----LNICAPELKYLYLE  101 (311)
Q Consensus        27 ~L~~L~L~~~~l~~~-~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~----~~i~~~~L~~L~i~  101 (311)
                      .+..+.+.......| .......+|+.|+++++.++++.+..++..||+|++|.+.+|...+    .-...++|++|+++
T Consensus        24 ~~~~lrl~~~~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls  103 (284)
T d2astb2          24 GVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLS  103 (284)
T ss_dssp             TCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECT
T ss_pred             cceEeeccccccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCcccc
Confidence            455666666555432 2223456788888888888888888888888889998888885322    11135788888888


Q ss_pred             cee--ee--e--eecCCCCcceeEEEEEEccccchhhcccccchHHHHh-cCCCcceEEEEeeeEEEEeecCCCCCCCCc
Q 042404          102 GEF--KD--I--HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKIL-GGVPHLEKLVGYIYFTKYLSIGDDPGRLPI  174 (311)
Q Consensus       102 ~~~--~~--~--~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l-~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~  174 (311)
                      +|.  ..  +  ....+|+|++++++++....         ...+...+ ...+.++.|.+.+.... +..... ..+..
T Consensus       104 ~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~---------~~~~~~~~~~~~~~L~~L~l~~~~~~-i~~~~l-~~l~~  172 (284)
T d2astb2         104 GCSGFSEFALQTLLSSCSRLDELNLSWCFDFT---------EKHVQVAVAHVSETITQLNLSGYRKN-LQKSDL-STLVR  172 (284)
T ss_dssp             TCBSCCHHHHHHHHHHCTTCCEEECCCCTTCC---------HHHHHHHHHHSCTTCCEEECCSCGGG-SCHHHH-HHHHH
T ss_pred             ccccccccccchhhHHHHhccccccccccccc---------cccchhhhcccccccchhhhcccccc-cccccc-ccccc
Confidence            752  21  1  12367888888887654321         01112222 33467888887643100 000000 01223


Q ss_pred             cccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEeecC
Q 042404          175 TYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISG  254 (311)
Q Consensus       175 ~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~~~g  254 (311)
                      .+++|++|.+.+...-..    .....+..||+|++|.+..+..-.       ......   . ..+++|+.+.+.|...
T Consensus       173 ~~~~L~~L~L~~~~~itd----~~~~~l~~~~~L~~L~L~~C~~i~-------~~~l~~---L-~~~~~L~~L~l~~~~~  237 (284)
T d2astb2         173 RCPNLVHLDLSDSVMLKN----DCFQEFFQLNYLQHLSLSRCYDII-------PETLLE---L-GEIPTLKTLQVFGIVP  237 (284)
T ss_dssp             HCTTCSEEECTTCTTCCG----GGGGGGGGCTTCCEEECTTCTTCC-------GGGGGG---G-GGCTTCCEEECTTSSC
T ss_pred             ccccccccccccccCCCc----hhhhhhcccCcCCEEECCCCCCCC-------hHHHHH---H-hcCCCCCEEeeeCCCC
Confidence            467888888832111111    112335578888888887653211       111110   0 1247788887765422


Q ss_pred             CcchHHHHHHHHccCcccc
Q 042404          255 VPHEMELIKFLLSNSPVLE  273 (311)
Q Consensus       255 ~~~~~~l~~~ll~~a~~Le  273 (311)
                       +.   -+..+.+..|.|+
T Consensus       238 -d~---~l~~l~~~lp~L~  252 (284)
T d2astb2         238 -DG---TLQLLKEALPHLQ  252 (284)
T ss_dssp             -TT---CHHHHHHHSTTSE
T ss_pred             -HH---HHHHHHHhCcccc
Confidence             11   2334445566665

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.88  E-value=2.5e-10  Score=92.37  Aligned_cols=56  Identities=18%  Similarity=0.104  Sum_probs=24.9

Q ss_pred             CCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccc
Q 042404           25 CRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYF   83 (311)
Q Consensus        25 ~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c   83 (311)
                      +.+|+.|++.+|.+...+++..+++|++|+++++.+.+-.  . +..+++|+.|.+.+|
T Consensus        40 l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~i~~~~--~-l~~l~~l~~l~~~~n   95 (227)
T d1h6ua2          40 LDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLA--P-LKNLTKITELELSGN   95 (227)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCG--G-GTTCCSCCEEECCSC
T ss_pred             cCCcCEEECCCCCCCcchhHhcCCCCcEeecCCceeeccc--c-ccccccccccccccc
Confidence            3445555555544433333444555555555554443211  0 344455555554444

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.85  E-value=3.4e-10  Score=89.68  Aligned_cols=158  Identities=16%  Similarity=0.171  Sum_probs=101.1

Q ss_pred             cCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE--EEeCCCceEEEee
Q 042404           24 NCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL--NICAPELKYLYLE  101 (311)
Q Consensus        24 ~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~--~i~~~~L~~L~i~  101 (311)
                      .+.++++|++.++.+...+++..+++|++|+++++.+++-.  . +.++++|+.|.+.+|....+  .-..++|+.+.+.
T Consensus        38 ~l~~l~~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~l~~~~--~-l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~  114 (199)
T d2omxa2          38 DLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDIT--P-LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLF  114 (199)
T ss_dssp             HHTTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCG--G-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECC
T ss_pred             HhcCCCEEECCCCCCCCccccccCCCcCcCccccccccCcc--c-ccCCccccccccccccccccccccccccccccccc
Confidence            35678888888887765556677888888888888776521  1 66788888888887764331  1134678888887


Q ss_pred             cee-eee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCcccccc
Q 042404          102 GEF-KDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHL  179 (311)
Q Consensus       102 ~~~-~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L  179 (311)
                      ++. ..+ .+..+++|+.++++.+....             ...+..+++++.|.+..+.+..+     + .+ ..+++|
T Consensus       115 ~~~~~~~~~~~~l~~L~~L~l~~n~l~~-------------~~~l~~~~~L~~L~l~~n~l~~l-----~-~l-~~l~~L  174 (199)
T d2omxa2         115 NNQITDIDPLKNLTNLNRLELSSNTISD-------------ISALSGLTSLQQLNFSSNQVTDL-----K-PL-ANLTTL  174 (199)
T ss_dssp             SSCCCCCGGGTTCTTCSEEECCSSCCCC-------------CGGGTTCTTCSEEECCSSCCCCC-----G-GG-TTCTTC
T ss_pred             ccccccccccchhhhhHHhhhhhhhhcc-------------cccccccccccccccccccccCC-----c-cc-cCCCCC
Confidence            752 222 34578888888886654321             22357788888888887654321     1 12 247788


Q ss_pred             ceEEEeeeecCCHHHHHHHHHHHhcCCCcceE
Q 042404          180 KVIELYQVSFEDMKEILVVIRLITNSPNLKEL  211 (311)
Q Consensus       180 ~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L  211 (311)
                      ++|.+..   +...+   + ..+.++++|++|
T Consensus       175 ~~L~ls~---N~i~~---i-~~l~~L~~L~~L  199 (199)
T d2omxa2         175 ERLDISS---NKVSD---I-SVLAKLTNLESL  199 (199)
T ss_dssp             CEEECCS---SCCCC---C-GGGGGCTTCSEE
T ss_pred             CEEECCC---CCCCC---C-ccccCCCCCCcC
Confidence            8888833   22212   2 236778888876

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=3.5e-10  Score=93.82  Aligned_cols=186  Identities=19%  Similarity=0.108  Sum_probs=113.0

Q ss_pred             EeCCCeeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccce
Q 042404            9 ELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSL   86 (311)
Q Consensus         9 ~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~   86 (311)
                      +........+|..+.  +++++|+|++|.+.  .+..+.++++|+.|+|+++.++.  ++. .+.+++|+.|++.++...
T Consensus        16 ~C~~~~L~~iP~~lp--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~--l~~-~~~l~~L~~L~Ls~N~l~   90 (266)
T d1p9ag_          16 NCDKRNLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTK--LQV-DGTLPVLGTLDLSHNQLQ   90 (266)
T ss_dssp             ECTTSCCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCE--EEC-CSCCTTCCEEECCSSCCS
T ss_pred             EccCCCCCeeCcCcC--cCCCEEECcCCcCCCcCHHHhhccccccccccccccccc--ccc-cccccccccccccccccc
Confidence            333333456777664  57899999998875  23457788999999999887764  211 356889999999887532


Q ss_pred             e---EEEeCCCceEEEeecee-ee---eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeE
Q 042404           87 D---LNICAPELKYLYLEGEF-KD---IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYF  159 (311)
Q Consensus        87 ~---~~i~~~~L~~L~i~~~~-~~---~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~  159 (311)
                      .   .....++|+.|.+.++. ..   ..+...++++.+.++.+......           ...+..+++++.|++..+.
T Consensus        91 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~-----------~~~~~~l~~l~~l~l~~N~  159 (266)
T d1p9ag_          91 SLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLP-----------PGLLTPTPKLEKLSLANNN  159 (266)
T ss_dssp             SCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCC-----------TTTTTTCTTCCEEECTTSC
T ss_pred             ccccccccccccccccccccccceeeccccccccccccccccccccceec-----------cccccccccchhccccccc
Confidence            2   22234678888888742 22   22346677777777655433211           2334567778888877765


Q ss_pred             EEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcc
Q 042404          160 TKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLA  221 (311)
Q Consensus       160 ~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~  221 (311)
                      +..+..     .....+++|++|.+....+.      .++.-+...++|+.|++.+++..++
T Consensus       160 l~~~~~-----~~~~~l~~L~~L~Ls~N~L~------~lp~~~~~~~~L~~L~L~~Np~~Cd  210 (266)
T d1p9ag_         160 LTELPA-----GLLNGLENLDTLLLQENSLY------TIPKGFFGSHLLPFAFLHGNPWLCN  210 (266)
T ss_dssp             CSCCCT-----TTTTTCTTCCEEECCSSCCC------CCCTTTTTTCCCSEEECCSCCBCCS
T ss_pred             ccccCc-----cccccccccceeecccCCCc------ccChhHCCCCCCCEEEecCCCCCCC
Confidence            543211     11224677777777321111      2222334567788888887776553

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.75  E-value=1.6e-09  Score=86.41  Aligned_cols=161  Identities=18%  Similarity=0.127  Sum_probs=94.5

