Citrus Sinensis ID: 040122

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------39
Protein Sequence
MKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLNK
Secondary Structure (PSIPRED)
ccEEcccccccccccEEEEccccccccccccccccccccccccccccccccccEEEEcccccccEEcccccccccccccccEEEEEcccccccccccccccccccccEEEEEcccccEEEcccccccccccccccccccccEEEEEccccccccccccccccccccccEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccEEEcccccccccccccccEEEEEcccccccccccccccccccEEEEEcccccccccccccccccccccEEEEcccccccEEEccccccccccccccccccEEEEcccccccEEcccccccccccccEEEEEcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccEEcccccEEEEEccccccEEEEccccccccHHHccccHcccccccEEEEcccHcHHHHccccccccccccccEEEEEcccccHHHcccHHHHHHHHHHcEEEEcccHcHHEEEEcccccccccccEEEcccccEEEEcccHHHHHHccccccccEcccccEEEEccccccEEEcccccccHHHHHHEcccccccccccccEEccccccccHHEHcccHHHEEHccHHHHHHEcccccccccccccccEEEEcccccHHHHccccccccccEEEEEEccccHHHcccHHHHHHHHHHcEEEEccHHHHHHHEEccccccccccEEcccccEEEHcccccccEccccccccccccccEEEEEcccccEEEcccccccccccc
Coil and Loop (DISEMBL)
mktfsqgilsipkpckvqvtekeegelhhwegnnlnstiqkcydekigfldinrlqlshfprlqeiwhgqalpvrFFNNLAELvvddstnmssaipANLLRCLNNLEWLAVRNCDSLEEVLHLeelsakeehigplfprllslklidlpklkrfcnftgniielpkleyliiencpdmetftsnsTFVLhmtadnkepqklksEENLLVANQIQHLFdekvafpqlgnlrlsgLHKVQHLWKENDESNKAFANLERLEISEcsklqklvppswhlenlealkvsKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVgeeakdcnvFKELEylgldclpsltsfclgnyalefpslkqvvvrqcpkmkifsqglldtpmlnk
Flexible Loop (DISEMBL)
mktfsqgilsipkpckvQVTEKEEGElhhwegnnlnsTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAkeehigplfPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTlsasknlvNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMkifsqglldtpmlnk
Low Complexity Region (SEG)
MKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSleevlhleelSAKEEHIGPLFPRllslklidlpklkRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLNK
Disordered region (IsUnstruct)
****************V********ELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMT*************NLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLL*******
Disordered Region (DISOPRED)
MKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQL*VGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPML**
Disordered Region (DISEMBL)
MKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLNK
Disordered Region (DISPRO)
***FSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGL********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKTFSQGILSIPKPCKVQVTEKEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLNK
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

No hits with e-value below 0.001 by BLAST

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	388
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.822	0.238	0.361	8e-39
147787802	1517	hypothetical protein VITISV_005047 [Viti	0.894	0.228	0.297	2e-33
255542484	2460	phosphoprotein phosphatase, putative [Ri	0.842	0.132	0.287	2e-33
358344895	906	Resistance protein RGC2, partial [Medica	0.827	0.354	0.321	1e-30
224083436	758	predicted protein [Populus trichocarpa]	0.701	0.358	0.318	2e-29
359488025	1781	PREDICTED: uncharacterized protein LOC10	0.896	0.195	0.291	2e-29
296087869	1711	unnamed protein product [Vitis vinifera]	0.896	0.203	0.291	3e-29
357439637	545	Cc-nbs-lrr resistance protein [Medicago	0.845	0.601	0.280	7e-29
357439633	1039	Rpp4 candidate [Medicago truncatula] gi|	0.835	0.311	0.278	3e-28
147826471	1271	hypothetical protein VITISV_031250 [Viti	0.824	0.251	0.290	3e-28

>gi|359488288|ref|XP_003633735.1| PREDICTED: LOW QUALITY PROTEIN: probable disease resistance protein At1g61310-like [Vitis vinifera]

 Score =  167 bits (423), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 121/335 (36%), Positives = 180/335 (53%), Gaps = 16/335 (4%)

Query: 65   EIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLE 124
            E+W+GQ      F NL  L++ +  ++    P++L + L NLE L V NC+ LEE+  LE
Sbjct: 920  EVWNGQL--SLSFGNLRSLMMQNCMSLLKVFPSSLFQSLQNLEVLKVENCNQLEEIFDLE 977

Query: 125  ELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSN 184
             L+    H+G L P+L  + L     L+        IIE+ + E   +E+   +   +  
Sbjct: 978  GLNVDGGHVG-LLPKLEEMCLTGCIPLEELILDGSRIIEIWQ-EQFPVESFCRLRVLSIC 1035

Query: 185  STFVLHMTADNKEPQKLKSEENLLVAN--------QIQHLFDEKVAFPQLGNLR---LSG 233
                + +   +   Q+L + E L V +        Q++ L DE+  F  L  LR   L+ 
Sbjct: 1036 EYRDILVVIPSSMLQRLHTLEKLTVRSCGSVKEVVQLEGLVDEENHFRALARLRELELND 1095

Query: 234  LHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVL 293
            L ++++LWKEN      F NLE L+I +C  L  LVP S    NL +L +S C  LIN+L
Sbjct: 1096 LPELKYLWKENSNVGPHFQNLEILKIWDCDNLMNLVPSSVSFHNLASLDISYCCSLINLL 1155

Query: 294  TLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLG 353
                +K+LV      I    M+++++  + GE A D   F +LE + L  LP+LTSFC G
Sbjct: 1156 PPLIAKSLVQHKIFKIGRSDMMKEVVANE-GENAGDEITFCKLEEIELCVLPNLTSFCSG 1214

Query: 354  NYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLNK 388
             Y+L FP L++VVV +CPKMKIFSQGLL TP L++
Sbjct: 1215 VYSLSFPVLERVVVEECPKMKIFSQGLLVTPRLDR 1249

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147787802|emb|CAN71755.1| hypothetical protein VITISV_005047 [Vitis vinifera]

 Score =  149 bits (377), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 122/410 (29%), Positives = 200/410 (48%), Gaps = 63/410 (15%)

Query: 26   ELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVV 85
            E+   EG N+N        E +    +++L L   P++++IW+     +  F NL  + +
Sbjct: 1009 EVFDVEGTNVN------VKEGVTVTQLSQLILRSLPKVEKIWNEDPHGILNFQNLQSITI 1062

Query: 86   DDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGP----LFPRLL 141
            D+  ++ +  PA+L+R L  L+ L V  C        +EE+ AK+  +      +FP++ 
Sbjct: 1063 DECQSLKNLFPASLVRDLVQLQELHVLCCG-------IEEIVAKDNGVDTQATFVFPKVT 1115

Query: 142  SLKLIDLPKLKRFCNFTG-NIIELPKLEYLIIENCPDMETFT-SNSTFV-------LHMT 192
            SL+L  L +L+ F  + G +    P L+ L +  C  +  F   N TF        L M 
Sbjct: 1116 SLELSYLHQLRSF--YPGAHPSWWPSLKQLTVRECYKVNVFAFENPTFRQRHHEGNLDMP 1173

Query: 193  ADNKEPQKLKS-EENLLVANQIQHLFDEKV---AFP------------------------ 224
                +P +  + EE  L  N+   ++ E+    +FP                        
Sbjct: 1174 LSLLQPVEFPNLEELTLDHNKDTEIWPEQFPVDSFPRLRVLDDVIQFKEVFQLEGLDNEN 1233

Query: 225  ---QLGNLR---LSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENL 278
               +LG LR   L  L ++ HLWKEN +      +L+ LE+  C +L  LVP S   +NL
Sbjct: 1234 QAKRLGRLREIWLCDLPELTHLWKENSKPGLDLLSLKSLEVRNCVRLINLVPSSASFQNL 1293

Query: 279  EALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEY 338
              L V  C  L ++++ S +K+LV L  + I    M+E+++  + GE A +   F +L++
Sbjct: 1294 ATLDVQSCGSLRSLISPSVAKSLVKLKTLKIGGSHMMEEVVANEEGEAADEI-AFCKLQH 1352

Query: 339  LGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLNK 388
            + L CL +LTSF  G Y   FPSL+ +V+++CPKMKIFS GL+ TP L +
Sbjct: 1353 MALKCLSNLTSFSSGGYIFSFPSLEHMVLKKCPKMKIFSPGLVTTPRLER 1402

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542484|ref|XP_002512305.1| phosphoprotein phosphatase, putative [Ricinus communis] gi|223548266|gb|EEF49757.1| phosphoprotein phosphatase, putative [Ricinus communis]

 Score =  149 bits (376), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 117/407 (28%), Positives = 202/407 (49%), Gaps = 80/407 (19%)

Query: 55   LQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNC 114
            L + + P L+ +W G    V  F+NL  L  ++  ++ +  PA++ + L+ LE L++ NC
Sbjct: 1138 LTIENLPSLKHVWSGDPQGVFSFDNLRSLSAENCPSLKNLFPASIAKSLSQLEDLSIVNC 1197

Query: 115  DSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTG-NIIELPKLEYLII- 172
              L+E++  + + A    +   FP+L S+KL  L ++K F  + G +I++ PKLE L I 
Sbjct: 1198 -GLQEIVAKDRVEATPRFV---FPQLKSMKLWILEEVKNF--YPGRHILDCPKLEKLTIH 1251

Query: 173  --------------------ENCPDME------TFTSNSTFVLHMTADNKEP-------- 198
                                EN  D+E      +FT   + +  ++  NKE         
Sbjct: 1252 DCDNLELFTLESQCLQVGRGENQVDVEFQQPLFSFTQVVSHLKSLSLSNKETMMIRQAQL 1311

Query: 199  ----------------------------QKLKSEENLLVA-NQIQHLF-------DEKV- 221
                                        Q+ ++ E LL+  + ++ LF       D  V 
Sbjct: 1312 PASLFHKLERLDLQCFHDRSSYFPFDLLQRFQNVETLLLTCSNVEDLFPYPLVGEDNNVR 1371

Query: 222  AFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEAL 281
                L +L L+ L  ++ +W +  + N++  NLE LE+  C KL  L P S   +NL +L
Sbjct: 1372 ILSNLRHLTLNSLRDIRRIWNQECQPNQSLQNLETLEVMYCKKLINLAPSSATFKNLASL 1431

Query: 282  KVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGL 341
            +V +C+ L+++LT + +K+LV LG M +++CKM+ +I+  + G+E +    F +LE L L
Sbjct: 1432 EVHECNGLVSLLTSTTAKSLVQLGEMKVSNCKMLREIVANE-GDEMESEITFSKLESLRL 1490

Query: 342  DCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLNK 388
            D L  LT+ C  N  ++FPSL++++V  CP+M+ FS G++  P L K
Sbjct: 1491 DDLTRLTTVCSVNCRVKFPSLEELIVTACPRMEFFSHGIITAPKLEK 1537

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358344895|ref|XP_003636521.1| Resistance protein RGC2, partial [Medicago truncatula] gi|355502456|gb|AES83659.1| Resistance protein RGC2, partial [Medicago truncatula]

 Score =  140 bits (352), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 107/333 (32%), Positives = 179/333 (53%), Gaps = 12/333 (3%)

Query: 52  INRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAV 111
           + +L+LS+ P+L+ +W         F NL+ + V D  ++ S  P ++ R +  L+ L V
Sbjct: 113 LKKLKLSNLPKLKHVWKEDPHYTMRFQNLSVVSVADCKSLISLFPLSVARDMMQLQSLLV 172

Query: 112 RNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTG-NIIELPKLEYL 170
            NC  +EE++  EE    +E +  +FP L S++L +L KLK F  F G + ++   L+ +
Sbjct: 173 SNC-GIEEIVVKEE--GPDEMVKFVFPHLTSIELDNLTKLKAF--FVGVHSLQCKSLKTI 227

Query: 171 IIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLR 230
            +  CP +E F +     L  ++ N E Q + + + L V  +   L     + PQ   L 
Sbjct: 228 KLFKCPRIELFKAEP-LKLQESSKNVE-QNISTYQPLFVFEE--ELLTSVESTPQFRELE 283

Query: 231 LSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELI 290
           L  LHK++++ KE  + +     LE +++ +CS L KLVP S     +  L+V+ C+ LI
Sbjct: 284 LLQLHKLKYICKEGFQMDPFLHFLESIDVCQCSSLIKLVPSSVTFSYMTYLEVTNCNGLI 343