Q ss_pred             CCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE--EEeCCCceEEEeec
Q 042404           25 CRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL--NICAPELKYLYLEG  102 (311)
Q Consensus        25 ~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~--~i~~~~L~~L~i~~  102 (311)
                      +.+|+.|+++++.+....++..+++|++|+++++.+++-  .. ++.+++|+.|++.+|..-++  ....++|+.|.+.+
T Consensus        45 L~~L~~L~l~~~~i~~l~~l~~l~~L~~L~L~~n~i~~l--~~-~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~  121 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDI--KP-LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEH  121 (210)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCC--GG-GTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEECTT
T ss_pred             hcCccEEECcCCCCCCchhHhhCCCCCEEeCCCccccCc--cc-cccCcccccccccccccccccccccccccccccccc
Confidence            456777777777766544566677777777777766542  11 35677777777776653221  11235677777766


Q ss_pred             ee-eee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccc
Q 042404          103 EF-KDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLK  180 (311)
Q Consensus       103 ~~-~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~  180 (311)
                      +. ..+ .+..+++++.+.++.+...+             ...+..+++|+.+++..+.+..+     + .+ ..+++|+
T Consensus       122 ~~~~~~~~l~~l~~l~~l~~~~n~l~~-------------~~~~~~l~~L~~l~l~~n~l~~i-----~-~l-~~l~~L~  181 (210)
T d1h6ta2         122 NGISDINGLVHLPQLESLYLGNNKITD-------------ITVLSRLTKLDTLSLEDNQISDI-----V-PL-AGLTKLQ  181 (210)
T ss_dssp             SCCCCCGGGGGCTTCCEEECCSSCCCC-------------CGGGGGCTTCSEEECCSSCCCCC-----G-GG-TTCTTCC
T ss_pred             ccccccccccccccccccccccccccc-------------ccccccccccccccccccccccc-----c-cc-cCCCCCC
Confidence            42 222 24466777777665544321             11245677888888877654321     1 11 2467788


Q ss_pred             eEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEe
Q 042404          181 VIELYQVSFEDMKEILVVIRLITNSPNLKELHISG  215 (311)
Q Consensus       181 ~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~  215 (311)
                      +|.+..   +...   .+. -+.++++|+.|++..
T Consensus       182 ~L~Ls~---N~i~---~l~-~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         182 NLYLSK---NHIS---DLR-ALAGLKNLDVLELFS  209 (210)
T ss_dssp             EEECCS---SCCC---BCG-GGTTCTTCSEEEEEE
T ss_pred             EEECCC---CCCC---CCh-hhcCCCCCCEEEccC
Confidence            888732   2211   222 367788888888863

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.72  E-value=1.5e-09  Score=85.81  Aligned_cols=37  Identities=8%  Similarity=0.073  Sum_probs=15.6

Q ss_pred             ccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeee
Q 042404           23 FNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVL   59 (311)
Q Consensus        23 ~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~   59 (311)
                      ..+++|++|+|++|.+...+.+.++++|+.|.+.++.
T Consensus        59 ~~l~nL~~L~Ls~N~l~~~~~l~~l~~L~~L~l~~n~   95 (199)
T d2omxa2          59 EYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQ   95 (199)
T ss_dssp             GGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSC
T ss_pred             ccCCCcCcCccccccccCcccccCCcccccccccccc
Confidence            3344444444444444322223344444444444443

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.70  E-value=3.9e-10  Score=93.54  Aligned_cols=206  Identities=17%  Similarity=0.130  Sum_probs=107.9

Q ss_pred             CCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEE--EeCCCceEEEeec
Q 042404           26 RKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLN--ICAPELKYLYLEG  102 (311)
Q Consensus        26 ~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~--i~~~~L~~L~i~~  102 (311)
                      ..+...+..+..++ .|+.+.  ++|+.|+|+++.++.- ....+.++++|++|.|.++....+.  ...++|+.|.+.+
T Consensus        10 ~~~~~v~C~~~~L~~iP~~lp--~~l~~L~Ls~N~i~~l-~~~~f~~l~~L~~L~L~~N~l~~l~~~~~l~~L~~L~Ls~   86 (266)
T d1p9ag_          10 ASHLEVNCDKRNLTALPPDLP--KDTTILHLSENLLYTF-SLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSH   86 (266)
T ss_dssp             TTCCEEECTTSCCSSCCSCCC--TTCCEEECTTSCCSEE-EGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEEECCS
T ss_pred             CCCeEEEccCCCCCeeCcCcC--cCCCEEECcCCcCCCc-CHHHhhcccccccccccccccccccccccccccccccccc
Confidence            34445555555554 343331  4677888887766532 1122556778888888777533222  2346777777776


Q ss_pred             e-eee--eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCcccccc
Q 042404          103 E-FKD--IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHL  179 (311)
Q Consensus       103 ~-~~~--~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L  179 (311)
                      + ...  ..+..+++|+.+++..+......           ...+..+++++.|.+..+.+..+     +......++++
T Consensus        87 N~l~~~~~~~~~l~~L~~L~l~~~~~~~~~-----------~~~~~~l~~l~~L~l~~n~l~~l-----~~~~~~~l~~l  150 (266)
T d1p9ag_          87 NQLQSLPLLGQTLPALTVLDVSFNRLTSLP-----------LGALRGLGELQELYLKGNELKTL-----PPGLLTPTPKL  150 (266)
T ss_dssp             SCCSSCCCCTTTCTTCCEEECCSSCCCCCC-----------SSTTTTCTTCCEEECTTSCCCCC-----CTTTTTTCTTC
T ss_pred             ccccccccccccccccccccccccccceee-----------cccccccccccccccccccccee-----ccccccccccc
Confidence            4 211  12346777777777654433211           12235667777777766654322     21222245667


Q ss_pred             ceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCchhhcccccCcccccceeEEEEEe--ecCCcc
Q 042404          180 KVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTD--ISGVPH  257 (311)
Q Consensus       180 ~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~--~~g~~~  257 (311)
                      +.|.+....+..     ..+..+..+++|+.|++..+....-     +...        ..+++|+.+.+.|  +..+..
T Consensus       151 ~~l~l~~N~l~~-----~~~~~~~~l~~L~~L~Ls~N~L~~l-----p~~~--------~~~~~L~~L~L~~Np~~CdC~  212 (266)
T d1p9ag_         151 EKLSLANNNLTE-----LPAGLLNGLENLDTLLLQENSLYTI-----PKGF--------FGSHLLPFAFLHGNPWLCNCE  212 (266)
T ss_dssp             CEEECTTSCCSC-----CCTTTTTTCTTCCEEECCSSCCCCC-----CTTT--------TTTCCCSEEECCSCCBCCSGG
T ss_pred             hhcccccccccc-----cCccccccccccceeecccCCCccc-----ChhH--------CCCCCCCEEEecCCCCCCCcc
Confidence            766663211111     1123456677788887776543211     1111        1246677777665  444444


Q ss_pred             hHHHHHHHHcc
Q 042404          258 EMELIKFLLSN  268 (311)
Q Consensus       258 ~~~l~~~ll~~  268 (311)
                      ...+.+++-++
T Consensus       213 ~~~l~~wl~~~  223 (266)
T d1p9ag_         213 ILYFRRWLQDN  223 (266)
T ss_dssp             GHHHHHHHHHT
T ss_pred             hHHHHHHHHhc
Confidence            45555555444

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.64  E-value=2.6e-09  Score=89.28  Aligned_cols=180  Identities=17%  Similarity=0.081  Sum_probs=105.4

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee-EE--
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD-LN--   89 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~-~~--   89 (311)
                      ...+|..+.  +++++|+|++|.++  ++..+.+++.|+.|+++++.+..- ....+.+++.++.+.+....... +.  
T Consensus        23 L~~iP~~ip--~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i-~~~~~~~~~~~~~l~~~~~~~~~~l~~~   99 (284)
T d1ozna_          23 LQAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARI-DAAAFTGLALLEQLDLSDNAQLRSVDPA   99 (284)
T ss_dssp             CSSCCTTCC--TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEE-CTTTTTTCTTCCEEECCSCTTCCCCCTT
T ss_pred             CCccCCCCC--CCCCEEECcCCcCCCCCHHHhhcccccccccccccccccc-ccccccccccccccccccccccccccch
Confidence            456777665  56889999998875  344578889999999988876542 11234566777777665544332 11  


Q ss_pred             --EeCCCceEEEeecee-eee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEe
Q 042404           90 --ICAPELKYLYLEGEF-KDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYL  163 (311)
Q Consensus        90 --i~~~~L~~L~i~~~~-~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l  163 (311)
                        -..++|+.|.+.++. ..+   .+...++|+.+.+..+......           ...+..+++++.|++..+.++.+
T Consensus       100 ~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~-----------~~~f~~~~~L~~L~l~~N~l~~l  168 (284)
T d1ozna_         100 TFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALP-----------DDTFRDLGNLTHLFLHGNRISSV  168 (284)
T ss_dssp             TTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-----------TTTTTTCTTCCEEECCSSCCCEE
T ss_pred             hhcccccCCEEecCCcccccccccccchhcccchhhhccccccccC-----------hhHhccccchhhcccccCccccc
Confidence              123677888777742 222   2345677777777655433211           22345667788888777765543


Q ss_pred             ecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          164 SIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       164 ~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      ..+     ....+++|+.+.+.......     ..+..++.+++|+.|++..+..
T Consensus       169 ~~~-----~f~~l~~L~~l~l~~N~l~~-----i~~~~f~~l~~L~~L~l~~N~i  213 (284)
T d1ozna_         169 PER-----AFRGLHSLDRLLLHQNRVAH-----VHPHAFRDLGRLMTLYLFANNL  213 (284)
T ss_dssp             CTT-----TTTTCTTCCEEECCSSCCCE-----ECTTTTTTCTTCCEEECCSSCC
T ss_pred             chh-----hhccccccchhhhhhccccc-----cChhHhhhhhhccccccccccc
Confidence            321     11235666666662211111     1134567778888887776543

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.62  E-value=6.9e-09  Score=86.57  Aligned_cols=195  Identities=16%  Similarity=0.198  Sum_probs=124.1

Q ss_pred             CceEEEEEeCCCeeeecCC-CcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeee-eChHHHHHHHhcCccccc
Q 042404            2 DIRELVLELGEGEWFRVPS-CLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVL-VAPEAIESLISSCPLLES   77 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~-~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~-~~~~~l~~ll~~cp~Le~   77 (311)
                      ++|+|+|+....  ..+|. .+..++.|++|+++++.+.  .+..+.+++.++.+...... +..- -...+.++++|++
T Consensus        33 ~~~~L~Ls~N~i--~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l-~~~~~~~l~~L~~  109 (284)
T d1ozna_          33 ASQRIFLHGNRI--SHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSV-DPATFHGLGRLHT  109 (284)
T ss_dssp             TCSEEECTTSCC--CEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCC-CTTTTTTCTTCCE
T ss_pred             CCCEEECcCCcC--CCCCHHHhhccccccccccccccccccccccccccccccccccccccccccc-cchhhcccccCCE
Confidence            567777665543  46675 4667889999999988765  33445667788877665432 2221 1223668899999