Query: 291 NVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSF 350
           N++T S +K+LV L  M I  C  +E I+  +  E+  +  VF  L+ L L  L  L  F
Sbjct: 344 NLITHSTAKSLVKLTTMKIEMCNWLEDIVNGK--EDETNEIVFCSLQTLELISLQRLIRF 401

Query: 351 CLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDT 383
           C     + FP L+ VVV++CP+M++FS G+ +T
Sbjct: 402 CSCPCPIMFPLLEVVVVKECPRMELFSLGVTNT 434

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224083436|ref|XP_002307026.1| predicted protein [Populus trichocarpa] gi|222856475|gb|EEE94022.1| predicted protein [Populus trichocarpa]

 Score =  136 bits (342), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 100/314 (31%), Positives = 155/314 (49%), Gaps = 42/314 (13%)

Query: 77  FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPL 136
           F NL  L V D +++ +    ++   L +L+ + +RNCD +EE++  E    +E     +
Sbjct: 441 FRNLNFLEVHDCSSLINIFTPSMALSLVHLQKIVIRNCDKMEEIITKERAGEEEAMNKII 500

Query: 137 FPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNK 196
           FP L  + L  LP+L    + +G ++ L  LE + I++CP+M+ F S+         +  
Sbjct: 501 FPVLKVIILESLPELSNIYSGSG-VLNLTSLEEICIDDCPNMKIFISS-------LVEEP 552

Query: 197 EPQ---KLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFA 252
           EP    K K +      N     L + KVAFP+L  LR+   + +  + +      + F 
Sbjct: 553 EPNSVGKGKEQRQGQGGNYNFTALLNYKVAFPELKKLRVD-WNTIMEVTQRGQFRTEFFC 611

Query: 253 NLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC 312
            L+                              C  L+N+ T S +K+LV L ++ IA C
Sbjct: 612 RLK-----------------------------SCLGLLNLFTSSTAKSLVQLVKLTIAHC 642

Query: 313 KMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPK 372
           K +  ++  Q G+EA D  +F +LEYL L  L +LTSFC  NYA  FPSLK++VV +CP 
Sbjct: 643 KKMTVVVARQGGDEADDEIIFSKLEYLELLDLQNLTSFCFENYAFRFPSLKEMVVEECPN 702

Query: 373 MKIFSQGLLDTPML 386
           MK FS G+L TP L
Sbjct: 703 MKSFSPGVLSTPKL 716

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488025|ref|XP_003633688.1| PREDICTED: uncharacterized protein LOC100852821 [Vitis vinifera]

 Score =  135 bits (341), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 121/415 (29%), Positives = 200/415 (48%), Gaps = 67/415 (16%)

Query: 27   LHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVD 86
            LHH    +L++     +DE++ F  ++ L +     +++IW  Q +P   F+ L  + V 
Sbjct: 1329 LHH---ADLDTPFPVVFDERVAFPSLDCLYIEGLDNVKKIWPNQ-IPQDSFSKLEVVKVA 1384

Query: 87   DSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEE--HIGP--LFPRLLS 142
                + +  P+ +L+ L +LE L+V  C SLE V  +E  +   +   +G   + P++  
Sbjct: 1385 SCGELLNIFPSCMLKRLQSLERLSVHVCSSLEAVFDVEGTNVNVDCSSLGNTNVVPKITL 1444

Query: 143  LKLIDLPKLKRFC------------------------------NFTGNI-IELPKLEYLI 171
            L L +LP+L+ F                               ++ GN+ +  P LE L 
Sbjct: 1445 LALRNLPQLRSFYPGAHTSQWPLLKYLTVEMCPKLDVLAFQQRHYEGNLDVAFPNLEELE 1504

Query: 172  I----------ENCPDMETFTSNSTFVLHMTAD------NKEPQKLKSEENLLVA--NQI 213
            +          E  P M++F       ++   D      +   Q+L + E L V   + +
Sbjct: 1505 LGLNRDTEIWPEQFP-MDSFPRLRVLDVYDYRDILVVIPSFMLQRLHNLEVLKVGRCSSV 1563

Query: 214  QHLF-----DEKVAFPQLGNLR---LSGLHKVQHLWKENDESNKAFANLERLEISECSKL 265
            + +F     DE+    +LG LR   L  L  + HLWKEN +      +LE LE+ +C KL
Sbjct: 1564 EEVFQLEGLDEENQAKRLGQLREIKLDDLPGLTHLWKENSKPGLDLQSLESLEVLDCKKL 1623

Query: 266  QKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGE 325
              LVP S   +NL  L V  C  L ++++ S +K+LV L  + I    M+E+++  + G 
Sbjct: 1624 INLVPSSVSFQNLATLDVQSCGSLRSLISPSVAKSLVKLKTLKICGSDMMEEVVANE-GG 1682

Query: 326  EAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGL 380
            EA D   F +L+++ L  LP+LTSF  G Y   FPSL+Q++V++CPKMK+FS  L
Sbjct: 1683 EATDEITFYKLQHMELLYLPNLTSFSSGGYIFSFPSLEQMLVKECPKMKMFSPRL 1737

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296087869|emb|CBI35152.3| unnamed protein product [Vitis vinifera]

 Score =  135 bits (341), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 121/415 (29%), Positives = 200/415 (48%), Gaps = 67/415 (16%)

Query: 27   LHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVD 86
            LHH    +L++     +DE++ F  ++ L +     +++IW  Q +P   F+ L  + V 
Sbjct: 1259 LHH---ADLDTPFPVVFDERVAFPSLDCLYIEGLDNVKKIWPNQ-IPQDSFSKLEVVKVA 1314

Query: 87   DSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEE--HIGP--LFPRLLS 142
                + +  P+ +L+ L +LE L+V  C SLE V  +E  +   +   +G   + P++  
Sbjct: 1315 SCGELLNIFPSCMLKRLQSLERLSVHVCSSLEAVFDVEGTNVNVDCSSLGNTNVVPKITL 1374

Query: 143  LKLIDLPKLKRFC------------------------------NFTGNI-IELPKLEYLI 171
            L L +LP+L+ F                               ++ GN+ +  P LE L 
Sbjct: 1375 LALRNLPQLRSFYPGAHTSQWPLLKYLTVEMCPKLDVLAFQQRHYEGNLDVAFPNLEELE 1434

Query: 172  I----------ENCPDMETFTSNSTFVLHMTAD------NKEPQKLKSEENLLVA--NQI 213
            +          E  P M++F       ++   D      +   Q+L + E L V   + +
Sbjct: 1435 LGLNRDTEIWPEQFP-MDSFPRLRVLDVYDYRDILVVIPSFMLQRLHNLEVLKVGRCSSV 1493

Query: 214  QHLF-----DEKVAFPQLGNLR---LSGLHKVQHLWKENDESNKAFANLERLEISECSKL 265
            + +F     DE+    +LG LR   L  L  + HLWKEN +      +LE LE+ +C KL
Sbjct: 1494 EEVFQLEGLDEENQAKRLGQLREIKLDDLPGLTHLWKENSKPGLDLQSLESLEVLDCKKL 1553

Query: 266  QKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGE 325
              LVP S   +NL  L V  C  L ++++ S +K+LV L  + I    M+E+++  + G 
Sbjct: 1554 INLVPSSVSFQNLATLDVQSCGSLRSLISPSVAKSLVKLKTLKICGSDMMEEVVANE-GG 1612

Query: 326  EAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGL 380
            EA D   F +L+++ L  LP+LTSF  G Y   FPSL+Q++V++CPKMK+FS  L
Sbjct: 1613 EATDEITFYKLQHMELLYLPNLTSFSSGGYIFSFPSLEQMLVKECPKMKMFSPRL 1667

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357439637|ref|XP_003590096.1| Cc-nbs-lrr resistance protein [Medicago truncatula] gi|355479144|gb|AES60347.1| Cc-nbs-lrr resistance protein [Medicago truncatula]

 Score =  134 bits (337), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 114/407 (28%), Positives = 194/407 (47%), Gaps = 79/407 (19%)

Query: 52  INRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAV 111
           + +L+LS+ P+L+ +W         F NL+E+ V++ T++ S  P  + R +  L+ L V
Sbjct: 98  LKKLKLSNVPKLKHVWKEDPHDTMRFQNLSEVSVEECTSLISIFPLTVARDMMQLQSLRV 157

Query: 112 RNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTG-NIIELPKLEYL 170
            NC  +EE++  EE     E +  +F  L  ++L  LPKLK F  F G + ++   L+ +
Sbjct: 158 SNC-GIEEIVAKEE--GTNEIVNFVFSHLTFIRLELLPKLKAF--FVGVHSLQCKSLKTI 212

Query: 171 IIENCPDMETF------------------TSNSTFVL--------HMTADNKEPQKLKSE 204
            +  CP +E F                  T    FV+         +  +NK+   L+S+
Sbjct: 213 YLFGCPKIELFKTELRHQESSRSDVLNISTYQPLFVIEEVLTNVERLALNNKDLGILQSQ 272

Query: 205 ENLLVANQIQHL-----FDEKVAF------------------------------------ 223
            + +  N ++H+     + E+ AF                                    
Sbjct: 273 YSGVQFNNVKHIDVCQFYTEEDAFPYWFLKNVPSLESLLVQWSIFTEIFQGEQLISTEKE 332

Query: 224 ----PQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLE 279
               P+L  L+L  LHK+Q++ KE  + +     +E + + +CS L KLVP S     L 
Sbjct: 333 TQISPRLKLLKLWQLHKLQYICKEGFKMDPILHFIEIIIVHQCSSLIKLVPSSVTFTYLT 392

Query: 280 ALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYL 339
            L+V+ C+ LIN++T S +K+LV L  M I  C ++E I+  +  E+  D   F+ L++L
Sbjct: 393 YLEVANCNGLINLITYSTAKSLVKLTTMKIKMCNLLEDIVNGK--EDETDEIEFQSLQFL 450

Query: 340 GLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPML 386
            L+ LP L   C     ++FP L+ VVV++C +M++FS G+ +TP L
Sbjct: 451 ELNSLPRLHQLCSCPCPIKFPLLEVVVVKECARMELFSSGVTNTPNL 497

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357439633|ref|XP_003590094.1| Rpp4 candidate [Medicago truncatula] gi|355479142|gb|AES60345.1| Rpp4 candidate [Medicago truncatula]

 Score =  132 bits (332), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 109/392 (27%), Positives = 185/392 (47%), Gaps = 68/392 (17%)

Query: 52  INRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAV 111
           + +L+LS+ P+L+ +W         F NL+E+ V++ T++ S  P  + R +  L+ L V
Sbjct: 109 LKKLKLSNVPKLKHVWKEDPHDTMRFQNLSEVSVEECTSLISIFPLTVARDMMQLQSLRV 168

Query: 112 RNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTG-NIIELPKLEYL 170
            NC  +EE++  EE     E +  +F  L  ++L  LPKLK F  F G + ++   L+ +
Sbjct: 169 SNC-GIEEIVAKEE--GTNEIVNFVFSHLTFIRLELLPKLKAF--FVGVHSLQCKSLKTI 223

Query: 171 IIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVA----------NQIQHL---- 216
            +  CP +E F    T + H  +   +   + + + L V           N ++H+    
Sbjct: 224 YLFGCPKIELF---KTELRHQESSRSDVLNISTYQPLFVIEESQYSGVQFNNVKHIDVCE 280

Query: 217 -FDEKVAF----------------------------------------PQLGNLRLSGLH 235
            + E+  F                                        P+L  L L  LH
Sbjct: 281 FYTEEATFPYWFLKNVPSLESLLVQWSLFTEIFQGEQLISTEKETQISPRLKQLELGQLH 340

Query: 236 KVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTL 295
           ++Q++ KE  + +     +E + ++ CS L KLVP S     L  L+V+ C+ LIN++T 
Sbjct: 341 RLQYICKEGFKMDPILHFIESINVNHCSSLIKLVPSSVTFTYLTYLEVTSCNGLINLITY 400

Query: 296 SASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNV-FKELEYLGLDCLPSLTSFCLGN 354
           S +K+LV L  M I  C ++E I+    G+E +   + F  L+ L L  LP +  FC   
Sbjct: 401 STAKSLVKLTTMKIKMCNLLEDIVN---GKEDETKEIEFCSLQSLELISLPRVCRFCSCP 457

Query: 355 YALEFPSLKQVVVRQCPKMKIFSQGLLDTPML 386
             + FP L+ VVV++CP+M++ S G+ +TP L
Sbjct: 458 CPITFPLLEVVVVKECPRMELLSLGVTNTPNL 489

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147826471|emb|CAN72797.1| hypothetical protein VITISV_031250 [Vitis vinifera]