Q ss_pred             ccccccccee----EEEeCCCceEEEeece-eeee---eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCc
Q 042404           78 LSLSYFDSLD----LNICAPELKYLYLEGE-FKDI---HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPH  149 (311)
Q Consensus        78 L~l~~c~~~~----~~i~~~~L~~L~i~~~-~~~~---~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  149 (311)
                      |++..+....    .....++|+.+.+.++ ...+   .+...++|+.+++..+......           ...+.++++
T Consensus       110 L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~-----------~~~f~~l~~  178 (284)
T d1ozna_         110 LHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVP-----------ERAFRGLHS  178 (284)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEEC-----------TTTTTTCTT
T ss_pred             EecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCcccccc-----------hhhhccccc
Confidence            9999876432    2223457888888874 3333   2456788888887765433211           234578889


Q ss_pred             ceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCc
Q 042404          150 LEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTL  220 (311)
Q Consensus       150 l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~  220 (311)
                      |+.+.+..+.+..+..    ..+ ..+++|++|.+..-.+..     .....++.+++|+.|++..++..+
T Consensus       179 L~~l~l~~N~l~~i~~----~~f-~~l~~L~~L~l~~N~i~~-----~~~~~~~~~~~L~~L~l~~N~l~C  239 (284)
T d1ozna_         179 LDRLLLHQNRVAHVHP----HAF-RDLGRLMTLYLFANNLSA-----LPTEALAPLRALQYLRLNDNPWVC  239 (284)
T ss_dssp             CCEEECCSSCCCEECT----TTT-TTCTTCCEEECCSSCCSC-----CCHHHHTTCTTCCEEECCSSCEEC
T ss_pred             cchhhhhhccccccCh----hHh-hhhhhccccccccccccc-----ccccccccccccCEEEecCCCCCC
Confidence            9999998776554332    222 246788888884322222     224567889999999998776543

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.59  E-value=7.9e-09  Score=83.26  Aligned_cols=180  Identities=18%  Similarity=0.123  Sum_probs=111.4

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|.+.-+..  ..++ .+..+++|++|+|++|.+.....+..+++|+.+.++++.++.  +.. +..+++|+.|.+.
T Consensus        42 ~L~~L~l~~~~i--~~l~-~l~~l~~L~~L~ls~n~i~~~~~l~~l~~l~~l~~~~n~~~~--i~~-l~~l~~L~~l~l~  115 (227)
T d1h6ua2          42 GITTLSAFGTGV--TTIE-GVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKN--VSA-IAGLQSIKTLDLT  115 (227)
T ss_dssp             TCCEEECTTSCC--CCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSC--CGG-GTTCTTCCEEECT
T ss_pred             CcCEEECCCCCC--Ccch-hHhcCCCCcEeecCCceeeccccccccccccccccccccccc--ccc-ccccccccccccc
Confidence            466676654433  3454 578899999999999988755557889999999999887654  222 5689999999998


Q ss_pred             ccccee--EEEeCCCceEEEeecee--eeeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEee
Q 042404           82 YFDSLD--LNICAPELKYLYLEGEF--KDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYI  157 (311)
Q Consensus        82 ~c~~~~--~~i~~~~L~~L~i~~~~--~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~  157 (311)
                      +|....  -....+.++.+.+.++.  ....+..+++|+.+.+..+...+             ...++++++|+.|++++
T Consensus       116 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~-------------~~~l~~l~~L~~L~Ls~  182 (227)
T d1h6ua2         116 STQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSD-------------LTPLANLSKLTTLKADD  182 (227)
T ss_dssp             TSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCC-------------CGGGTTCTTCCEEECCS
T ss_pred             cccccccchhccccchhhhhchhhhhchhhhhcccccccccccccccccc-------------chhhcccccceecccCC
Confidence            886543  11234566666665531  12234567777777765543321             11146777788887776


Q ss_pred             eEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEE
Q 042404          158 YFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHIS  214 (311)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~  214 (311)
                      +.++.+     + .+ ..+++|++|.+...   ...   .++ -++++++|+.|++.
T Consensus       183 n~l~~l-----~-~l-~~l~~L~~L~Ls~N---~lt---~i~-~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         183 NKISDI-----S-PL-ASLPNLIEVHLKNN---QIS---DVS-PLANTSNLFIVTLT  225 (227)
T ss_dssp             SCCCCC-----G-GG-GGCTTCCEEECTTS---CCC---BCG-GGTTCTTCCEEEEE
T ss_pred             CccCCC-----h-hh-cCCCCCCEEECcCC---cCC---CCc-ccccCCCCCEEEee
Confidence            644321     1 11 24667777776321   111   111 26677777777765

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=98.58  E-value=6.2e-09  Score=88.06  Aligned_cols=204  Identities=19%  Similarity=0.153  Sum_probs=119.5

Q ss_pred             CceEEEEEeCCC-eeeecCCCcccCCCCcEEEccc-eee--CCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccc
Q 042404            2 DIRELVLELGEG-EWFRVPSCLFNCRKLTRLELFR-CEF--DPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLES   77 (311)
Q Consensus         2 ~v~~L~l~~~~~-~~~~lp~~~~~~~~L~~L~L~~-~~l--~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~   77 (311)
                      +|.+|+|.-... ....+|..++++++|++|+|++ +.+  ..|+.+.++++|++|+|+++.+.+. ....+..++.|+.
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~-~~~~~~~~~~L~~  129 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGA-IPDFLSQIKTLVT  129 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEE-CCGGGGGCTTCCE
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhcccccccc-ccccccchhhhcc
Confidence            588888875432 3468999999999999999986 455  3677889999999999999987653 2234667899999


Q ss_pred             ccccccccee-E---EEeCCCceEEEeecee-e-ee--eecCCCCc-ceeEEEEEEccccch-hh--------c---ccc
Q 042404           78 LSLSYFDSLD-L---NICAPELKYLYLEGEF-K-DI--HLESTPLL-VSMSIAMYMTDDIAE-HF--------E---QSS  136 (311)
Q Consensus        78 L~l~~c~~~~-~---~i~~~~L~~L~i~~~~-~-~~--~i~~~p~L-~~l~l~~~~~~~~~~-~~--------~---~~~  136 (311)
                      +.+..+.... +   .-..++|+.+.+.++. . .+  .+...+.+ +.+.+..+...+... .+        .   ...
T Consensus       130 l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~  209 (313)
T d1ogqa_         130 LDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNML  209 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEE
T ss_pred             cccccccccccCchhhccCcccceeecccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9998876433 1   1134678888887742 2 11  12234443 444443322211100 00        0   000


Q ss_pred             cchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEec
Q 042404          137 SCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGS  216 (311)
Q Consensus       137 ~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~  216 (311)
                      .......+..+++++.+.+..+.+..    ..+ .+. .+++|+.|.+..   +...+  .++..+.++|+|+.|+++.+
T Consensus       210 ~~~~~~~~~~~~~l~~l~~~~~~l~~----~~~-~~~-~~~~L~~L~Ls~---N~l~g--~iP~~l~~L~~L~~L~Ls~N  278 (313)
T d1ogqa_         210 EGDASVLFGSDKNTQKIHLAKNSLAF----DLG-KVG-LSKNLNGLDLRN---NRIYG--TLPQGLTQLKFLHSLNVSFN  278 (313)
T ss_dssp             EECCGGGCCTTSCCSEEECCSSEECC----BGG-GCC-CCTTCCEEECCS---SCCEE--CCCGGGGGCTTCCEEECCSS
T ss_pred             cccccccccccccccccccccccccc----ccc-ccc-cccccccccCcc---Ceecc--cCChHHhCCCCCCEEECcCC
Confidence            11123344566667777766554321    111 111 356677777632   22111  34455677788888887765


Q ss_pred             c
Q 042404          217 S  217 (311)
Q Consensus       217 ~  217 (311)
                      .
T Consensus       279 ~  279 (313)
T d1ogqa_         279 N  279 (313)
T ss_dssp             E
T ss_pred             c
Confidence            4

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.56  E-value=1e-08  Score=81.63  Aligned_cols=157  Identities=23%  Similarity=0.213  Sum_probs=111.1

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      .+++|++.-+..  ..++ .+..+++|++|+|++|.+...+.+..+++|+.|+++++.+++  ++. +..+++|+.|.+.
T Consensus        47 ~L~~L~l~~~~i--~~l~-~l~~l~~L~~L~L~~n~i~~l~~~~~l~~L~~L~l~~n~i~~--l~~-l~~l~~L~~L~l~  120 (210)
T d1h6ta2          47 SIDQIIANNSDI--KSVQ-GIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKD--LSS-LKDLKKLKSLSLE  120 (210)
T ss_dssp             TCCEEECTTSCC--CCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCC--GGG-GTTCTTCCEEECT
T ss_pred             CccEEECcCCCC--CCch-hHhhCCCCCEEeCCCccccCccccccCccccccccccccccc--ccc-ccccccccccccc
Confidence            355666543332  2343 477899999999999988754557789999999999998875  332 6789999999999


Q ss_pred             ccccee--EEEeCCCceEEEeecee-ee-eeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEee
Q 042404           82 YFDSLD--LNICAPELKYLYLEGEF-KD-IHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYI  157 (311)
Q Consensus        82 ~c~~~~--~~i~~~~L~~L~i~~~~-~~-~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~  157 (311)
                      +|....  -....++|+.+.+.++. .. ..+..+++|+.+.+..+...+            +.. +..+++|+.|+++.
T Consensus       121 ~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~~~~~l~~L~~l~l~~n~l~~------------i~~-l~~l~~L~~L~Ls~  187 (210)
T d1h6ta2         121 HNGISDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISD------------IVP-LAGLTKLQNLYLSK  187 (210)
T ss_dssp             TSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCC------------CGG-GTTCTTCCEEECCS
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccc------------ccc-ccCCCCCCEEECCC
Confidence            987543  12234688888887752 22 224478889998887665432            122 57899999999998


Q ss_pred             eEEEEeecCCCCCCCCccccccceEEE
Q 042404          158 YFTKYLSIGDDPGRLPITYNHLKVIEL  184 (311)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~f~~L~~L~l  184 (311)
                      +.++.+     + .+. .+++|++|.+
T Consensus       188 N~i~~l-----~-~l~-~l~~L~~L~L  207 (210)
T d1h6ta2         188 NHISDL-----R-ALA-GLKNLDVLEL  207 (210)
T ss_dssp             SCCCBC-----G-GGT-TCTTCSEEEE
T ss_pred             CCCCCC-----h-hhc-CCCCCCEEEc
Confidence            876543     2 122 5788999988

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.54  E-value=2.2e-08  Score=84.27  Aligned_cols=67  Identities=21%  Similarity=0.117  Sum_probs=45.5

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC-CC-CCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD-PP-LTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~-~~-~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ...+|..+.  +++++|+|++|.++ .| .++.++++|++|++.++.+..- .+..+.+++.|+.|++.++.
T Consensus        22 L~~lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i-~~~~f~~l~~L~~L~l~~n~   90 (305)
T d1xkua_          22 LEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKI-SPGAFAPLVKLERLYLSKNQ   90 (305)
T ss_dssp             CCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCB-CTTTTTTCTTCCEEECCSSC
T ss_pred             CCccCCCCC--CCCCEEECcCCcCCCcChhHhhcccccccccccccccccc-chhhhhCCCccCEecccCCc
Confidence            456777664  57888888888775 33 3567788888888888776532 12335678888888887653

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.44  E-value=2e-08  Score=86.85  Aligned_cols=169  Identities=17%  Similarity=0.129  Sum_probs=94.7

Q ss_pred             CCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE--EEeCCCce
Q 042404           19 PSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL--NICAPELK   96 (311)
Q Consensus        19 p~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~--~i~~~~L~   96 (311)
                      +.....++++..|.++++.+.........++|++|++.++.+.+-  + .+..+++|+.|.+.+|...++  ....++|+
T Consensus       190 ~~~~~~l~~~~~l~l~~n~i~~~~~~~~~~~L~~L~l~~n~l~~~--~-~l~~l~~L~~L~l~~n~l~~~~~~~~~~~L~  266 (384)
T d2omza2         190 ISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDI--G-TLASLTNLTDLDLANNQISNLAPLSGLTKLT  266 (384)
T ss_dssp             CGGGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCC--G-GGGGCTTCSEEECCSSCCCCCGGGTTCTTCS
T ss_pred             ccccccccccceeeccCCccCCCCcccccCCCCEEECCCCCCCCc--c-hhhcccccchhccccCccCCCCcccccccCC
Confidence            344556677777777777665333345567777777777766542  1 245677777777777653321  11235777


Q ss_pred             EEEeece-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCc
Q 042404           97 YLYLEGE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPI  174 (311)
Q Consensus        97 ~L~i~~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~  174 (311)
                      .|.+.++ ...+ .+...+.++.+.+..+...+             ...+..+++++.|++..+.+..+     + . ..
T Consensus       267 ~L~l~~~~l~~~~~~~~~~~l~~l~~~~n~l~~-------------~~~~~~~~~l~~L~ls~n~l~~l-----~-~-l~  326 (384)
T d2omza2         267 ELKLGANQISNISPLAGLTALTNLELNENQLED-------------ISPISNLKNLTYLTLYFNNISDI-----S-P-VS  326 (384)
T ss_dssp             EEECCSSCCCCCGGGTTCTTCSEEECCSSCCSC-------------CGGGGGCTTCSEEECCSSCCSCC-----G-G-GG
T ss_pred             EeeccCcccCCCCcccccccccccccccccccc-------------ccccchhcccCeEECCCCCCCCC-----c-c-cc
Confidence            7777663 2221 23455556655554333221             11245667777777776644321     1 1 23


Q ss_pred             cccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEecc
Q 042404          175 TYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSS  217 (311)
Q Consensus       175 ~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~  217 (311)
                      .+++|++|.+....+..      +. .+.++|+|+.|++..++
T Consensus       327 ~l~~L~~L~L~~n~l~~------l~-~l~~l~~L~~L~l~~N~  362 (384)
T d2omza2         327 SLTKLQRLFFANNKVSD------VS-SLANLTNINWLSAGHNQ  362 (384)
T ss_dssp             GCTTCCEEECCSSCCCC------CG-GGGGCTTCCEEECCSSC
T ss_pred             cCCCCCEEECCCCCCCC------Ch-hHcCCCCCCEEECCCCc
Confidence            57777877773321111      22 25677888888887654

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.44  E-value=9e-09  Score=78.47  Aligned_cols=122  Identities=15%  Similarity=0.119  Sum_probs=64.8

Q ss_pred             ccCCCCcEEEccceeeCCCCC-CCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE----EEeCCCceE
Q 042404           23 FNCRKLTRLELFRCEFDPPLT-FTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL----NICAPELKY   97 (311)
Q Consensus        23 ~~~~~L~~L~L~~~~l~~~~~-~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~----~i~~~~L~~   97 (311)
                      .++.+|+.|+|++|.++..+. +.++++|+.|+|+++.+..  ++. +..+|+|++|.+++|....+    ....|+|+.
T Consensus        15 ~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~--l~~-~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~   91 (162)
T d1a9na_          15 TNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRK--LDG-FPLLRRLKTLLVNNNRICRIGEGLDQALPDLTE   91 (162)
T ss_dssp             ECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCE--ECC-CCCCSSCCEEECCSSCCCEECSCHHHHCTTCCE
T ss_pred             cCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCc--cCC-cccCcchhhhhcccccccCCCcccccccccccc
Confidence            445566666666666543222 2456666666666665543  111 34566666666666653321    113456666


Q ss_pred             EEeece-ee---ee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEE
Q 042404           98 LYLEGE-FK---DI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVG  155 (311)
Q Consensus        98 L~i~~~-~~---~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l  155 (311)
                      |.+.++ ..   .+ .+..+|+|+.+.++++......        .-....+..+|+|+.|+.
T Consensus        92 L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~--------~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          92 LILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKK--------HYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGST--------THHHHHHHHCTTCSEETT
T ss_pred             ceeccccccccccccccccccccchhhcCCCcccccc--------chHHHHHHHCCCcCeeCC
Confidence            666664 11   11 2446788888887765432210        001234567788887764

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.38  E-value=1.1e-08  Score=87.81  Aligned_cols=252  Identities=14%  Similarity=0.075  Sum_probs=152.0

Q ss_pred             ecCCCcccCCCCcEEEccceeeCC------CCCCCCCCcccEEEeeeeeeC------h---HHHHHHHhcCccccccccc
Q 042404           17 RVPSCLFNCRKLTRLELFRCEFDP------PLTFTGFPCLRSLNLHQVLVA------P---EAIESLISSCPLLESLSLS   81 (311)
Q Consensus        17 ~lp~~~~~~~~L~~L~L~~~~l~~------~~~~~~l~~L~~L~L~~~~~~------~---~~l~~ll~~cp~Le~L~l~   81 (311)
                      .+...+....+|+.|+|++|.+.+      ...+...++|+.|.+.++...      .   ..+...+..|++|++|+|.
T Consensus        22 ~l~~~L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~  101 (344)
T d2ca6a1          22 SVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLS  101 (344)
T ss_dssp             TTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECC
T ss_pred             HHHHHHhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccc
Confidence            455566678999999999987742      223567889999999876432      1   1344556779999999999


Q ss_pred             ccccee--------EEEeCCCceEEEeecee-ee-----e-----------eecCCCCcceeEEEEEEccccchhhcccc
Q 042404           82 YFDSLD--------LNICAPELKYLYLEGEF-KD-----I-----------HLESTPLLVSMSIAMYMTDDIAEHFEQSS  136 (311)
Q Consensus        82 ~c~~~~--------~~i~~~~L~~L~i~~~~-~~-----~-----------~i~~~p~L~~l~l~~~~~~~~~~~~~~~~  136 (311)
                      +|..-.        .-...++|+.|.+.++. ..     +           .....+.|+.+.++.+....       ..
T Consensus       102 ~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~-------~~  174 (344)
T d2ca6a1         102 DNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLEN-------GS  174 (344)
T ss_dssp             SCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTG-------GG
T ss_pred             ccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccc-------cc
Confidence            885311        11245789999998752 11     0           01256677777765543221       11


Q ss_pred             cchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEec
Q 042404          137 SCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGS  216 (311)
Q Consensus       137 ~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~  216 (311)
                      ...+...+...+.++.|++..+.+..-............+++|++|.+.. +.-...+...+...+..+|+|++|++..+
T Consensus       175 ~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~-N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n  253 (344)
T d2ca6a1         175 MKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQD-NTFTHLGSSALAIALKSWPNLRELGLNDC  253 (344)
T ss_dssp             HHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCS-SCCHHHHHHHHHHHGGGCTTCCEEECTTC
T ss_pred             cccccchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccc-ccccccccccccccccccccchhhhhhcC
Confidence            12345556778899999998765432110000111233578899999832 22233456678888999999999999866


Q ss_pred             cCCcccccCCCchhhcccccCcccccceeEEEEEeecCC-cchHHHHHHHHccCcccceEEEEeccc
Q 042404          217 SNTLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDISGV-PHEMELIKFLLSNSPVLEIMSITPCTF  282 (311)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~~~g~-~~~~~l~~~ll~~a~~Le~l~i~~~~~  282 (311)
                      .-.....    ....+.-  ..+....|+.+.+.+-.-. +....+++.+..+.+.|+++.+.....
T Consensus       254 ~i~~~g~----~~l~~~l--~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~  314 (344)
T d2ca6a1         254 LLSARGA----AAVVDAF--SKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRF  314 (344)
T ss_dssp             CCCHHHH----HHHHHHH--HTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBS
T ss_pred             ccCchhh----HHHHHHh--hhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCcC
Confidence            4321100    1111110  1122366888877653222 233445666666889999998865443

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=98.36  E-value=4.9e-08  Score=82.39  Aligned_cols=97  Identities=16%  Similarity=0.152  Sum_probs=71.5

Q ss_pred             CCcEEEccceeeC----CCCCCCCCCcccEEEeeee-eeChHHHHHHHhcCcccccccccccccee----EEEeCCCceE
Q 042404           27 KLTRLELFRCEFD----PPLTFTGFPCLRSLNLHQV-LVAPEAIESLISSCPLLESLSLSYFDSLD----LNICAPELKY   97 (311)
Q Consensus        27 ~L~~L~L~~~~l~----~~~~~~~l~~L~~L~L~~~-~~~~~~l~~ll~~cp~Le~L~l~~c~~~~----~~i~~~~L~~   97 (311)
                      +++.|+|+++.+.    .|+.+.++++|++|+|+++ .+.+. ++.-++++++|++|+|.++....    .....++|+.
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~-iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~  129 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGP-IPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESC-CCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccc-cccccccccccchhhhccccccccccccccchhhhcc
Confidence            6899999998764    5677889999999999974 45543 44457899999999999987543    1223467889


Q ss_pred             EEeeceee--e--eeecCCCCcceeEEEEEE
Q 042404           98 LYLEGEFK--D--IHLESTPLLVSMSIAMYM  124 (311)
Q Consensus        98 L~i~~~~~--~--~~i~~~p~L~~l~l~~~~  124 (311)
                      +.+..+..  .  -.+..++.++.++++.+.
T Consensus       130 l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~  160 (313)
T d1ogqa_         130 LDFSYNALSGTLPPSISSLPNLVGITFDGNR  160 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCEEECCSSC
T ss_pred             cccccccccccCchhhccCcccceeeccccc
Confidence            88887521  1  235678888888876654