 Score =  132 bits (332), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 117/403 (29%), Positives = 177/403 (43%), Gaps = 83/403 (20%)

Query: 46   KIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNN 105
            +  F  +  L + +   ++ +WH Q L    F  L  L V     + +  P ++ + L  
Sbjct: 840  RXAFPXLEXLHVENLDNVRALWHNQ-LSADSFYKLKHLHVASCNKILNVFPLSVAKALVQ 898

Query: 106  LEWLAVRNCDSLEEVLHLEELSAKEEHIGPLF--PRLLSLKLIDLPKLKRFCNFTGNII- 162
            LE L + +C+ LE ++  E+    E+   PLF  P+L S  L  L +LKRF  ++G    
Sbjct: 899  LEDLCILSCEXLEVIVVNEDEDEDEDETTPLFLFPKLTSFTLESLHQLKRF--YSGRFAS 956

Query: 163  ELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVA 222
              P L+ L + NC  +E         L    DNK  Q L                 EK A
Sbjct: 957  RWPLLKELKVCNCDKVEILFQE--IGLEGELDNKIQQSL--------------FLVEKEA 1000

Query: 223  FPQLGNLRLSGLHKVQHLWKENDESNKAFA--------------------------NLER 256
            FP L  LRL+ L     +W+    S  +F+                          NLER
Sbjct: 1001 FPNLEELRLT-LKGXVEIWR-GQFSRVSFSKLRVLNITKCHGILVVISSNMVQILHNLER 1058

Query: 257  LEISECSKLQKLVPP---------------------------------SWHLENLEALKV 283
            LE+++C  + +++                                   S +L++ E L++
Sbjct: 1059 LEVTKCDSVNEVIQVERLSSEEFHVDTLPRLTEIHLEDLPMLMHLSGLSRYLQSFETLEI 1118

Query: 284  SKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDC 343
              C  LIN++TLS +K LV L  ++I +C M+++I+  +  E   D   F  L  L LDC
Sbjct: 1119 VSCGSLINLVTLSMAKRLVQLKTLIIKECHMVKEIVANEGDEPPNDEIDFTRLTRLELDC 1178

Query: 344  LPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPML 386
            LP+L SFC   YA  FPSL+++ V  CPKMK F +G+LDTP L
Sbjct: 1179 LPNLKSFCSARYAFRFPSLEEISVAACPKMKFFCKGVLDTPRL 1221

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	388
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.510	0.217	0.265	0.00014
FB|FBgn0020257	538	ppa "partner of paired" [Droso	0.414	0.299	0.289	0.00041
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.384	0.195	0.259	0.00066
TAIR|locus:2098145	1240	AT3G44630 [Arabidopsis thalian	0.345	0.108	0.281	0.00072

TAIR|locus:2005517 RPS2 "RESISTANT TO P. SYRINGAE 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 126 (49.4 bits), Expect = 0.00014, P = 0.00014
 Identities = 57/215 (26%), Positives = 93/215 (43%)

Query:   167 LEYLIIENCPDME-TFTSNSTF--VLHMTADNKEPQKLKSEE-NLLVANQIQHLFDEKVA 222
             LEYL  EN   +  T  S  T   +    A +K  Q L  EE N L+   +  L +    
Sbjct:   661 LEYL--ENLTTLGITVLSLETLKTLFEFGALHKHIQHLHVEECNELLYFNLPSLTNHG-- 716

Query:   223 FPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWH---LENLE 279
                L  L +   H +++L    D  N    +LE L +     L ++   S     L N+ 
Sbjct:   717 -RNLRRLSIKSCHDLEYLVTPADFENDWLPSLEVLTLHSLHNLTRVWGNSVSQDCLRNIR 775

Query:   280 ALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYL 339
              + +S C++L NV   S  + L  L  + + DC+ IE++I        +D  +F  L+ L
Sbjct:   776 CINISHCNKLKNV---SWVQKLPKLEVIELFDCREIEELISEHESPSVEDPTLFPSLKTL 832

Query:   340 GLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMK 374
                 LP L S     ++  F  ++ +V+  CP++K
Sbjct:   833 RTRDLPELNSILPSRFS--FQKVETLVITNCPRVK 865

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006952 "defense response" evidence=ISS;TAS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0016045 "detection of bacterium" evidence=RCA;IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0042742 "defense response to bacterium" evidence=RCA;IMP

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009863 "salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0031347 "regulation of defense response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0043069 "negative regulation of programmed cell death" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

GO:0050776 "regulation of immune response" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

GO:0051707 "response to other organism" evidence=RCA

FB|FBgn0020257 ppa "partner of paired" [Drosophila melanogaster (taxid:7227)]

 Score = 119 (46.9 bits), Expect = 0.00041, P = 0.00041
 Identities = 49/169 (28%), Positives = 74/169 (43%)

Query:   216 LFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQ--KLVPPSW 273
             L D  +  P L +L LSG   V  +       +    NL+ L++S C ++    L   + 
Sbjct:   226 LKDLVLGVPALTSLNLSGCFNVADM-NLGHAFSVDLPNLKTLDLSLCKQITDTSLGRIAQ 284

Query:   274 HLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMI-EQIIQLQVGEEAKDCNV 332
             HL NLE L++  C  + N   L  +  L  L  + +  C  I +Q I    G   +    
Sbjct:   285 HLRNLETLELGGCCNITNTGLLLIAWGLKKLKHLNLRSCWHISDQGIGHLAGFSRETAEG 344

Query:   333 FKELEYLGL-DCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGL 380
               +LEYLGL DC   L+   LG+ A    SLK + +  C  + +   GL
Sbjct:   345 NLQLEYLGLQDC-QRLSDEALGHIAQGLTSLKSINLSFC--VSVTDSGL 390

GO:0000152 "nuclear ubiquitin ligase complex" evidence=ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=NAS

GO:0019005 "SCF ubiquitin ligase complex" evidence=NAS

TAIR|locus:2197739 AT1G61300 [Arabidopsis thaliana (taxid:3702)]

 Score = 119 (46.9 bits), Expect = 0.00066, P = 0.00066
 Identities = 41/158 (25%), Positives = 67/158 (42%)

Query:   231 LSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELI 290
             L+ +  +  LW +N      F+ ++  E    S   ++ P      NL  L +SKCH + 
Sbjct:   583 LASMENLSSLWVKNSY----FSEIKCRESETASSYLRINPKIPCFTNLSRLGLSKCHSIK 638

Query:   291 NVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSF 350
             ++  +  + NLV L    I D + + +II  +          F +LE L L  LP L S 
Sbjct:   639 DLTWILFAPNLVYL---YIEDSREVGEIINKEKATNLTSITPFLKLERLILYNLPKLESI 695

Query:   351 CLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLNK 388
                   L FP L  + V  CPK++         P++ +
Sbjct:   696 YWS--PLHFPRLLIIHVLDCPKLRKLPLNATSVPLVEE 731

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2098145 AT3G44630 [Arabidopsis thaliana (taxid:3702)]

 Score = 121 (47.7 bits), Expect = 0.00072, P = 0.00072
 Identities = 42/149 (28%), Positives = 75/149 (50%)

Query:   225 QLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVS 284
             QL NL+   L   + L KE   S +   +L+ L++ +CS L KL PPS +  NL+ L ++
Sbjct:   737 QLRNLKWMDLSDSRDL-KELPSSIEKLTSLQILDLRDCSSLVKL-PPSINANNLQGLSLT 794

Query:   285 KCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCL 344
              C  ++    L A +N+ NL ++ + +C  + ++  L +G      N++K L+  G   L
Sbjct:   795 NCSRVVK---LPAIENVTNLHQLKLQNCSSLIEL-PLSIGTAN---NLWK-LDIRGCSSL 846

Query:   345 PSLTSFCLGNYALEFPSLKQVVVRQCPKM 373
               L S  +G    +  +LK+  +  C  +
Sbjct:   847 VKLPS-SIG----DMTNLKEFDLSNCSNL 870


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.319   0.135   0.407    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      388       365   0.00084  117 3  11 22  0.39    34
                                                     34  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  616 (65 KB)
  Total size of DFA:  259 KB (2137 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  29.20u 0.11s 29.31t   Elapsed:  00:00:02
  Total cpu time:  29.20u 0.11s 29.31t   Elapsed:  00:00:02
  Start:  Fri May 10 03:45:51 2013   End:  Fri May 10 03:45:53 2013

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS;TAS

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_V000020 hypothetical protein (758 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	388
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-05

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 46.0 bits (109), Expect = 2e-05
 Identities = 57/215 (26%), Positives = 97/215 (45%), Gaps = 38/215 (17%)

Query: 79  NLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLF- 137
           N++ L +D++       P+NL   L NL+ L +  C+     +  E+L  + + + PL  
Sbjct: 726 NISWLDLDETA--IEEFPSNLR--LENLDELIL--CE-----MKSEKLWERVQPLTPLMT 774

Query: 138 ---PRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTAD 194
              P L  L L D+P L        +I  L KLE+L IENC ++ET  +        + D
Sbjct: 775 MLSPSLTRLFLSDIPSL---VELPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLD 831

Query: 195 NKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANL 254
                +L++  +  ++  I  L           NL  +G+ +V   W E       F+NL
Sbjct: 832 LSGCSRLRTFPD--ISTNISDL-----------NLSRTGIEEVP-WWIEK------FSNL 871

Query: 255 ERLEISECSKLQKLVPPSWHLENLEALKVSKCHEL 289
             L+++ C+ LQ++      L++LE +  S C  L
Sbjct: 872 SFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGAL 906

syringae 6; Provisional. Length = 1153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	388
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.9
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.88
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.85
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.84
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.66
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.64
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.64
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.63
KOG4341	483	consensus F-box protein containing LRR [General fu	99.47
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.4
KOG4341	483	consensus F-box protein containing LRR [General fu	99.39
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.33
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.32
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.22
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.16
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.15
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.11
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.11
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.01
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.95
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.89
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.87
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.86
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.85
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.79
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.53
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.43
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.42
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.35
KOG1947	482	consensus Leucine rich repeat proteins, some prote	98.32
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.3
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.2
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.2
PRK15386	426	type III secretion protein GogB; Provisional	98.15
KOG1947	482	consensus Leucine rich repeat proteins, some prote	98.09
PRK15386	426	type III secretion protein GogB; Provisional	97.99
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.92
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.88
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.77
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.69
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.6
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.49
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.44
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	97.39
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.35
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	97.26
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	97.24
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.18
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.12
PLN03150	623	hypothetical protein; Provisional	97.07
PLN03150	623	hypothetical protein; Provisional	96.81
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.73
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	96.7
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.54
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.27
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	96.19
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.07
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.57
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	95.49
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.4
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	95.38
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	95.38
KOG2123	388	consensus Uncharacterized conserved protein [Funct	94.8
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.7
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	94.63
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	94.6
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.44
KOG3864	221	consensus Uncharacterized conserved protein [Funct	94.34
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.73
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	93.64
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	92.22
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	91.2
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	89.96
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	80.65

>PLN03210 Resistant to P

Probab=99.90  E-value=8.1e-23  Score=216.44  Aligned_cols=289  Identities=23%  Similarity=0.315  Sum_probs=188.7

Q ss_pred             cceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCC
Q 040122           25 GELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLN  104 (388)
Q Consensus        25 ~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~  104 (388)
                      +..+.|.+    ..++.+|..+ .+.+|++|++.++. +...|.+.    ..+++|+.|++++|..+..++.   +..++
T Consensus       591 Lr~L~~~~----~~l~~lP~~f-~~~~L~~L~L~~s~-l~~L~~~~----~~l~~Lk~L~Ls~~~~l~~ip~---ls~l~  657 (1153)
T PLN03210        591 LRLLRWDK----YPLRCMPSNF-RPENLVKLQMQGSK-LEKLWDGV----HSLTGLRNIDLRGSKNLKEIPD---LSMAT  657 (1153)
T ss_pred             cEEEEecC----CCCCCCCCcC-CccCCcEEECcCcc-cccccccc----ccCCCCCEEECCCCCCcCcCCc---cccCC
Confidence            44556666    3344455554 46889999998765 77788777    6789999999999877777543   67889