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.31  E-value=2.2e-08  Score=84.20  Aligned_cols=237  Identities=16%  Similarity=0.084  Sum_probs=133.7

Q ss_pred             CceEEEEEeCCCeeeecCC-CcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPS-CLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~-~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      +++.|+|.-...  ..+|. ++.++++|++|+++++.+.  .|..+.++++|++|++.++.++.-  +  ...++.|+.|
T Consensus        32 ~l~~L~Ls~N~i--~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l~~l--~--~~~~~~l~~L  105 (305)
T d1xkua_          32 DTALLDLQNNKI--TEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKEL--P--EKMPKTLQEL  105 (305)
T ss_dssp             TCCEEECCSSCC--CCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSBC--C--SSCCTTCCEE
T ss_pred             CCCEEECcCCcC--CCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCccCcC--c--cchhhhhhhh
Confidence            577888766643  57876 5678899999999998875  355688899999999999876542  1  1235678888


Q ss_pred             cccccccee----EEEeCCCceEEEeecee---e---eeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCC
Q 042404           79 SLSYFDSLD----LNICAPELKYLYLEGEF---K---DIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVP  148 (311)
Q Consensus        79 ~l~~c~~~~----~~i~~~~L~~L~i~~~~---~---~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~  148 (311)
                      .+..+....    .....+.+..+.+....   .   ...+..+++|+.+.+..+.....            .  ....+
T Consensus       106 ~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l------------~--~~~~~  171 (305)
T d1xkua_         106 RVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTI------------P--QGLPP  171 (305)
T ss_dssp             ECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSC------------C--SSCCT
T ss_pred             hccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCcccc------------C--cccCC
Confidence            777654322    11122344555554421   1   11234566777776655433211            0  12356


Q ss_pred             cceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccCCcccccCCCc
Q 042404          149 HLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSNTLAAIEAPDL  228 (311)
Q Consensus       149 ~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~~~~~~~~~~~  228 (311)
                      +++.|++..+.......    ... ..+++++.|.+..   +...+  .....+.++|+|++|++..+.....     +.
T Consensus       172 ~L~~L~l~~n~~~~~~~----~~~-~~~~~l~~L~~s~---n~l~~--~~~~~~~~l~~L~~L~L~~N~L~~l-----p~  236 (305)
T d1xkua_         172 SLTELHLDGNKITKVDA----ASL-KGLNNLAKLGLSF---NSISA--VDNGSLANTPHLRELHLNNNKLVKV-----PG  236 (305)
T ss_dssp             TCSEEECTTSCCCEECT----GGG-TTCTTCCEEECCS---SCCCE--ECTTTGGGSTTCCEEECCSSCCSSC-----CT
T ss_pred             ccCEEECCCCcCCCCCh----hHh-hcccccccccccc---ccccc--cccccccccccceeeeccccccccc-----cc
Confidence            78888887654332211    111 2356677777622   11111  1134567899999999987643211     11


Q ss_pred             hhhcccccCcccccceeEEEEEe--ecCCcchHHHHHHHHccCcccceEEEEecc
Q 042404          229 DFWEKECHADCSFKQLKLVKMTD--ISGVPHEMELIKFLLSNSPVLEIMSITPCT  281 (311)
Q Consensus       229 ~~~~~~~~~~~~~~~Lk~v~i~~--~~g~~~~~~l~~~ll~~a~~Le~l~i~~~~  281 (311)
                      .       . ..+++|+.+.+.+  ...-+.+.-.-..+....++|+.+.+...+
T Consensus       237 ~-------l-~~l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         237 G-------L-ADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             T-------T-TTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             c-------c-ccccCCCEEECCCCccCccChhhccCcchhcccCCCCEEECCCCc
Confidence            1       1 1257888887764  211111100011234567789999887554

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.29  E-value=9.6e-08  Score=69.13  Aligned_cols=83  Identities=20%  Similarity=0.281  Sum_probs=58.9

Q ss_pred             eecCCCcccCCCCcEEEccceeeC-CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee---E--E
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFD-PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD---L--N   89 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~-~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~---~--~   89 (311)
                      ..+| .+..+++|++|++++|.+. .|+.+..+++|++|+++++.++.-  +. +..+|+|++|.+.++..-.   +  .
T Consensus        11 ~~l~-~l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l--~~-~~~l~~L~~L~l~~N~i~~~~~~~~l   86 (124)
T d1dcea3          11 TVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV--DG-VANLPRLQELLLCNNRLQQSAAIQPL   86 (124)
T ss_dssp             SSCC-CGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCC--GG-GTTCSSCCEEECCSSCCCSSSTTGGG
T ss_pred             CCCc-ccccCCCCCEEECCCCccCcchhhhhhhhccccccccccccccc--Cc-cccccccCeEECCCCccCCCCCchhh
Confidence            3444 4788899999999999886 455677899999999999987652  22 6689999999998875321   1  1


Q ss_pred             EeCCCceEEEeec
Q 042404           90 ICAPELKYLYLEG  102 (311)
Q Consensus        90 i~~~~L~~L~i~~  102 (311)
                      ...|+|+.+.+.+
T Consensus        87 ~~~~~L~~L~l~~   99 (124)
T d1dcea3          87 VSCPRLVLLNLQG   99 (124)
T ss_dssp             GGCTTCCEEECTT
T ss_pred             cCCCCCCEEECCC
Confidence            1235566666655

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.19  E-value=4.2e-08  Score=71.08  Aligned_cols=101  Identities=15%  Similarity=0.073  Sum_probs=68.0

Q ss_pred             cEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCCceEEEeeceeeeee
Q 042404           29 TRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPELKYLYLEGEFKDIH  108 (311)
Q Consensus        29 ~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~L~~L~i~~~~~~~~  108 (311)
                      |+|+|+++.++..+.+.++++|+.|+++++.+..  ++..++.+++|+.|.++++..          +.      .+  .
T Consensus         1 R~L~Ls~n~l~~l~~l~~l~~L~~L~ls~N~l~~--lp~~~~~l~~L~~L~l~~N~i----------~~------l~--~   60 (124)
T d1dcea3           1 RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRA--LPPALAALRCLEVLQASDNAL----------EN------VD--G   60 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCC--CCGGGGGCTTCCEEECCSSCC----------CC------CG--G
T ss_pred             CEEEcCCCCCCCCcccccCCCCCEEECCCCccCc--chhhhhhhhcccccccccccc----------cc------cC--c
Confidence            6899999999866678899999999999998864  333367889999999987642          11      01  1


Q ss_pred             ecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeE
Q 042404          109 LESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYF  159 (311)
Q Consensus       109 i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~  159 (311)
                      +..+|+|+.++++.+...+..         . ...+..+++++.|++.++.
T Consensus        61 ~~~l~~L~~L~l~~N~i~~~~---------~-~~~l~~~~~L~~L~l~~N~  101 (124)
T d1dcea3          61 VANLPRLQELLLCNNRLQQSA---------A-IQPLVSCPRLVLLNLQGNS  101 (124)
T ss_dssp             GTTCSSCCEEECCSSCCCSSS---------T-TGGGGGCTTCCEEECTTSG
T ss_pred             cccccccCeEECCCCccCCCC---------C-chhhcCCCCCCEEECCCCc
Confidence            346677777777655433210         1 1224567777777776654

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.19  E-value=1.8e-07  Score=80.76  Aligned_cols=165  Identities=16%  Similarity=0.169  Sum_probs=115.3

Q ss_pred             cccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeE--EEeCCCceEEE
Q 042404           22 LFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDL--NICAPELKYLY   99 (311)
Q Consensus        22 ~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~--~i~~~~L~~L~   99 (311)
                      ...+++|+.|+++++.+..++.+..+++|+.|.+.++.+.+-.  . +..+++|+.|.+.++....+  ....+.++.+.
T Consensus       215 ~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~--~-~~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~  291 (384)
T d2omza2         215 LGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLA--P-LSGLTKLTELKLGANQISNISPLAGLTALTNLE  291 (384)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCG--G-GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEE
T ss_pred             ccccCCCCEEECCCCCCCCcchhhcccccchhccccCccCCCC--c-ccccccCCEeeccCcccCCCCcccccccccccc
Confidence            4567899999999999887667788999999999999876531  1 67899999999988764321  11235667777


Q ss_pred             eece-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCcccc
Q 042404          100 LEGE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYN  177 (311)
Q Consensus       100 i~~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~  177 (311)
                      ...+ ...+ .+..+++++.++++.+...+.            . .+..+++|+.|+++++.++.+     + .+. .++
T Consensus       292 ~~~n~l~~~~~~~~~~~l~~L~ls~n~l~~l------------~-~l~~l~~L~~L~L~~n~l~~l-----~-~l~-~l~  351 (384)
T d2omza2         292 LNENQLEDISPISNLKNLTYLTLYFNNISDI------------S-PVSSLTKLQRLFFANNKVSDV-----S-SLA-NLT  351 (384)
T ss_dssp             CCSSCCSCCGGGGGCTTCSEEECCSSCCSCC------------G-GGGGCTTCCEEECCSSCCCCC-----G-GGG-GCT
T ss_pred             ccccccccccccchhcccCeEECCCCCCCCC------------c-ccccCCCCCEEECCCCCCCCC-----h-hHc-CCC
Confidence            7664 2222 355788899998876654321            1 257889999999998865532     1 222 578


Q ss_pred             ccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEec
Q 042404          178 HLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGS  216 (311)
Q Consensus       178 ~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~  216 (311)
                      +|++|.+..   +...+   +.. +.++|+|+.|+|..+
T Consensus       352 ~L~~L~l~~---N~l~~---l~~-l~~l~~L~~L~L~~N  383 (384)
T d2omza2         352 NINWLSAGH---NQISD---LTP-LANLTRITQLGLNDQ  383 (384)
T ss_dssp             TCCEEECCS---SCCCB---CGG-GTTCTTCSEEECCCE
T ss_pred             CCCEEECCC---CcCCC---Chh-hccCCCCCEeeCCCC
Confidence            899999833   22222   222 788999999998743

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.18  E-value=4.3e-08  Score=77.19  Aligned_cols=114  Identities=20%  Similarity=0.180  Sum_probs=75.5

Q ss_pred             eecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccccccceeEEEeCCCc
Q 042404           16 FRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLDLNICAPEL   95 (311)
Q Consensus        16 ~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~~~i~~~~L   95 (311)
                      ..+|.++..+++|++|+|++|.+...+.+.++++|+.|+|++|.+..  ++.+...+++|+.|.+.++..          
T Consensus        38 ~~l~~sl~~L~~L~~L~Ls~n~I~~i~~l~~l~~L~~L~Ls~N~i~~--i~~~~~~~~~L~~L~l~~N~i----------  105 (198)
T d1m9la_          38 EKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKK--IENLDAVADTLEELWISYNQI----------  105 (198)
T ss_dssp             CCCHHHHHHTTTCCEEECSEEEESCCCCHHHHTTCCEEECCEEEECS--CSSHHHHHHHCCEEECSEEEC----------
T ss_pred             hhhhhHHhcccccceeECcccCCCCcccccCCccccChhhccccccc--ccccccccccccccccccccc----------
Confidence            34556677788899999998888765567788889999998888764  223334466777777776531          


Q ss_pred             eEEEeeceeeeeeecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeE
Q 042404           96 KYLYLEGEFKDIHLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYF  159 (311)
Q Consensus        96 ~~L~i~~~~~~~~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~  159 (311)
                      ..      ..  .+..+++|+.++++.+...+.          .-...+..+++|+.|++.++.
T Consensus       106 ~~------l~--~~~~l~~L~~L~L~~N~i~~~----------~~~~~l~~l~~L~~L~L~~N~  151 (198)
T d1m9la_         106 AS------LS--GIEKLVNLRVLYMSNNKITNW----------GEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             CC------HH--HHHHHHHSSEEEESEEECCCH----------HHHHHHTTTTTCSEEEECSSH
T ss_pred             cc------cc--cccccccccccccccchhccc----------cccccccCCCccceeecCCCc
Confidence            00      00  134677788888877764321          112346788888888887653

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.12  E-value=9.4e-08  Score=72.62  Aligned_cols=114  Identities=17%  Similarity=0.089  Sum_probs=63.9

Q ss_pred             ceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccc
Q 042404            3 IRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSY   82 (311)
Q Consensus         3 v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~   82 (311)
                      +++|+|+....  ..+|.-...+++|++|+|++|.+...+++.++++|++|++++|.+..- .+.++.++|+|++|++.+
T Consensus        20 lr~L~L~~n~I--~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i~~l-~~~~~~~l~~L~~L~L~~   96 (162)
T d1a9na_          20 DRELDLRGYKI--PVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRI-GEGLDQALPDLTELILTN   96 (162)
T ss_dssp             CEEEECTTSCC--CSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEE-CSCHHHHCTTCCEEECCS
T ss_pred             CcEEECCCCCC--CccCccccccccCCEEECCCCCCCccCCcccCcchhhhhcccccccCC-Cccccccccccccceecc
Confidence            45666554433  344543445677777777777665334466677777777777765531 112234577777777776


Q ss_pred             cccee---E--EEeCCCceEEEeecee-ee------eeecCCCCcceeE
Q 042404           83 FDSLD---L--NICAPELKYLYLEGEF-KD------IHLESTPLLVSMS  119 (311)
Q Consensus        83 c~~~~---~--~i~~~~L~~L~i~~~~-~~------~~i~~~p~L~~l~  119 (311)
                      |..-.   +  --..|+|+++.+.++. ..      ..+..+|+|+.++
T Consensus        97 N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          97 NSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             CCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             ccccccccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeC
Confidence            64221   1  1134677777777641 11      1234567776664

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.11  E-value=8.2e-07  Score=71.61  Aligned_cols=182  Identities=16%  Similarity=0.141  Sum_probs=103.6

Q ss_pred             eeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccccee-----
Q 042404           15 WFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFDSLD-----   87 (311)
Q Consensus        15 ~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~~~~-----   87 (311)
                      ...+|..+.  +++++|+|+++.+.  .+..+.++++|++|+++++.+...--...+.+++.+++|.+..+..+.     
T Consensus        20 l~~iP~~l~--~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~   97 (242)
T d1xwdc1          20 VTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPE   97 (242)
T ss_dssp             CSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTT
T ss_pred             CCCcCCCCC--CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccccccc
Confidence            346777665  57999999998876  334578899999999999865432111225578999999888765433     


Q ss_pred             EEEeCCCceEEEeece-eeee-eecCCCCcceeEEEEEEccccchhhcccccchHHHHhcCC-CcceEEEEeeeEEEEee
Q 042404           88 LNICAPELKYLYLEGE-FKDI-HLESTPLLVSMSIAMYMTDDIAEHFEQSSSCNFLKILGGV-PHLEKLVGYIYFTKYLS  164 (311)
Q Consensus        88 ~~i~~~~L~~L~i~~~-~~~~-~i~~~p~L~~l~l~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~l~~L~l~~~~~~~l~  164 (311)
                      .....++|+.+.+.++ .... .....+++..+...........       ... ...+.++ ..+..|++..+.+..+.
T Consensus        98 ~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~-------~i~-~~~~~~~~~~l~~L~l~~n~l~~i~  169 (242)
T d1xwdc1          98 AFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIH-------TIE-RNSFVGLSFESVILWLNKNGIQEIH  169 (242)
T ss_dssp             SEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCC-------EEC-TTSSTTSBSSCEEEECCSSCCCEEC
T ss_pred             cccccccccccccchhhhcccccccccccccccccccccccccc-------ccc-ccccccccccceeeecccccccccc
Confidence            3345689999999885 3222 2224555555554443322110       000 1112333 36777887766554432


Q ss_pred             cCCCCCCCCccccccceEEEeeeecCCHHHHHHH-HHHHhcCCCcceEEEEecc
Q 042404          165 IGDDPGRLPITYNHLKVIELYQVSFEDMKEILVV-IRLITNSPNLKELHISGSS  217 (311)
Q Consensus       165 ~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l-~~~l~~~p~L~~L~i~~~~  217 (311)
                      ...      ...+++.++..  ...+.   +..+ ...++++++|+.|++..+.
T Consensus       170 ~~~------~~~~~l~~~~~--l~~n~---l~~l~~~~f~~l~~L~~L~Ls~N~  212 (242)
T d1xwdc1         170 NCA------FNGTQLDELNL--SDNNN---LEELPNDVFHGASGPVILDISRTR  212 (242)
T ss_dssp             TTT------TTTCCEEEEEC--TTCTT---CCCCCTTTTTTSCCCSEEECTTSC
T ss_pred             ccc------ccchhhhcccc--ccccc---cccccHHHhcCCCCCCEEECCCCc
Confidence            211      11223333322  11111   1122 1347889999999997654

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.84  E-value=1.4e-07  Score=83.15  Aligned_cols=83  Identities=18%  Similarity=0.108  Sum_probs=52.8

Q ss_pred             CceEEEEEeCCC---eeeecCCCcccCCCCcEEEccceeeCC------CCCCC-CCCcccEEEeeeeeeChHH---HHHH
Q 042404            2 DIRELVLELGEG---EWFRVPSCLFNCRKLTRLELFRCEFDP------PLTFT-GFPCLRSLNLHQVLVAPEA---IESL   68 (311)
Q Consensus         2 ~v~~L~l~~~~~---~~~~lp~~~~~~~~L~~L~L~~~~l~~------~~~~~-~l~~L~~L~L~~~~~~~~~---l~~l   68 (311)
                      +++.|+|.-+..   ....++..+..+++|++|+|++|.+++      ...+. ..+.|++|+|++|.+++..   +...
T Consensus        28 ~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~it~~~~~~l~~~  107 (460)
T d1z7xw1          28 QCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSST  107 (460)
T ss_dssp             TCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHH
T ss_pred             CCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCCCCEEECCCCCccccccccccch
Confidence            455666654432   112344455678889999998887642      11111 2357899999988887654   4455


Q ss_pred             HhcCcccccccccccc
Q 042404           69 ISSCPLLESLSLSYFD   84 (311)
Q Consensus        69 l~~cp~Le~L~l~~c~   84 (311)
                      +..+++|++|++.++.
T Consensus       108 l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1         108 LRTLPTLQELHLSDNL  123 (460)
T ss_dssp             TTSCTTCCEEECCSSB
T ss_pred             hhcccccccccccccc
Confidence            6678999999987753

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.83  E-value=2.6e-06  Score=66.22  Aligned_cols=68  Identities=18%  Similarity=0.136  Sum_probs=49.6

Q ss_pred             eeeecCCCcccCCCCcEEEccceeeC---CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           14 EWFRVPSCLFNCRKLTRLELFRCEFD---PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        14 ~~~~lp~~~~~~~~L~~L~L~~~~l~---~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ....+|..+.  +++++|+|++|.+.   .+..+.++++|+.|+|.++.+..- ....+...+.|+.|+++++.
T Consensus        19 ~L~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~-~~~~~~~~~~L~~L~Ls~N~   89 (192)
T d1w8aa_          19 GLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGI-EPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             CCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCB-CTTTTTTCTTCCEEECCSCC
T ss_pred             CcCccCCCCC--CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccc-cccccccccccceeeecccc
Confidence            4457787764  68999999999874   234467889999999998876543 22335678888888888764

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.82  E-value=2.1e-06  Score=66.73  Aligned_cols=82  Identities=21%  Similarity=0.211  Sum_probs=60.1

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLS   79 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~   79 (311)
                      ++++|+|.-.......-+..+..+++|+.|+|+++.+.  .+..+..+++|+.|+|+++.+..- ....+.+.++|++|+
T Consensus        30 ~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l-~~~~F~~l~~L~~L~  108 (192)
T d1w8aa_          30 HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEI-SNKMFLGLHQLKTLN  108 (192)
T ss_dssp             TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEE-CSSSSTTCTTCCEEE
T ss_pred             CCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeecccccccc-CHHHHhCCCcccccc
Confidence            57788876664421222344567899999999998875  455677899999999999987642 122367889999999


Q ss_pred             ccccc
Q 042404           80 LSYFD   84 (311)
Q Consensus        80 l~~c~   84 (311)
                      |.++.
T Consensus       109 L~~N~  113 (192)
T d1w8aa_         109 LYDNQ  113 (192)
T ss_dssp             CCSSC
T ss_pred             cCCcc
Confidence            99865

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.76  E-value=4.2e-07  Score=77.54  Aligned_cols=208  Identities=14%  Similarity=0.073  Sum_probs=129.1