Q ss_pred             CCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCC
Q 040122          105 NLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSN  184 (388)
Q Consensus       105 ~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~  184 (388)
                      +|++|++++|..+..+|..          +..+++|+.|++++|..++.++  ..  ..+++|+.|++.+|..+..++..
T Consensus       658 ~Le~L~L~~c~~L~~lp~s----------i~~L~~L~~L~L~~c~~L~~Lp--~~--i~l~sL~~L~Lsgc~~L~~~p~~  723 (1153)
T PLN03210        658 NLETLKLSDCSSLVELPSS----------IQYLNKLEDLDMSRCENLEILP--TG--INLKSLYRLNLSGCSRLKSFPDI  723 (1153)
T ss_pred             cccEEEecCCCCccccchh----------hhccCCCCEEeCCCCCCcCccC--Cc--CCCCCCCEEeCCCCCCccccccc
Confidence            9999999999888887664          4668999999999998888873  22  26889999999999877766532


Q ss_pred             cceeeecccCCCccccccCCceEEEec-ccccccccc------------------------------cCCCCcceEEecC
Q 040122          185 STFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEK------------------------------VAFPQLGNLRLSG  233 (388)
Q Consensus       185 ~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~------------------------------~~~~~L~~L~l~~  233 (388)
                                      .++|+.|++.+ ....++..+                              ..+++|+.|++++
T Consensus       724 ----------------~~nL~~L~L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~  787 (1153)
T PLN03210        724 ----------------STNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSD  787 (1153)
T ss_pred             ----------------cCCcCeeecCCCccccccccccccccccccccccchhhccccccccchhhhhccccchheeCCC
Confidence                            23444444444 222222211                              1234555555555


Q ss_pred             CCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          234 LHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      |+.+..+|...    +.+++|+.|++++|..++.+|... .+++|++|++++|..+..++.     ...+|+.|+++++ 
T Consensus       788 n~~l~~lP~si----~~L~~L~~L~Ls~C~~L~~LP~~~-~L~sL~~L~Ls~c~~L~~~p~-----~~~nL~~L~Ls~n-  856 (1153)
T PLN03210        788 IPSLVELPSSI----QNLHKLEHLEIENCINLETLPTGI-NLESLESLDLSGCSRLRTFPD-----ISTNISDLNLSRT-  856 (1153)
T ss_pred             CCCccccChhh----hCCCCCCEEECCCCCCcCeeCCCC-CccccCEEECCCCCccccccc-----cccccCEeECCCC-
Confidence            55444444321    445555666665555555555443 455556666655555444321     1244555555554 


Q ss_pred             ccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCccccc
Q 040122          314 MIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFS  377 (388)
Q Consensus       314 ~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp  377 (388)
                      .+++++.        ....+++|++|++.+|++++.++.....  +++|+.+++.+|++++.++
T Consensus       857 ~i~~iP~--------si~~l~~L~~L~L~~C~~L~~l~~~~~~--L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        857 GIEEVPW--------WIEKFSNLSFLDMNGCNNLQRVSLNISK--LKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             CCccChH--------HHhcCCCCCEEECCCCCCcCccCccccc--ccCCCeeecCCCccccccc
Confidence            2333332        2345788999999999999988876644  7899999999999888664

syringae 6; Provisional

>PLN03210 Resistant to P

Probab=99.88  E-value=1.6e-21  Score=206.72  Aligned_cols=303  Identities=20%  Similarity=0.263  Sum_probs=225.0

Q ss_pred             cCcceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhc
Q 040122           23 EEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRC  102 (388)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  102 (388)
                      .++.+++..+    +.+..++.....+++|+.++++++..+..++..     ..+++|++|++.+|..+..+|..  +++
T Consensus       611 ~~L~~L~L~~----s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~l-----s~l~~Le~L~L~~c~~L~~lp~s--i~~  679 (1153)
T PLN03210        611 ENLVKLQMQG----SKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPDL-----SMATNLETLKLSDCSSLVELPSS--IQY  679 (1153)
T ss_pred             cCCcEEECcC----ccccccccccccCCCCCEEECCCCCCcCcCCcc-----ccCCcccEEEecCCCCccccchh--hhc
Confidence            3456666666    567778888888999999999988766655432     46899999999999888885543  899


Q ss_pred             CCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccccc
Q 040122          103 LNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFT  182 (388)
Q Consensus       103 l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~  182 (388)
                      +++|++|++++|..++.+|..           ..+++|+.|++++|..+..++  .    ..++|++|++.++ .++.+|
T Consensus       680 L~~L~~L~L~~c~~L~~Lp~~-----------i~l~sL~~L~Lsgc~~L~~~p--~----~~~nL~~L~L~~n-~i~~lP  741 (1153)
T PLN03210        680 LNKLEDLDMSRCENLEILPTG-----------INLKSLYRLNLSGCSRLKSFP--D----ISTNISWLDLDET-AIEEFP  741 (1153)
T ss_pred             cCCCCEEeCCCCCCcCccCCc-----------CCCCCCCEEeCCCCCCccccc--c----ccCCcCeeecCCC-cccccc
Confidence            999999999999998888653           258899999999998777662  1    2457888888876 455555


Q ss_pred             CCcceeeeccc---CC---------------CccccccCCceEEEec--ccccccccccCCCCcceEEecCCCCcceecc
Q 040122          183 SNSTFVLHMTA---DN---------------KEPQKLKSEENLLVAN--QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWK  242 (388)
Q Consensus       183 ~~~~~~~~l~~---~~---------------~~l~~l~~L~~L~l~~--~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  242 (388)
                      ... ...+|..   ..               .....+++|+.|++++  ....+|..++.+++|+.|++++|..++.+|.
T Consensus       742 ~~~-~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~  820 (1153)
T PLN03210        742 SNL-RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPT  820 (1153)
T ss_pred             ccc-cccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCC
Confidence            321 1122221   00               0112346899999988  4567888889999999999999999998876


Q ss_pred             cCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhccc
Q 040122          243 ENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQ  322 (388)
Q Consensus       243 ~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~  322 (388)
                      .     ..+++|+.|++++|..+..+|..   ..+|+.|+++++ .++.++.  ....+++|+.|++.+|+.++.++.  
T Consensus       821 ~-----~~L~sL~~L~Ls~c~~L~~~p~~---~~nL~~L~Ls~n-~i~~iP~--si~~l~~L~~L~L~~C~~L~~l~~--  887 (1153)
T PLN03210        821 G-----INLESLESLDLSGCSRLRTFPDI---STNISDLNLSRT-GIEEVPW--WIEKFSNLSFLDMNGCNNLQRVSL--  887 (1153)
T ss_pred             C-----CCccccCEEECCCCCcccccccc---ccccCEeECCCC-CCccChH--HHhcCCCCCEEECCCCCCcCccCc--
Confidence            4     35789999999999988877643   468999999885 6666543  347899999999999999988765  


Q ss_pred             ccccCCccccccccceEecccCCCcceecCCCcc-----------ccCCCcceEEeccCCCcc
Q 040122          323 VGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYA-----------LEFPSLKQVVVRQCPKMK  374 (388)
Q Consensus       323 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~-----------~~~~~L~~L~l~~c~~l~  374 (388)
                            ....+++|+.+++.+|++++.++....+           ..+|+...+.+.+|.++.
T Consensus       888 ------~~~~L~~L~~L~l~~C~~L~~~~l~~~~~~~~~~~~n~~~~~p~~~~l~f~nC~~L~  944 (1153)
T PLN03210        888 ------NISKLKHLETVDFSDCGALTEASWNGSPSEVAMATDNIHSKLPSTVCINFINCFNLD  944 (1153)
T ss_pred             ------ccccccCCCeeecCCCcccccccCCCCchhhhhhcccccccCCchhccccccccCCC
Confidence                  2345689999999999998866542211           124455666677777664

syringae 6; Provisional

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

Probab=99.85  E-value=4.3e-21  Score=202.33  Aligned_cols=275  Identities=15%  Similarity=0.051  Sum_probs=122.7

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      +++|++|++++| .+....|.. ++++++|++|++++|.....+|..          +..+++|++|+++++.....+  
T Consensus       139 l~~L~~L~Ls~n-~~~~~~p~~-~~~l~~L~~L~L~~n~l~~~~p~~----------~~~l~~L~~L~L~~n~l~~~~--  204 (968)
T PLN00113        139 IPNLETLDLSNN-MLSGEIPND-IGSFSSLKVLDLGGNVLVGKIPNS----------LTNLTSLEFLTLASNQLVGQI--  204 (968)
T ss_pred             cCCCCEEECcCC-cccccCChH-HhcCCCCCEEECccCcccccCChh----------hhhCcCCCeeeccCCCCcCcC--
Confidence            455555555554 222222222 455555555555554332233221          233455555555544322222  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec--ccccccccccCCCCcceEEecCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN--QIQHLFDEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~--~~~~~~~~~~~~~~L~~L~l~~~  234 (388)
                      +.. ++.+++|++|++.++.-....+.             .++.+++|+.|++++  ..+.++..++.+++|+.|+++++
T Consensus       205 p~~-l~~l~~L~~L~L~~n~l~~~~p~-------------~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n  270 (968)
T PLN00113        205 PRE-LGQMKSLKWIYLGYNNLSGEIPY-------------EIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQN  270 (968)
T ss_pred             ChH-HcCcCCccEEECcCCccCCcCCh-------------hHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCC
Confidence            111 34455555555555421112221             145555666666555  12234445555556666665554


Q ss_pred             CCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccc
Q 040122          235 HKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKM  314 (388)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~  314 (388)
                      .-...++..    ...+++|++|++++|.....+|..+..+++|++|+++++.-....+ . ....+++|+.|++++|..
T Consensus       271 ~l~~~~p~~----l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~-~-~~~~l~~L~~L~L~~n~l  344 (968)
T PLN00113        271 KLSGPIPPS----IFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIP-V-ALTSLPRLQVLQLWSNKF  344 (968)
T ss_pred             eeeccCchh----HhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCC-h-hHhcCCCCCEEECcCCCC
Confidence            221112211    1344555555555554444444444555555555555442111111 1 123445555555555443


Q ss_pred             cchhhccccccc----------------CCccccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccC
Q 040122          315 IEQIIQLQVGEE----------------AKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQ  378 (388)
Q Consensus       315 ~~~~~~~~~~~~----------------~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~  378 (388)
                      ...++..-....                ......+++|+.|++.+++....++....  .+++|+.|++.+|.....+|.
T Consensus       345 ~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~--~~~~L~~L~L~~n~l~~~~p~  422 (968)
T PLN00113        345 SGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLG--ACRSLRRVRLQDNSFSGELPS  422 (968)
T ss_pred             cCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEecccCCHHHh--CCCCCCEEECcCCEeeeECCh
Confidence            222221000000                00011224455555555433233333222  267888888888776667777


Q ss_pred             CCCCCCCCC
Q 040122          379 GLLDTPMLN  387 (388)
Q Consensus       379 ~~~~~~~L~  387 (388)
                      .+.++++|+
T Consensus       423 ~~~~l~~L~  431 (968)
T PLN00113        423 EFTKLPLVY  431 (968)
T ss_pred             hHhcCCCCC
Confidence            777776664

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

Probab=99.84  E-value=2e-20  Score=197.25  Aligned_cols=142  Identities=18%  Similarity=0.131  Sum_probs=75.6

Q ss_pred             cCCCCccceeeec--------------ccCcceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccc-eeccccccC
Q 040122            9 LSIPKPCKVQVTE--------------KEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQ-EIWHGQALP   73 (388)
Q Consensus         9 ~~~~~l~~l~~~~--------------~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~-~~~~~~~~~   73 (388)
                      ..+++|+.|.++.              ..+++.+++.++....   .+|.  ..+++|++|+++++. +. ..+...   
T Consensus        90 ~~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~---~~p~--~~l~~L~~L~Ls~n~-~~~~~p~~~---  160 (968)
T PLN00113         90 FRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTG---SIPR--GSIPNLETLDLSNNM-LSGEIPNDI---  160 (968)
T ss_pred             hCCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCcccc---ccCc--cccCCCCEEECcCCc-ccccCChHH---
Confidence            4567777776543              3345556555522111   1222  346777777777665 33 223222   


Q ss_pred             ccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCccccc
Q 040122           74 VRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKR  153 (388)
Q Consensus        74 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~  153 (388)
                       +.+++|++|++++|. +....|.. +.++++|++|++++|...+.+|..          +..+++|+.|+++++.....
T Consensus       161 -~~l~~L~~L~L~~n~-l~~~~p~~-~~~l~~L~~L~L~~n~l~~~~p~~----------l~~l~~L~~L~L~~n~l~~~  227 (968)
T PLN00113        161 -GSFSSLKVLDLGGNV-LVGKIPNS-LTNLTSLEFLTLASNQLVGQIPRE----------LGQMKSLKWIYLGYNNLSGE  227 (968)
T ss_pred             -hcCCCCCEEECccCc-ccccCChh-hhhCcCCCeeeccCCCCcCcCChH----------HcCcCCccEEECcCCccCCc
Confidence             557777777777773 33323333 677777777777776544343332          24456666666655533222


Q ss_pred             ccCCCCccccCCCcceEeEecC
Q 040122          154 FCNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       154 ~~~~~~~~~~l~~L~~L~l~~c  175 (388)
                      +  +.. ++.+++|++|++.+|
T Consensus       228 ~--p~~-l~~l~~L~~L~L~~n  246 (968)
T PLN00113        228 I--PYE-IGGLTSLNHLDLVYN  246 (968)
T ss_pred             C--Chh-HhcCCCCCEEECcCc
Confidence            2  212 445566666666555

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

Probab=99.66  E-value=1.8e-18  Score=161.69  Aligned_cols=280  Identities=22%  Similarity=0.266  Sum_probs=141.1

Q ss_pred             HhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceec
Q 040122           42 CYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVL  121 (388)
Q Consensus        42 l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~  121 (388)
                      +|.++..+..|..|+++.+. +.+.+.+.    .+-+++..|++++| ++.+ .|...+.++.-|-+||+++ +.++.+|
T Consensus        95 iP~diF~l~dLt~lDLShNq-L~EvP~~L----E~AKn~iVLNLS~N-~Iet-IPn~lfinLtDLLfLDLS~-NrLe~LP  166 (1255)
T KOG0444|consen   95 IPTDIFRLKDLTILDLSHNQ-LREVPTNL----EYAKNSIVLNLSYN-NIET-IPNSLFINLTDLLFLDLSN-NRLEMLP  166 (1255)
T ss_pred             CCchhcccccceeeecchhh-hhhcchhh----hhhcCcEEEEcccC-cccc-CCchHHHhhHhHhhhcccc-chhhhcC
Confidence            44444455555555555433 44333333    34445555555544 3333 2333344555555555554 2344443


Q ss_pred             ccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCC-cccccCCcceeeecccCCCcccc
Q 040122          122 HLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPD-METFTSNSTFVLHMTADNKEPQK  200 (388)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~-l~~~~~~~~~~~~l~~~~~~l~~  200 (388)
                      +.          ...+.+|+.|++++++. ..+  ...++..+++|+.|.+++..+ +..+|..             +..
T Consensus       167 PQ----------~RRL~~LqtL~Ls~NPL-~hf--QLrQLPsmtsL~vLhms~TqRTl~N~Pts-------------ld~  220 (1255)
T KOG0444|consen  167 PQ----------IRRLSMLQTLKLSNNPL-NHF--QLRQLPSMTSLSVLHMSNTQRTLDNIPTS-------------LDD  220 (1255)
T ss_pred             HH----------HHHHhhhhhhhcCCChh-hHH--HHhcCccchhhhhhhcccccchhhcCCCc-------------hhh
Confidence            32          23455555555555442 111  001122344445555555433 2333333             455


Q ss_pred             ccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCC
Q 040122          201 LKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLE  279 (388)
Q Consensus       201 l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~  279 (388)
                      +.||..++++. +...+|..+-.+++|+.|++++ +.++.+....    ....+|++|+++.+ .+..+|..+..+++|+
T Consensus       221 l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~-N~iteL~~~~----~~W~~lEtLNlSrN-QLt~LP~avcKL~kL~  294 (1255)
T KOG0444|consen  221 LHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSG-NKITELNMTE----GEWENLETLNLSRN-QLTVLPDAVCKLTKLT  294 (1255)
T ss_pred             hhhhhhccccccCCCcchHHHhhhhhhheeccCc-CceeeeeccH----HHHhhhhhhccccc-hhccchHHHhhhHHHH
Confidence            55566666555 4444555555555666666655 3444443322    34455555555553 3455565566666666


Q ss_pred             EEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccC
Q 040122          280 ALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEF  359 (388)
Q Consensus       280 ~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~  359 (388)
                      .|...+. +++.-..++..+++..|+.+..+++ .++-+|.        +.-.|+.|+.|.+.+ +.|-.+|.++..  +
T Consensus       295 kLy~n~N-kL~FeGiPSGIGKL~~Levf~aanN-~LElVPE--------glcRC~kL~kL~L~~-NrLiTLPeaIHl--L  361 (1255)
T KOG0444|consen  295 KLYANNN-KLTFEGIPSGIGKLIQLEVFHAANN-KLELVPE--------GLCRCVKLQKLKLDH-NRLITLPEAIHL--L  361 (1255)
T ss_pred             HHHhccC-cccccCCccchhhhhhhHHHHhhcc-ccccCch--------hhhhhHHHHHhcccc-cceeechhhhhh--c
Confidence            6655442 3333333344455666666666554 3443333        224456777777765 356677777744  7


Q ss_pred             CCcceEEeccCCCcc
Q 040122          360 PSLKQVVVRQCPKMK  374 (388)
Q Consensus       360 ~~L~~L~l~~c~~l~  374 (388)
                      |-|+.|++..+|.+.
T Consensus       362 ~~l~vLDlreNpnLV  376 (1255)
T KOG0444|consen  362 PDLKVLDLRENPNLV  376 (1255)
T ss_pred             CCcceeeccCCcCcc
Confidence            888888888877764

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

Probab=99.64  E-value=1.7e-18  Score=161.94  Aligned_cols=320  Identities=18%  Similarity=0.202  Sum_probs=213.9

Q ss_pred             cCcceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCc--ccCChhhh
Q 040122           23 EEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMS--SAIPANLL  100 (388)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~--~~~~~~~~  100 (388)
                      ++...+.|-. --.+.+..+|+++..+.+|++|.++.+. +..+.-..    ..++.|+++.+.+| +++  .+|+.  +
T Consensus        29 ~qMt~~~WLk-Lnrt~L~~vPeEL~~lqkLEHLs~~HN~-L~~vhGEL----s~Lp~LRsv~~R~N-~LKnsGiP~d--i   99 (1255)
T KOG0444|consen   29 EQMTQMTWLK-LNRTKLEQVPEELSRLQKLEHLSMAHNQ-LISVHGEL----SDLPRLRSVIVRDN-NLKNSGIPTD--I   99 (1255)
T ss_pred             HHhhheeEEE-echhhhhhChHHHHHHhhhhhhhhhhhh-hHhhhhhh----ccchhhHHHhhhcc-ccccCCCCch--h
Confidence            3344455554 2236678899999999999999998765 44333222    45777777777776 333  23333  6


Q ss_pred             hcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccc
Q 040122          101 RCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMET  180 (388)
Q Consensus       101 ~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~  180 (388)
                      -++.-|..||++. +.++++|..          +....++-.|+++++ .++.+  |.+-..++..|-.|++++. +++.
T Consensus       100 F~l~dLt~lDLSh-NqL~EvP~~----------LE~AKn~iVLNLS~N-~IetI--Pn~lfinLtDLLfLDLS~N-rLe~  164 (1255)
T KOG0444|consen  100 FRLKDLTILDLSH-NQLREVPTN----------LEYAKNSIVLNLSYN-NIETI--PNSLFINLTDLLFLDLSNN-RLEM  164 (1255)
T ss_pred             cccccceeeecch-hhhhhcchh----------hhhhcCcEEEEcccC-ccccC--CchHHHhhHhHhhhccccc-hhhh
Confidence            6777778888877 355555443          233455556666553 34555  2232334555555666663 5555


Q ss_pred             ccCCcceeeeccc---CC--------CccccccCCceEEEec---ccccccccccCCCCcceEEecCCCCcceecccCch
Q 040122          181 FTSNSTFVLHMTA---DN--------KEPQKLKSEENLLVAN---QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDE  246 (388)
Q Consensus       181 ~~~~~~~~~~l~~---~~--------~~l~~l~~L~~L~l~~---~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  246 (388)
                      +|+..-|+..|+.   .+        +.+..+++|+.|.+++   +...+|.++..+.+|..++++. +++..+|.+.  
T Consensus       165 LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~-N~Lp~vPecl--  241 (1255)
T KOG0444|consen  165 LPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSE-NNLPIVPECL--  241 (1255)
T ss_pred             cCHHHHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccc-cCCCcchHHH--
Confidence            5554444333333   11        1355667777777877   5677888888999999999987 5677777654  


Q ss_pred             hHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccc-cchhhcccccc
Q 040122          247 SNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKM-IEQIIQLQVGE  325 (388)
Q Consensus       247 ~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~-~~~~~~~~~~~  325 (388)
                        ..+.+|+.|+++++ .++++....+...+|++|++++. .++.+|..  .-++++|+.|++.++.. .+.+|.     
T Consensus       242 --y~l~~LrrLNLS~N-~iteL~~~~~~W~~lEtLNlSrN-QLt~LP~a--vcKL~kL~kLy~n~NkL~FeGiPS-----  310 (1255)
T KOG0444|consen  242 --YKLRNLRRLNLSGN-KITELNMTEGEWENLETLNLSRN-QLTVLPDA--VCKLTKLTKLYANNNKLTFEGIPS-----  310 (1255)
T ss_pred             --hhhhhhheeccCcC-ceeeeeccHHHHhhhhhhccccc-hhccchHH--HhhhHHHHHHHhccCcccccCCcc-----
Confidence              78899999999996 46666566667789999999985 67776543  35789999999987754 334544     


Q ss_pred             cCCccccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCCCCCCCCCC
Q 040122          326 EAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       326 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                         +++.+..|+.+...+ ++|.-+|.+.+.  |++|+.|.+. |..+..+|.++--+|.|+
T Consensus       311 ---GIGKL~~Levf~aan-N~LElVPEglcR--C~kL~kL~L~-~NrLiTLPeaIHlL~~l~  365 (1255)
T KOG0444|consen  311 ---GIGKLIQLEVFHAAN-NKLELVPEGLCR--CVKLQKLKLD-HNRLITLPEAIHLLPDLK  365 (1255)
T ss_pred             ---chhhhhhhHHHHhhc-cccccCchhhhh--hHHHHHhccc-ccceeechhhhhhcCCcc
Confidence               334556777777766 468888888855  9999999887 566778998887666654

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

Probab=99.64  E-value=1.5e-16  Score=147.77  Aligned_cols=304  Identities=17%  Similarity=0.154  Sum_probs=177.2

Q ss_pred             hccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccc
Q 040122           45 EKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLE  124 (388)
Q Consensus        45 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~  124 (388)
                      .+..+++|+++.+.++. ++.+|...    +...+|+.|+|.+| .+.++.... +.-++.||.||++. +.+.+++...
T Consensus        97 ~f~nl~nLq~v~l~~N~-Lt~IP~f~----~~sghl~~L~L~~N-~I~sv~se~-L~~l~alrslDLSr-N~is~i~~~s  168 (873)
T KOG4194|consen   97 FFYNLPNLQEVNLNKNE-LTRIPRFG----HESGHLEKLDLRHN-LISSVTSEE-LSALPALRSLDLSR-NLISEIPKPS  168 (873)
T ss_pred             HHhcCCcceeeeeccch-hhhccccc----ccccceeEEeeecc-ccccccHHH-HHhHhhhhhhhhhh-chhhcccCCC
Confidence            44577999999998665 77788777    66778999999887 555544433 77888899999998 4566654321


Q ss_pred             cccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcce-eeeccc----------
Q 040122          125 ELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTF-VLHMTA----------  193 (388)
Q Consensus       125 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~-~~~l~~----------  193 (388)
                               +..-.++++|++.++ .++.+  ....+..+.+|-.|.+++. +++.+|...+. +.+|+.          
T Consensus       169 ---------fp~~~ni~~L~La~N-~It~l--~~~~F~~lnsL~tlkLsrN-rittLp~r~Fk~L~~L~~LdLnrN~iri  235 (873)
T KOG4194|consen  169 ---------FPAKVNIKKLNLASN-RITTL--ETGHFDSLNSLLTLKLSRN-RITTLPQRSFKRLPKLESLDLNRNRIRI  235 (873)
T ss_pred             ---------CCCCCCceEEeeccc-ccccc--ccccccccchheeeecccC-cccccCHHHhhhcchhhhhhccccceee
Confidence                     234467888888775 35555  3333556778888888884 77777766532 221211          