Q ss_pred             CceEEEEEeCC---CeeeecCCCcccCCCCcEEEccceeeCCC------------CCCCCCCcccEEEeeeeeeChH---
Q 042404            2 DIRELVLELGE---GEWFRVPSCLFNCRKLTRLELFRCEFDPP------------LTFTGFPCLRSLNLHQVLVAPE---   63 (311)
Q Consensus         2 ~v~~L~l~~~~---~~~~~lp~~~~~~~~L~~L~L~~~~l~~~------------~~~~~l~~L~~L~L~~~~~~~~---   63 (311)
                      .+++|+|....   .....+-..+...++|+.|+++++....+            ..+..+++|+.|+|+++.+++.   
T Consensus        32 ~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~  111 (344)
T d2ca6a1          32 SVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQE  111 (344)
T ss_dssp             CCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHH
T ss_pred             CCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccccccccccccc
Confidence            47777774332   11224455667789999999997754311            1134578999999999988764   


Q ss_pred             HHHHHHhcCcccccccccccccee-----------------EEEeCCCceEEEeecee-e--e---e--eecCCCCccee
Q 042404           64 AIESLISSCPLLESLSLSYFDSLD-----------------LNICAPELKYLYLEGEF-K--D---I--HLESTPLLVSM  118 (311)
Q Consensus        64 ~l~~ll~~cp~Le~L~l~~c~~~~-----------------~~i~~~~L~~L~i~~~~-~--~---~--~i~~~p~L~~l  118 (311)
                      .+...+..++.|++|.+.+|....                 .....+.|+.+.+.++. .  .   +  .+...+.|+.+
T Consensus       112 ~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L  191 (344)
T d2ca6a1         112 PLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTV  191 (344)
T ss_dssp             HHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEE
T ss_pred             chhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhhccc
Confidence            455567789999999999885210                 11235688888887641 1  1   1  13467889999


Q ss_pred             EEEEEEccccchhhcccccchHHHHhcCCCcceEEEEeeeEEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHH
Q 042404          119 SIAMYMTDDIAEHFEQSSSCNFLKILGGVPHLEKLVGYIYFTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVV  198 (311)
Q Consensus       119 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~l~~L~l~~~~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l  198 (311)
                      .+..+...+.      +....+...+...++++.|+++.+.+......... .....+++|++|.+.. +.-...++..+
T Consensus       192 ~L~~n~i~~~------g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~-~~l~~~~~L~~L~Ls~-n~i~~~g~~~l  263 (344)
T d2ca6a1         192 KMVQNGIRPE------GIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALA-IALKSWPNLRELGLND-CLLSARGAAAV  263 (344)
T ss_dssp             ECCSSCCCHH------HHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHH-HHGGGCTTCCEEECTT-CCCCHHHHHHH
T ss_pred             cccccccccc------ccccchhhhhcchhhhccccccccccccccccccc-ccccccccchhhhhhc-CccCchhhHHH
Confidence            8866543210      00011234466778999999987653211100011 1123578899999843 32233566777


Q ss_pred             HHHHhcC--CCcceEEEEecc
Q 042404          199 IRLITNS--PNLKELHISGSS  217 (311)
Q Consensus       199 ~~~l~~~--p~L~~L~i~~~~  217 (311)
                      ...+..+  +.|++|+++.+.
T Consensus       264 ~~~l~~~~~~~L~~L~ls~N~  284 (344)
T d2ca6a1         264 VDAFSKLENIGLQTLRLQYNE  284 (344)
T ss_dssp             HHHHHTCSSCCCCEEECCSSC
T ss_pred             HHHhhhccCCCCCEEECCCCc
Confidence            7777754  679999998764

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.48  E-value=1.4e-05  Score=59.78  Aligned_cols=70  Identities=20%  Similarity=0.157  Sum_probs=54.1

Q ss_pred             eeeecCCCcccCCCCcEEEcccee-eC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccccccccc
Q 042404           14 EWFRVPSCLFNCRKLTRLELFRCE-FD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        14 ~~~~lp~~~~~~~~L~~L~L~~~~-l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ....+|..+...++|++|+|.++. ++  .+.++.++++|+.|+|+++.+..-. +..+.+.++|++|+|+++.
T Consensus        19 ~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~-~~~f~~l~~L~~L~Ls~N~   91 (156)
T d2ifga3          19 GALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVA-PDAFHFTPRLSRLNLSFNA   91 (156)
T ss_dssp             CCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEEC-TTGGGSCSCCCEEECCSSC
T ss_pred             CCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcc-cccccccccccceeccCCC
Confidence            346788888889999999998663 55  3456888999999999999876421 2346788999999998875

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=97.43  E-value=3.7e-06  Score=65.67  Aligned_cols=96  Identities=19%  Similarity=0.128  Sum_probs=66.3

Q ss_pred             CCceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCC-CCCCCcccEEEeeeeeeChHHHHHHHhcCccccccc
Q 042404            1 NDIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLT-FTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLS   79 (311)
Q Consensus         1 ~~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~-~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~   79 (311)
                      .++++|+|.....  ..++ .+..+++|++|+|++|.+...+. ...+++|+.|+++++.++.  ++. +..+++|+.|+
T Consensus        48 ~~L~~L~Ls~n~I--~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~--l~~-~~~l~~L~~L~  121 (198)
T d1m9la_          48 KACKHLALSTNNI--EKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIAS--LSG-IEKLVNLRVLY  121 (198)
T ss_dssp             TTCCEEECSEEEE--SCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCC--HHH-HHHHHHSSEEE
T ss_pred             cccceeECcccCC--CCcc-cccCCccccChhhcccccccccccccccccccccccccccccc--ccc-ccccccccccc
Confidence            3678888865533  3454 47889999999999999875333 3346789999999999875  332 56789999999


Q ss_pred             ccccccee---EE--EeCCCceEEEeec
Q 042404           80 LSYFDSLD---LN--ICAPELKYLYLEG  102 (311)
Q Consensus        80 l~~c~~~~---~~--i~~~~L~~L~i~~  102 (311)
                      +.++....   +.  ...|+|+.|.+.+
T Consensus       122 L~~N~i~~~~~~~~l~~l~~L~~L~L~~  149 (198)
T d1m9la_         122 MSNNKITNWGEIDKLAALDKLEDLLLAG  149 (198)
T ss_dssp             ESEEECCCHHHHHHHTTTTTCSEEEECS
T ss_pred             cccchhccccccccccCCCccceeecCC
Confidence            99875322   11  1234555555554

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.40  E-value=9.5e-06  Score=65.08  Aligned_cols=82  Identities=15%  Similarity=0.135  Sum_probs=59.1

Q ss_pred             CCceEEEEEeCCCeeeecCCC-cccCCCCcEEEccceeeC---CCCCCCCCCcccEEEeeee-eeChHHHHHHHhcCccc
Q 042404            1 NDIRELVLELGEGEWFRVPSC-LFNCRKLTRLELFRCEFD---PPLTFTGFPCLRSLNLHQV-LVAPEAIESLISSCPLL   75 (311)
Q Consensus         1 ~~v~~L~l~~~~~~~~~lp~~-~~~~~~L~~L~L~~~~l~---~~~~~~~l~~L~~L~L~~~-~~~~~~l~~ll~~cp~L   75 (311)
                      +++++|+|.-...  ..+|.. +..+++|++|+|++|.+.   .+..+.+++.++.+.+..+ .+... ....+.++++|
T Consensus        29 ~~l~~L~Ls~n~i--~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~-~~~~~~~l~~L  105 (242)
T d1xwdc1          29 RNAIELRFVLTKL--RVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYI-NPEAFQNLPNL  105 (242)
T ss_dssp             SCCSEEEEESCCC--CEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEE-CTTSEECCTTC
T ss_pred             CCCCEEECcCCcC--CccChhHhhccchhhhhhhccccccceeecccccccccccccccccccccccc-ccccccccccc
Confidence            3688888876654  467765 567999999999998653   3345678899999988754 23322 22336789999


Q ss_pred             cccccccccc
Q 042404           76 ESLSLSYFDS   85 (311)
Q Consensus        76 e~L~l~~c~~   85 (311)
                      ++|.+.++..
T Consensus       106 ~~l~l~~~~l  115 (242)
T d1xwdc1         106 QYLLISNTGI  115 (242)
T ss_dssp             CEEEEESCCC
T ss_pred             cccccchhhh
Confidence            9999998753

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.80  E-value=7.2e-05  Score=65.05  Aligned_cols=35  Identities=11%  Similarity=0.096  Sum_probs=20.5

Q ss_pred             cccEEEeeeeeeChHHHHHHHhcCccccccccccc
Q 042404           49 CLRSLNLHQVLVAPEAIESLISSCPLLESLSLSYF   83 (311)
Q Consensus        49 ~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~~c   83 (311)
                      +|++|+++++.+++.++..++..+++|+.|.|.+|
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~   37 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDC   37 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESS
T ss_pred             CCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCC
Confidence            45566666666665555555555566666665555

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.55  E-value=0.00031  Score=52.08  Aligned_cols=79  Identities=22%  Similarity=0.176  Sum_probs=52.4

Q ss_pred             CceEEEEEeCCCeeeecCCC-cccCCCCcEEEccceeeC--CCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCcccccc
Q 042404            2 DIRELVLELGEGEWFRVPSC-LFNCRKLTRLELFRCEFD--PPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESL   78 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~-~~~~~~L~~L~L~~~~l~--~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L   78 (311)
                      ++++|.|.-... ...+|.. +.++++|+.|+|++|.+.  .+.++.++++|++|+|+++.+..  ++.-+...+.|+.|
T Consensus        32 ~l~~L~l~~n~~-l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~~--l~~~~~~~~~l~~L  108 (156)
T d2ifga3          32 NLTELYIENQQH-LQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALES--LSWKTVQGLSLQEL  108 (156)
T ss_dssp             CCSEEECCSCSS-CCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSC--CCSTTTCSCCCCEE
T ss_pred             ccCeeecCCCcc-ccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCCCcc--cChhhhcccccccc
Confidence            456666543321 2356544 567899999999999886  45568899999999999998763  11111223457777


Q ss_pred             ccccc
Q 042404           79 SLSYF   83 (311)
Q Consensus        79 ~l~~c   83 (311)
                      +|.+.
T Consensus       109 ~L~~N  113 (156)
T d2ifga3         109 VLSGN  113 (156)
T ss_dssp             ECCSS
T ss_pred             ccCCC
Confidence            77653

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=96.14  E-value=0.00098  Score=55.48  Aligned_cols=89  Identities=21%  Similarity=0.110  Sum_probs=46.2

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcC-cccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSC-PLLESLSL   80 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~c-p~Le~L~l   80 (311)
                      ++++|+|.-..  ...+|..   .++|++|+|+++.++..+.  .+.+|++|.+.++.++.  +    ... +.|++|++
T Consensus        39 ~l~~LdLs~~~--L~~lp~~---~~~L~~L~Ls~N~l~~lp~--~~~~L~~L~l~~n~l~~--l----~~lp~~L~~L~L  105 (353)
T d1jl5a_          39 QAHELELNNLG--LSSLPEL---PPHLESLVASCNSLTELPE--LPQSLKSLLVDNNNLKA--L----SDLPPLLEYLGV  105 (353)
T ss_dssp             TCSEEECTTSC--CSCCCSC---CTTCSEEECCSSCCSSCCC--CCTTCCEEECCSSCCSC--C----CSCCTTCCEEEC
T ss_pred             CCCEEEeCCCC--CCCCCCC---CCCCCEEECCCCCCccccc--chhhhhhhhhhhcccch--h----hhhccccccccc
Confidence            34555543332  2356643   3467777777776653221  24567777777665442  1    122 35777777