Q ss_pred             -CCCccccccCCceEEEec-cccccc-ccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccc-c
Q 040122          194 -DNKEPQKLKSEENLLVAN-QIQHLF-DEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKL-V  269 (388)
Q Consensus       194 -~~~~l~~l~~L~~L~l~~-~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~-~  269 (388)
                       .+-.++++++|+.|.+.. ....+. ..+..+.++++|++.. +.++....+.   +..++.|+.|+++.+. ++.+ +
T Consensus       236 ve~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~-N~l~~vn~g~---lfgLt~L~~L~lS~Na-I~rih~  310 (873)
T KOG4194|consen  236 VEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLET-NRLQAVNEGW---LFGLTSLEQLDLSYNA-IQRIHI  310 (873)
T ss_pred             ehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeeccc-chhhhhhccc---ccccchhhhhccchhh-hheeec
Confidence             011344555555555544 222221 1122345666666655 3444443332   2667788888888764 3333 4


Q ss_pred             CCccccCCCCEEeeccCcCcccccchhhhcCcc------------------------ccceeeEccccccchhhcccccc
Q 040122          270 PPSWHLENLEALKVSKCHELINVLTLSASKNLV------------------------NLGRMMIADCKMIEQIIQLQVGE  325 (388)
Q Consensus       270 ~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~------------------------~L~~L~l~~~~~~~~~~~~~~~~  325 (388)
                      .....+++|+.|+++.. .++.++..++ ..++                        +|++|++..+.....+  +|...
T Consensus       311 d~WsftqkL~~LdLs~N-~i~~l~~~sf-~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~I--EDaa~  386 (873)
T KOG4194|consen  311 DSWSFTQKLKELDLSSN-RITRLDEGSF-RVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCI--EDAAV  386 (873)
T ss_pred             chhhhcccceeEecccc-ccccCChhHH-HHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEE--ecchh
Confidence            44455678888888864 4555533222 2334                        4444444443321111  11111


Q ss_pred             cCCccccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCCCCCC
Q 040122          326 EAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDT  383 (388)
Q Consensus       326 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~  383 (388)
                         ....+++|+.|.+.+. ++++++..+. ..+++||.|++.+++..+.=|..+..+
T Consensus       387 ---~f~gl~~LrkL~l~gN-qlk~I~krAf-sgl~~LE~LdL~~NaiaSIq~nAFe~m  439 (873)
T KOG4194|consen  387 ---AFNGLPSLRKLRLTGN-QLKSIPKRAF-SGLEALEHLDLGDNAIASIQPNAFEPM  439 (873)
T ss_pred             ---hhccchhhhheeecCc-eeeecchhhh-ccCcccceecCCCCcceeecccccccc
Confidence               1244678888888774 6777766441 127888888888877554445555554

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

Probab=99.63  E-value=7.5e-17  Score=149.82  Aligned_cols=152  Identities=21%  Similarity=0.248  Sum_probs=84.9

Q ss_pred             cccccCCceEEEec-ccccc-cccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccC-Cccc
Q 040122          198 PQKLKSEENLLVAN-QIQHL-FDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVP-PSWH  274 (388)
Q Consensus       198 l~~l~~L~~L~l~~-~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~-~~~~  274 (388)
                      +-+++.|+.|+++. ....+ ..+....++|+.|+++. +.++.++.+.+   ..+..|++|.++++. +..+.. .+..
T Consensus       289 lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~-N~i~~l~~~sf---~~L~~Le~LnLs~Ns-i~~l~e~af~~  363 (873)
T KOG4194|consen  289 LFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSS-NRITRLDEGSF---RVLSQLEELNLSHNS-IDHLAEGAFVG  363 (873)
T ss_pred             ccccchhhhhccchhhhheeecchhhhcccceeEeccc-cccccCChhHH---HHHHHhhhhcccccc-hHHHHhhHHHH
Confidence            44555555555554 11111 22233455666666665 45666655543   445566666666653 222221 3456


Q ss_pred             cCCCCEEeeccCc---CcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceec
Q 040122          275 LENLEALKVSKCH---ELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFC  351 (388)
Q Consensus       275 ~~~L~~L~l~~c~---~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  351 (388)
                      +.+|+.|++.+..   -++|.... + ..+++|+.|.+.++ .++.++..       ....++.|++|++.+.+ +.++.
T Consensus       364 lssL~~LdLr~N~ls~~IEDaa~~-f-~gl~~LrkL~l~gN-qlk~I~kr-------Afsgl~~LE~LdL~~Na-iaSIq  432 (873)
T KOG4194|consen  364 LSSLHKLDLRSNELSWCIEDAAVA-F-NGLPSLRKLRLTGN-QLKSIPKR-------AFSGLEALEHLDLGDNA-IASIQ  432 (873)
T ss_pred             hhhhhhhcCcCCeEEEEEecchhh-h-ccchhhhheeecCc-eeeecchh-------hhccCcccceecCCCCc-ceeec
Confidence            6888888887642   13332222 2 45999999999987 46666541       12457889999998864 55554


Q ss_pred             CCCccccCCCcceEEe
Q 040122          352 LGNYALEFPSLKQVVV  367 (388)
Q Consensus       352 ~~~~~~~~~~L~~L~l  367 (388)
                      ..+.. .+ .|++|.+
T Consensus       433 ~nAFe-~m-~Lk~Lv~  446 (873)
T KOG4194|consen  433 PNAFE-PM-ELKELVM  446 (873)
T ss_pred             ccccc-cc-hhhhhhh
Confidence            43311 12 5666554

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

Probab=99.47  E-value=3.4e-16  Score=140.21  Aligned_cols=296  Identities=18%  Similarity=0.182  Sum_probs=199.0

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      .-|+.|.+.+|..+.+..... .. ..++++++|.+.+|.++++..-..+...|++|++|++..|..++... +.++   
T Consensus       138 g~lk~LSlrG~r~v~~sslrt-~~-~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~-Lk~l---  211 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRT-FA-SNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVS-LKYL---  211 (483)
T ss_pred             cccccccccccccCCcchhhH-Hh-hhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHH-HHHH---
Confidence            458999999988777544444 22 57899999999999888876655667889999999999987766531 1111   


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCc-cccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEE
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGN-IIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLL  208 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~-~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~  208 (388)
                          ...|++|++|+++.|+.+.+-  +... .-++..++.+...+|..+..-.....           -+.++.+.+++
T Consensus       212 ----a~gC~kL~~lNlSwc~qi~~~--gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~-----------~~~~~~i~~ln  274 (483)
T KOG4341|consen  212 ----AEGCRKLKYLNLSWCPQISGN--GVQALQRGCKELEKLSLKGCLELELEALLKA-----------AAYCLEILKLN  274 (483)
T ss_pred             ----HHhhhhHHHhhhccCchhhcC--cchHHhccchhhhhhhhcccccccHHHHHHH-----------hccChHhhccc
Confidence                356999999999999876652  1110 23566677777778865432221111           22334444444


Q ss_pred             Eec----ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccC--CccccCCCCEEe
Q 040122          209 VAN----QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVP--PSWHLENLEALK  282 (388)
Q Consensus       209 l~~----~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~--~~~~~~~L~~L~  282 (388)
                      +..    +...++..-..+..|+.|..++|..+++.....+  ..++.+|+.+.++.|..++..-.  -..+++.|+.++
T Consensus       275 l~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aL--g~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~  352 (483)
T KOG4341|consen  275 LQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWAL--GQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLD  352 (483)
T ss_pred             hhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHHHH--hcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhc
Confidence            333    2222333334577889999999888766443222  26788999999999987765422  124678999999


Q ss_pred             eccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccc--cccccceEecccCCCcceecCCCccccCC
Q 040122          283 VSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCN--VFKELEYLGLDCLPSLTSFCLGNYALEFP  360 (388)
Q Consensus       283 l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~--~~~~L~~L~l~~~~~l~~~~~~~~~~~~~  360 (388)
                      +..|..+.+......+.+++.||.+.++.|+.+++-     |+.+....  ....|..+.+.+||.+++-..... ..++
T Consensus       353 ~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~-----gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l-~~c~  426 (483)
T KOG4341|consen  353 LEECGLITDGTLASLSRNCPRLRVLSLSHCELITDE-----GIRHLSSSSCSLEGLEVLELDNCPLITDATLEHL-SICR  426 (483)
T ss_pred             ccccceehhhhHhhhccCCchhccCChhhhhhhhhh-----hhhhhhhccccccccceeeecCCCCchHHHHHHH-hhCc
Confidence            999887777655556789999999999999876543     33332222  235788999999988765544331 1378


Q ss_pred             CcceEEeccCCCcccc
Q 040122          361 SLKQVVVRQCPKMKIF  376 (388)
Q Consensus       361 ~L~~L~l~~c~~l~~l  376 (388)
                      +|+.+++.+|..++.-
T Consensus       427 ~Leri~l~~~q~vtk~  442 (483)
T KOG4341|consen  427 NLERIELIDCQDVTKE  442 (483)
T ss_pred             ccceeeeechhhhhhh
Confidence            9999999999887643

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.40  E-value=3e-12  Score=128.03  Aligned_cols=280  Identities=17%  Similarity=0.081  Sum_probs=128.3

Q ss_pred             cCcceeeecCC-CCchhHHHHhhhc--cCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhh
Q 040122           23 EEGELHHWEGN-NLNSTIQKCYDEK--IGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANL   99 (388)
Q Consensus        23 ~~~~~~~~~~~-~~~~~~~~l~~~~--~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~   99 (388)
                      ..|.+|...+. ++...-......+  +.-..-..|+++++. ++.+|...      .++|+.|++.+| +++.+|.   
T Consensus       171 ~~w~~w~~~~~~~e~~~r~~a~~r~~~Cl~~~~~~LdLs~~~-LtsLP~~l------~~~L~~L~L~~N-~Lt~LP~---  239 (788)
T PRK15387        171 AVWSAWRRAAPAEESRGRAAVVQKMRACLNNGNAVLNVGESG-LTTLPDCL------PAHITTLVIPDN-NLTSLPA---  239 (788)
T ss_pred             HHHHHHHhcCCCccchHHHHHHHHHHHHhcCCCcEEEcCCCC-CCcCCcch------hcCCCEEEccCC-cCCCCCC---
Confidence            34666766653 3322211222222  222446667777664 55444333      346777777776 5665432   


Q ss_pred             hhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcc
Q 040122          100 LRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDME  179 (388)
Q Consensus       100 ~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~  179 (388)
                        .+++|++|++++| .++.+|..             .++|+.|+++++. +..++  .    ..++|+.|++.++ .++
T Consensus       240 --lp~~Lk~LdLs~N-~LtsLP~l-------------p~sL~~L~Ls~N~-L~~Lp--~----lp~~L~~L~Ls~N-~Lt  295 (788)
T PRK15387        240 --LPPELRTLEVSGN-QLTSLPVL-------------PPGLLELSIFSNP-LTHLP--A----LPSGLCKLWIFGN-QLT  295 (788)
T ss_pred             --CCCCCcEEEecCC-ccCcccCc-------------ccccceeeccCCc-hhhhh--h----chhhcCEEECcCC-ccc
Confidence              2467778888774 45555431             3455666665542 33331  0    1234445555443 333


Q ss_pred             cccCCcceeeecccCCCc---c-ccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccc
Q 040122          180 TFTSNSTFVLHMTADNKE---P-QKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANL  254 (388)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~---l-~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L  254 (388)
                      .+|.....+..|.-.+..   + ....+|+.|++++ ....++.   ..++|+.|++++ +.++.+|.       ..++|
T Consensus       296 ~LP~~p~~L~~LdLS~N~L~~Lp~lp~~L~~L~Ls~N~L~~LP~---lp~~Lq~LdLS~-N~Ls~LP~-------lp~~L  364 (788)
T PRK15387        296 SLPVLPPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPT---LPSGLQELSVSD-NQLASLPT-------LPSEL  364 (788)
T ss_pred             cccccccccceeECCCCccccCCCCcccccccccccCccccccc---cccccceEecCC-CccCCCCC-------CCccc
Confidence            333210000000000000   0 0012344444443 2222221   113555666655 34444442       12445


Q ss_pred             cEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCcccccc
Q 040122          255 ERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFK  334 (388)
Q Consensus       255 ~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~  334 (388)
                      +.|+++++. +..+|..   ..+|+.|+++++ .+..++.     ..++|+.|++++|. +..++.           .+.
T Consensus       365 ~~L~Ls~N~-L~~LP~l---~~~L~~LdLs~N-~Lt~LP~-----l~s~L~~LdLS~N~-LssIP~-----------l~~  422 (788)
T PRK15387        365 YKLWAYNNR-LTSLPAL---PSGLKELIVSGN-RLTSLPV-----LPSELKELMVSGNR-LTSLPM-----------LPS  422 (788)
T ss_pred             ceehhhccc-cccCccc---ccccceEEecCC-cccCCCC-----cccCCCEEEccCCc-CCCCCc-----------chh
Confidence            555555542 3334321   235666666654 3443332     12456666666653 333332           124