Q ss_pred             ccccceeE--EEeCCCceEEEeece
Q 042404           81 SYFDSLDL--NICAPELKYLYLEGE  103 (311)
Q Consensus        81 ~~c~~~~~--~i~~~~L~~L~i~~~  103 (311)
                      .++....+  ....++|+.|.+.++
T Consensus       106 ~~n~l~~lp~~~~l~~L~~L~l~~~  130 (353)
T d1jl5a_         106 SNNQLEKLPELQNSSFLKIIDVDNN  130 (353)
T ss_dssp             CSSCCSSCCCCTTCTTCCEEECCSS
T ss_pred             cccccccccchhhhccceeeccccc
Confidence            66543221  112346666666553

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=95.47  E-value=0.0032  Score=46.87  Aligned_cols=25  Identities=20%  Similarity=0.228  Sum_probs=15.7

Q ss_pred             cchHHHHHHHHccCcccceEEEEecc
Q 042404          256 PHEMELIKFLLSNSPVLEIMSITPCT  281 (311)
Q Consensus       256 ~~~~~l~~~ll~~a~~Le~l~i~~~~  281 (311)
                      +....+++.+-+| ++|+++.+.+..
T Consensus       118 ~~~~~l~~~L~~n-~sL~~l~l~~~~  142 (167)
T d1pgva_         118 QVEMDMMMAIEEN-ESLLRVGISFAS  142 (167)
T ss_dssp             HHHHHHHHHHHHC-SSCCEEECCCCC
T ss_pred             HHHHHHHHHHHhC-CCccEeeCcCCC
Confidence            3445566655544 788888876653

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=95.17  E-value=0.0025  Score=47.37  Aligned_cols=24  Identities=4%  Similarity=0.094  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHhcCCCcceEEEEec
Q 042404          193 KEILVVIRLITNSPNLKELHISGS  216 (311)
Q Consensus       193 ~~~~~l~~~l~~~p~L~~L~i~~~  216 (311)
                      .+...++..++.++.|++|+++..
T Consensus       119 ~~~~~La~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_         119 NVEMEIANMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHHHHHHHHHHhCCCcCEEeCcCC
Confidence            456688888999999999988654

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.81  E-value=0.00072  Score=50.33  Aligned_cols=60  Identities=23%  Similarity=0.133  Sum_probs=45.4

Q ss_pred             ccCCCCcEEEccceeeCCCCC----CCCCCcccEEEeeeeeeCh-HHHHHHHhcCcccccccccccc
Q 042404           23 FNCRKLTRLELFRCEFDPPLT----FTGFPCLRSLNLHQVLVAP-EAIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        23 ~~~~~L~~L~L~~~~l~~~~~----~~~l~~L~~L~L~~~~~~~-~~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      ..+++|++|+|++|.+...+.    +..+++|+.|+|+++.+++ .++.. + ..+.|+.|.+.++.
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~-l-~~~~L~~L~L~~Np  126 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDK-I-KGLKLEELWLDGNS  126 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHH-H-TTCCCSSCCCTTST
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhh-h-hccccceeecCCCC
Confidence            358899999999998874332    3468999999999999875 44443 2 45679999999864

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=93.92  E-value=0.017  Score=47.54  Aligned_cols=112  Identities=13%  Similarity=0.167  Sum_probs=70.8

Q ss_pred             CceEEEEEeCCCeeeecCCCcccCCCCcEEEccceeeCCCCCCCCCCcccEEEeeeeeeChHHHHHHHhcCccccccccc
Q 042404            2 DIRELVLELGEGEWFRVPSCLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAIESLISSCPLLESLSLS   81 (311)
Q Consensus         2 ~v~~L~l~~~~~~~~~lp~~~~~~~~L~~L~L~~~~l~~~~~~~~l~~L~~L~L~~~~~~~~~l~~ll~~cp~Le~L~l~   81 (311)
                      ++++|+|+....  ..+|..   ..+|+.|++.++.+...+.+  .+.|+.|+++++.+..  ++. ...+++|+.|++.
T Consensus        59 ~L~~L~Ls~N~l--~~lp~~---~~~L~~L~l~~n~l~~l~~l--p~~L~~L~L~~n~l~~--lp~-~~~l~~L~~L~l~  128 (353)
T d1jl5a_          59 HLESLVASCNSL--TELPEL---PQSLKSLLVDNNNLKALSDL--PPLLEYLGVSNNQLEK--LPE-LQNSSFLKIIDVD  128 (353)
T ss_dssp             TCSEEECCSSCC--SSCCCC---CTTCCEEECCSSCCSCCCSC--CTTCCEEECCSSCCSS--CCC-CTTCTTCCEEECC
T ss_pred             CCCEEECCCCCC--cccccc---hhhhhhhhhhhcccchhhhh--cccccccccccccccc--ccc-hhhhccceeeccc
Confidence            578888775543  467765   35899999999877643322  2469999999998764  222 4578999999998


Q ss_pred             cccceeEEEeCCCceEEEeecee--eeeeecCCCCcceeEEEEE
Q 042404           82 YFDSLDLNICAPELKYLYLEGEF--KDIHLESTPLLVSMSIAMY  123 (311)
Q Consensus        82 ~c~~~~~~i~~~~L~~L~i~~~~--~~~~i~~~p~L~~l~l~~~  123 (311)
                      ++.........+.+..+.+....  ....+...+.++.+.+..+
T Consensus       129 ~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n  172 (353)
T d1jl5a_         129 NNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNN  172 (353)
T ss_dssp             SSCCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSS
T ss_pred             cccccccccccccccchhhccccccccccccccccceecccccc
Confidence            87643322223456666665432  1123345566666655443

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=93.27  E-value=0.0081  Score=44.53  Aligned_cols=61  Identities=11%  Similarity=0.142  Sum_probs=43.8

Q ss_pred             cCCCCcEEEccce-eeCCC------CCCCCCCcccEEEeeeeeeChH---HHHHHHhcCcccccccccccc
Q 042404           24 NCRKLTRLELFRC-EFDPP------LTFTGFPCLRSLNLHQVLVAPE---AIESLISSCPLLESLSLSYFD   84 (311)
Q Consensus        24 ~~~~L~~L~L~~~-~l~~~------~~~~~l~~L~~L~L~~~~~~~~---~l~~ll~~cp~Le~L~l~~c~   84 (311)
                      +.++|+.|+|+++ .+++.      ..+...+.|++|+|+++.+.++   .+...+..++.|++|+|.+|.
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~   83 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNF   83 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSB
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhh
Confidence            4678999999864 34321      1244567899999998888764   455667778899999998885

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.25  E-value=0.0094  Score=43.92  Aligned_cols=58  Identities=29%  Similarity=0.362  Sum_probs=41.7

Q ss_pred             CCCCcccEEEeeeeeeCh-HHHHHHHhcCcccccccccccccee----EEEeCCCceEEEeec
Q 042404           45 TGFPCLRSLNLHQVLVAP-EAIESLISSCPLLESLSLSYFDSLD----LNICAPELKYLYLEG  102 (311)
Q Consensus        45 ~~l~~L~~L~L~~~~~~~-~~l~~ll~~cp~Le~L~l~~c~~~~----~~i~~~~L~~L~i~~  102 (311)
                      ..+++|++|+|+++.++. ..+...+..||+|+.|+++++..-.    .......|+.+.+.+
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~  124 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDG  124 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTT
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCC
Confidence            468999999999999875 3455567789999999999986422    122334566666555

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=89.22  E-value=0.28  Score=35.54  Aligned_cols=132  Identities=15%  Similarity=0.087  Sum_probs=76.5

Q ss_pred             HHHHhcCCCcceEEEEeee-EEEEeecCCCCCCCCccccccceEEEeeeecCCHHHHHHHHHHHhcCCCcceEEEEeccC
Q 042404          140 FLKILGGVPHLEKLVGYIY-FTKYLSIGDDPGRLPITYNHLKVIELYQVSFEDMKEILVVIRLITNSPNLKELHISGSSN  218 (311)
Q Consensus       140 ~~~~l~~l~~l~~L~l~~~-~~~~l~~~~~~~~~~~~f~~L~~L~l~~~~~~~~~~~~~l~~~l~~~p~L~~L~i~~~~~  218 (311)
                      +..+....|.|+.|.+... .+..-.....-..+ ...++|++|.+... .-...++..+...++..+.++.+++..+..
T Consensus         9 l~~~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al-~~n~~L~~L~Ls~n-~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~   86 (166)
T d1io0a_           9 LKRIQNNDPDLEEVNLNNIMNIPVPTLKACAEAL-KTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNFI   86 (166)
T ss_dssp             HHHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHH-TTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSCC
T ss_pred             HHHHHhcCCCCcEEEcCCCCCCCHHHHHHHHHHH-hcCCccCeeeccCC-cccHHHHHHHHHHHhhcccchhhhhccccc
Confidence            4556677899999998753 12110000000011 24678999999443 233456778999999999999999876543


Q ss_pred             CcccccCCCchhhcccccCcccccceeEEEEEeec---CCcchHHHHHHHHccCcccceEEEEeccc
Q 042404          219 TLAAIEAPDLDFWEKECHADCSFKQLKLVKMTDIS---GVPHEMELIKFLLSNSPVLEIMSITPCTF  282 (311)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~Lk~v~i~~~~---g~~~~~~l~~~ll~~a~~Le~l~i~~~~~  282 (311)
                      ...     ....+-.   .-...++|+.+.+....   |.+....+++. ++..+.|+++.+.+...
T Consensus        87 ~~~-----g~~~l~~---~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~-L~~n~~L~~L~l~~~~~  144 (166)
T d1io0a_          87 SGS-----GILALVE---ALQSNTSLIELRIDNQSQPLGNNVEMEIANM-LEKNTTLLKFGYHFTQQ  144 (166)
T ss_dssp             CHH-----HHHHHHH---GGGGCSSCCEEECCCCSSCCCHHHHHHHHHH-HHHCSSCCEEECCCSSH
T ss_pred             cch-----hHHHHHH---HHHhCccccEEeeccCCCcCcHHHHHHHHHH-HHhCCCcCEEeCcCCCC
Confidence            221     1111111   11124778887775322   22333444444 46778999999876643