Q ss_pred             ccceEecccCCCcceecCCCccccCCCcceEEeccCCCc
Q 040122          335 ELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKM  373 (388)
Q Consensus       335 ~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l  373 (388)
                      .|+.|++.++ .++.+|.....  +++|+.+++.+++--
T Consensus       423 ~L~~L~Ls~N-qLt~LP~sl~~--L~~L~~LdLs~N~Ls  458 (788)
T PRK15387        423 GLLSLSVYRN-QLTRLPESLIH--LSSETTVNLEGNPLS  458 (788)
T ss_pred             hhhhhhhccC-cccccChHHhh--ccCCCeEECCCCCCC
Confidence            5666666663 46666655433  677777777776643

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

Probab=99.39  E-value=4.5e-15  Score=133.09  Aligned_cols=268  Identities=18%  Similarity=0.210  Sum_probs=192.9

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCC
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF  157 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  157 (388)
                      ..|+.|.+.+|......+...+..++||+++|++.+|..++..--.        +....|++|+++++..|..++.....
T Consensus       138 g~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~--------sla~~C~~l~~l~L~~c~~iT~~~Lk  209 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLL--------SLARYCRKLRHLNLHSCSSITDVSLK  209 (483)
T ss_pred             cccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHH--------HHHHhcchhhhhhhcccchhHHHHHH
Confidence            4688999999988776555556789999999999999866542111        11367999999999999888765221


Q ss_pred             CCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec----ccccccccccCCCCcceEEecC
Q 040122          158 TGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN----QIQHLFDEKVAFPQLGNLRLSG  233 (388)
Q Consensus       158 ~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~----~~~~~~~~~~~~~~L~~L~l~~  233 (388)
                      .- ...|++|++|.++.|+.++.......           ..++..++.+...+    ....+....+..+-+..+++.+
T Consensus       210 ~l-a~gC~kL~~lNlSwc~qi~~~gv~~~-----------~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~  277 (483)
T KOG4341|consen  210 YL-AEGCRKLKYLNLSWCPQISGNGVQAL-----------QRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQH  277 (483)
T ss_pred             HH-HHhhhhHHHhhhccCchhhcCcchHH-----------hccchhhhhhhhcccccccHHHHHHHhccChHhhccchhh
Confidence            11 34799999999999999888665554           56677777776665    2222333334456677778888


Q ss_pred             CCCcceecccCchhHhhhccccEEEEecCCCccccc--CCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcc
Q 040122          234 LHKVQHLWKENDESNKAFANLERLEISECSKLQKLV--PPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIAD  311 (388)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~--~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~  311 (388)
                      |..+++...-  .....+..|+.+..++|..+...+  .-..+.++|+.|.++.|..+++.....+..+++.|+.+++..
T Consensus       278 c~~lTD~~~~--~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~  355 (483)
T KOG4341|consen  278 CNQLTDEDLW--LIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEE  355 (483)
T ss_pred             hccccchHHH--HHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccc
Confidence            8777764311  122567889999999998765432  123567999999999999999887777788999999999999


Q ss_pred             ccccchhhcccccccCCccccccccceEecccCCCccee-----cCCCccccCCCcceEEeccCCCccc
Q 040122          312 CKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSF-----CLGNYALEFPSLKQVVVRQCPKMKI  375 (388)
Q Consensus       312 ~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~-----~~~~~~~~~~~L~~L~l~~c~~l~~  375 (388)
                      |....+...     .. -...++.|+.|.+++|...++-     ..+.  .....|+.+++++||.++.
T Consensus       356 ~~~~~d~tL-----~s-ls~~C~~lr~lslshce~itD~gi~~l~~~~--c~~~~l~~lEL~n~p~i~d  416 (483)
T KOG4341|consen  356 CGLITDGTL-----AS-LSRNCPRLRVLSLSHCELITDEGIRHLSSSS--CSLEGLEVLELDNCPLITD  416 (483)
T ss_pred             cceehhhhH-----hh-hccCCchhccCChhhhhhhhhhhhhhhhhcc--ccccccceeeecCCCCchH
Confidence            876654411     11 2256899999999999776654     2222  2267899999999998874

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.33  E-value=6e-12  Score=125.89  Aligned_cols=239  Identities=17%  Similarity=0.107  Sum_probs=143.1

Q ss_pred             HHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccc
Q 040122           39 IQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLE  118 (388)
Q Consensus        39 ~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~  118 (388)
                      +..+|..+.  ++|+.|.+.++. ++.++       ..+++|++|++++| +++.++.     ..++|++|++++| .+.
T Consensus       213 LtsLP~~l~--~~L~~L~L~~N~-Lt~LP-------~lp~~Lk~LdLs~N-~LtsLP~-----lp~sL~~L~Ls~N-~L~  275 (788)
T PRK15387        213 LTTLPDCLP--AHITTLVIPDNN-LTSLP-------ALPPELRTLEVSGN-QLTSLPV-----LPPGLLELSIFSN-PLT  275 (788)
T ss_pred             CCcCCcchh--cCCCEEEccCCc-CCCCC-------CCCCCCcEEEecCC-ccCcccC-----cccccceeeccCC-chh
Confidence            344565543  478888888654 55433       23578888888887 6766443     2357788888775 344


Q ss_pred             eecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCcc
Q 040122          119 EVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEP  198 (388)
Q Consensus       119 ~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l  198 (388)
                      .++..             ..+|+.|+++++ .++.+  +.    ..++|++|+++++ .++.++.....+..|...+..+
T Consensus       276 ~Lp~l-------------p~~L~~L~Ls~N-~Lt~L--P~----~p~~L~~LdLS~N-~L~~Lp~lp~~L~~L~Ls~N~L  334 (788)
T PRK15387        276 HLPAL-------------PSGLCKLWIFGN-QLTSL--PV----LPPGLQELSVSDN-QLASLPALPSELCKLWAYNNQL  334 (788)
T ss_pred             hhhhc-------------hhhcCEEECcCC-ccccc--cc----cccccceeECCCC-ccccCCCCcccccccccccCcc
Confidence            44321             345556666554 33443  11    2345666666654 4444332111111111111112


Q ss_pred             cc----ccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCcc
Q 040122          199 QK----LKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSW  273 (388)
Q Consensus       199 ~~----l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~  273 (388)
                      ..    ..+|+.|++++ ....++..   .++|+.|++++ +.+..++       ...++|+.|++++|. +..+|..  
T Consensus       335 ~~LP~lp~~Lq~LdLS~N~Ls~LP~l---p~~L~~L~Ls~-N~L~~LP-------~l~~~L~~LdLs~N~-Lt~LP~l--  400 (788)
T PRK15387        335 TSLPTLPSGLQELSVSDNQLASLPTL---PSELYKLWAYN-NRLTSLP-------ALPSGLKELIVSGNR-LTSLPVL--  400 (788)
T ss_pred             ccccccccccceEecCCCccCCCCCC---Ccccceehhhc-cccccCc-------ccccccceEEecCCc-ccCCCCc--
Confidence            21    24799999988 44444432   45788888887 4567665       234689999999974 5556543  


Q ss_pred             ccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCC
Q 040122          274 HLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLP  345 (388)
Q Consensus       274 ~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  345 (388)
                       .++|+.|+++++ .++.++.     ...+|+.|++++|. ++.++.        ....+++|+.|++++++
T Consensus       401 -~s~L~~LdLS~N-~LssIP~-----l~~~L~~L~Ls~Nq-Lt~LP~--------sl~~L~~L~~LdLs~N~  456 (788)
T PRK15387        401 -PSELKELMVSGN-RLTSLPM-----LPSGLLSLSVYRNQ-LTRLPE--------SLIHLSSETTVNLEGNP  456 (788)
T ss_pred             -ccCCCEEEccCC-cCCCCCc-----chhhhhhhhhccCc-ccccCh--------HHhhccCCCeEECCCCC
Confidence             468999999996 5666542     23468889998864 555654        22456899999999875

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

Probab=99.32  E-value=2.7e-14  Score=127.51  Aligned_cols=60  Identities=20%  Similarity=0.192  Sum_probs=41.2

Q ss_pred             cccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCC
Q 040122          198 PQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECS  263 (388)
Q Consensus       198 l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~  263 (388)
                      ..+++++..|++.+ ...++|.++..+.+|.+|++++ +.+..++...    +.+ +|+.|.+.+++
T Consensus       248 ~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSN-N~is~Lp~sL----gnl-hL~~L~leGNP  308 (565)
T KOG0472|consen  248 LKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSN-NDISSLPYSL----GNL-HLKFLALEGNP  308 (565)
T ss_pred             hcccccceeeeccccccccCchHHHHhhhhhhhcccC-CccccCCccc----ccc-eeeehhhcCCc
Confidence            45677777888777 6777787777788888888887 4566666443    555 66666665544

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.22  E-value=5.7e-12  Score=128.51  Aligned_cols=125  Identities=24%  Similarity=0.367  Sum_probs=88.2

Q ss_pred             hhhccccEEEEecCCCcccccCC-----cc-ccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhccc
Q 040122          249 KAFANLERLEISECSKLQKLVPP-----SW-HLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQ  322 (388)
Q Consensus       249 ~~~~~L~~L~i~~~~~~~~~~~~-----~~-~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~  322 (388)
                      ..+.+|+.|.|.+|...+.....     .. .++++..+.+.+|..++++.+.   .-.++|+.|++..|+..+++....
T Consensus       714 ~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~---~f~~~L~~l~l~~~~~~e~~i~~~  790 (889)
T KOG4658|consen  714 GSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTWL---LFAPHLTSLSLVSCRLLEDIIPKL  790 (889)
T ss_pred             ccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccchh---hccCcccEEEEecccccccCCCHH
Confidence            67789999999998775432211     11 2567777888888877776544   334889999999999888887655


Q ss_pred             ccccCCc--cccccccceE-ecccCCCcceecCCCccccCCCcceEEeccCCCcccccC
Q 040122          323 VGEEAKD--CNVFKELEYL-GLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQ  378 (388)
Q Consensus       323 ~~~~~~~--~~~~~~L~~L-~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~  378 (388)
                      ..+....  ...|..+..+ .+.+.+.+.++......  ++.|+.+.+..||+++.+|.
T Consensus       791 k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~l~--~~~l~~~~ve~~p~l~~~P~  847 (889)
T KOG4658|consen  791 KALLELKELILPFNKLEGLRMLCSLGGLPQLYWLPLS--FLKLEELIVEECPKLGKLPL  847 (889)
T ss_pred             HHhhhcccEEecccccccceeeecCCCCceeEecccC--ccchhheehhcCcccccCcc
Confidence            5554433  3566777777 46666666666554433  67799999999999988885

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

Probab=99.16  E-value=1.6e-13  Score=122.64  Aligned_cols=253  Identities=21%  Similarity=0.211  Sum_probs=156.1

Q ss_pred             ccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCC
Q 040122           80 LAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTG  159 (388)
Q Consensus        80 L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~  159 (388)
                      ++.+.++.+ .+..+.+.  +.++..|.+|++.++. +..+|+.          .+.+..++.++.+.. ++..+  ++.
T Consensus        47 l~~lils~N-~l~~l~~d--l~nL~~l~vl~~~~n~-l~~lp~a----------ig~l~~l~~l~vs~n-~ls~l--p~~  109 (565)
T KOG0472|consen   47 LQKLILSHN-DLEVLRED--LKNLACLTVLNVHDNK-LSQLPAA----------IGELEALKSLNVSHN-KLSEL--PEQ  109 (565)
T ss_pred             hhhhhhccC-chhhccHh--hhcccceeEEEeccch-hhhCCHH----------HHHHHHHHHhhcccc-hHhhc--cHH
Confidence            444455544 23322222  4555555555555532 2222222          133444555555443 23333  222


Q ss_pred             ccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcc
Q 040122          160 NIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQ  238 (388)
Q Consensus       160 ~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~  238 (388)
                       ++..++|..++.++. .+..++.+             ++.+..++.++..+ .....+...+.+.++..+.+.+ +++.
T Consensus       110 -i~s~~~l~~l~~s~n-~~~el~~~-------------i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~-n~l~  173 (565)
T KOG0472|consen  110 -IGSLISLVKLDCSSN-ELKELPDS-------------IGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEG-NKLK  173 (565)
T ss_pred             -Hhhhhhhhhhhcccc-ceeecCch-------------HHHHhhhhhhhccccccccCchHHHHHHHHHHhhccc-cchh
Confidence             445555555555553 34444433             44455555555444 4445555556666777777766 4566


Q ss_pred             eecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchh
Q 040122          239 HLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQI  318 (388)
Q Consensus       239 ~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~  318 (388)
                      ..++..    -.++.|++|+...+ .++.+|+.++.+.+|..|++.+. ++..+|..   ..|..|.+|++..+ .++.+
T Consensus       174 ~l~~~~----i~m~~L~~ld~~~N-~L~tlP~~lg~l~~L~~LyL~~N-ki~~lPef---~gcs~L~Elh~g~N-~i~~l  243 (565)
T KOG0472|consen  174 ALPENH----IAMKRLKHLDCNSN-LLETLPPELGGLESLELLYLRRN-KIRFLPEF---PGCSLLKELHVGEN-QIEML  243 (565)
T ss_pred             hCCHHH----HHHHHHHhcccchh-hhhcCChhhcchhhhHHHHhhhc-ccccCCCC---CccHHHHHHHhccc-HHHhh
Confidence            666543    44788888887664 67888999999999999999874 67777632   67788999998765 45555


Q ss_pred             hcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCCCCCCCCCC
Q 040122          319 IQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       319 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                      +..       ....++++..|++.+. +++++|.+.+-  +.+|++|++++ ..++.+|-.++++ .|+
T Consensus       244 pae-------~~~~L~~l~vLDLRdN-klke~Pde~cl--LrsL~rLDlSN-N~is~Lp~sLgnl-hL~  300 (565)
T KOG0472|consen  244 PAE-------HLKHLNSLLVLDLRDN-KLKEVPDEICL--LRSLERLDLSN-NDISSLPYSLGNL-HLK  300 (565)
T ss_pred             HHH-------Hhcccccceeeecccc-ccccCchHHHH--hhhhhhhcccC-CccccCCcccccc-eee
Confidence            441       1135688889999884 79999998855  78899999997 5688999988888 454

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.15  E-value=1.7e-10  Score=116.08  Aligned_cols=249  Identities=16%  Similarity=0.112  Sum_probs=152.6

Q ss_pred             cCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccc
Q 040122           47 IGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEEL  126 (388)
Q Consensus        47 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~  126 (388)
                      +...+...|++++.. ++.++...      .++|+.|++++| +++.++. .   ..++|++|++++| .++.+|..   
T Consensus       175 Cl~~~~~~L~L~~~~-LtsLP~~I------p~~L~~L~Ls~N-~LtsLP~-~---l~~nL~~L~Ls~N-~LtsLP~~---  238 (754)
T PRK15370        175 CLKNNKTELRLKILG-LTTIPACI------PEQITTLILDNN-ELKSLPE-N---LQGNIKTLYANSN-QLTSIPAT---  238 (754)
T ss_pred             hcccCceEEEeCCCC-cCcCCccc------ccCCcEEEecCC-CCCcCCh-h---hccCCCEEECCCC-ccccCChh---
Confidence            344567888888764 65544322      467889999887 6776443 2   2358999999885 46666432   


Q ss_pred             cccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCce
Q 040122          127 SAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEEN  206 (388)
Q Consensus       127 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~  206 (388)
                               ...+|+.|+++++. +..+  +..   ..++|+.|+++++ +++.+|..             +  .++|+.
T Consensus       239 ---------l~~~L~~L~Ls~N~-L~~L--P~~---l~s~L~~L~Ls~N-~L~~LP~~-------------l--~~sL~~  287 (754)
T PRK15370        239 ---------LPDTIQEMELSINR-ITEL--PER---LPSALQSLDLFHN-KISCLPEN-------------L--PEELRY  287 (754)
T ss_pred             ---------hhccccEEECcCCc-cCcC--Chh---HhCCCCEEECcCC-ccCccccc-------------c--CCCCcE
Confidence                     23578888888764 4555  222   2357888888864 67666543             2  247888


Q ss_pred             EEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeecc
Q 040122          207 LLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSK  285 (388)
Q Consensus       207 L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~  285 (388)
                      |++++ ....++..+  .++|+.|+++++ .++.++.      ...++|+.|++++|. +..+|..+  .++|+.|++++
T Consensus       288 L~Ls~N~Lt~LP~~l--p~sL~~L~Ls~N-~Lt~LP~------~l~~sL~~L~Ls~N~-Lt~LP~~l--~~sL~~L~Ls~  355 (754)
T PRK15370        288 LSVYDNSIRTLPAHL--PSGITHLNVQSN-SLTALPE------TLPPGLKTLEAGENA-LTSLPASL--PPELQVLDVSK  355 (754)
T ss_pred             EECCCCccccCcccc--hhhHHHHHhcCC-ccccCCc------cccccceeccccCCc-cccCChhh--cCcccEEECCC
Confidence            88877 333343322  246777888774 4555543      233678888888874 44565443  26888888887


Q ss_pred             CcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCcc--ccCCCcc
Q 040122          286 CHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYA--LEFPSLK  363 (388)
Q Consensus       286 c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~--~~~~~L~  363 (388)
                      + .+..++.. +   .++|+.|++++|. +..++.          .....|+.|+++++ ++..++.....  ..+|++.
T Consensus       356 N-~L~~LP~~-l---p~~L~~LdLs~N~-Lt~LP~----------~l~~sL~~LdLs~N-~L~~LP~sl~~~~~~~~~l~  418 (754)
T PRK15370        356 N-QITVLPET-L---PPTITTLDVSRNA-LTNLPE----------NLPAALQIMQASRN-NLVRLPESLPHFRGEGPQPT  418 (754)
T ss_pred             C-CCCcCChh-h---cCCcCEEECCCCc-CCCCCH----------hHHHHHHHHhhccC-CcccCchhHHHHhhcCCCcc
Confidence            6 45554321 1   2578888888874 444443          11246777777774 45555543211  1246777


Q ss_pred             eEEeccCC
Q 040122          364 QVVVRQCP  371 (388)
Q Consensus       364 ~L~l~~c~  371 (388)
                      .+.+.+++
T Consensus       419 ~L~L~~Np  426 (754)
T PRK15370        419 RIIVEYNP  426 (754)
T ss_pred             EEEeeCCC
Confidence            88887766

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

Probab=99.11  E-value=6.7e-13  Score=129.95  Aligned_cols=168  Identities=17%  Similarity=0.167  Sum_probs=92.8

Q ss_pred             cCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCE
Q 040122          202 KSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEA  280 (388)
Q Consensus       202 ~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~  280 (388)
                      .+|+.++++. ....++.-++.+.+|+.+.+.+ +.+..++...    ...++|+.|.+..| .++-+|+....+..|++
T Consensus       241 ~nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~-N~l~~lp~ri----~~~~~L~~l~~~~n-el~yip~~le~~~sL~t  314 (1081)
T KOG0618|consen  241 LNLQYLDISHNNLSNLPEWIGACANLEALNANH-NRLVALPLRI----SRITSLVSLSAAYN-ELEYIPPFLEGLKSLRT  314 (1081)
T ss_pred             ccceeeecchhhhhcchHHHHhcccceEecccc-hhHHhhHHHH----hhhhhHHHHHhhhh-hhhhCCCcccccceeee
Confidence            3566666666 4455555556666777666665 3444444332    33455555555554 34555666666777777


Q ss_pred             EeeccCcCcccccchhhh------------------------cCccccceeeEccccccchhhcccccccCCcccccccc
Q 040122          281 LKVSKCHELINVLTLSAS------------------------KNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKEL  336 (388)
Q Consensus       281 L~l~~c~~l~~~~~~~~~------------------------~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L  336 (388)
                      |++... ++.+++...+.                        ...+.|+.|++.++..-.....        -...+++|
T Consensus       315 LdL~~N-~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p--------~l~~~~hL  385 (1081)
T KOG0618|consen  315 LDLQSN-NLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFP--------VLVNFKHL  385 (1081)
T ss_pred             eeehhc-cccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchh--------hhccccce
Confidence            777653 44444332111                        1223344444444422211111        12556788


Q ss_pred             ceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCCCCCCCCCC
Q 040122          337 EYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       337 ~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                      |.|++++. .+.+++..... .++.|++|.+++ .+++.+|..+..+..|+
T Consensus       386 KVLhLsyN-rL~~fpas~~~-kle~LeeL~LSG-NkL~~Lp~tva~~~~L~  433 (1081)
T KOG0618|consen  386 KVLHLSYN-RLNSFPASKLR-KLEELEELNLSG-NKLTTLPDTVANLGRLH  433 (1081)
T ss_pred             eeeeeccc-ccccCCHHHHh-chHHhHHHhccc-chhhhhhHHHHhhhhhH
Confidence            88888885 57777665421 267778888887 44677776666555543

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

Probab=99.11  E-value=5.2e-12  Score=123.82  Aligned_cols=255  Identities=20%  Similarity=0.174  Sum_probs=154.3

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      ++|+.|..+.++-.+ .-     ......+|++++++++ ++..+|  .++..+.+|+.+++..+ .+..+|.-      
T Consensus       219 ~~l~~L~a~~n~l~~-~~-----~~p~p~nl~~~dis~n-~l~~lp--~wi~~~~nle~l~~n~N-~l~~lp~r------  282 (1081)
T KOG0618|consen  219 PSLTALYADHNPLTT-LD-----VHPVPLNLQYLDISHN-NLSNLP--EWIGACANLEALNANHN-RLVALPLR------  282 (1081)
T ss_pred             cchheeeeccCccee-ec-----cccccccceeeecchh-hhhcch--HHHHhcccceEecccch-hHHhhHHH------
Confidence            677777777776332 11     1134578999999988 677744  45899999999999885 44554432      


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeee--cccC-----------CC
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLH--MTAD-----------NK  196 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~--l~~~-----------~~  196 (388)
                          ....++|++|.+..+ .++.+  +.. ...+.+|++|++... ++..+|.....+.+  ++..           .-
T Consensus       283 ----i~~~~~L~~l~~~~n-el~yi--p~~-le~~~sL~tLdL~~N-~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~  353 (1081)
T KOG0618|consen  283 ----ISRITSLVSLSAAYN-ELEYI--PPF-LEGLKSLRTLDLQSN-NLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSY  353 (1081)
T ss_pred             ----HhhhhhHHHHHhhhh-hhhhC--CCc-ccccceeeeeeehhc-cccccchHHHhhhhHHHHHHhhhhccccccccc
Confidence                244677777777655 35555  222 446778888888774 56666554332211  1110           00


Q ss_pred             ccccccCCceEEEec--ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccc
Q 040122          197 EPQKLKSEENLLVAN--QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWH  274 (388)
Q Consensus       197 ~l~~l~~L~~L~l~~--~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~  274 (388)
                      +-..++.|+.|.+.+  -....++.+.++++|+.|++++ +.++.+|...+   ..++.|++|+++++ +++.+|..+..
T Consensus       354 ~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsy-NrL~~fpas~~---~kle~LeeL~LSGN-kL~~Lp~tva~  428 (1081)
T KOG0618|consen  354 EENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSY-NRLNSFPASKL---RKLEELEELNLSGN-KLTTLPDTVAN  428 (1081)
T ss_pred             cchhhHHHHHHHHhcCcccccchhhhccccceeeeeecc-cccccCCHHHH---hchHHhHHHhcccc-hhhhhhHHHHh
Confidence            122344566666665  3344556667778888888887 46776665433   56677888888885 56667777777


Q ss_pred             cCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCC
Q 040122          275 LENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPS  346 (388)
Q Consensus       275 ~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  346 (388)
                      ++.|++|...+. .+..+|.   ..+++.|+.+|++.+. +..+... +      ....+.|++|++++.+.
T Consensus       429 ~~~L~tL~ahsN-~l~~fPe---~~~l~qL~~lDlS~N~-L~~~~l~-~------~~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  429 LGRLHTLRAHSN-QLLSFPE---LAQLPQLKVLDLSCNN-LSEVTLP-E------ALPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             hhhhHHHhhcCC-ceeechh---hhhcCcceEEecccch-hhhhhhh-h------hCCCcccceeeccCCcc
Confidence            777777766542 4555442   2466777777876553 3333220 0      01126777777777654

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.01  E-value=7e-10  Score=111.70  Aligned_cols=236  Identities=16%  Similarity=0.125  Sum_probs=142.3

Q ss_pred             HHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccc
Q 040122           39 IQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLE  118 (388)
Q Consensus        39 ~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~  118 (388)
                      +..+|..+  .++|+.|+++++. +..++...      +++|++|++++| +++.++. . +  .++|+.|++++|. +.
T Consensus       190 LtsLP~~I--p~~L~~L~Ls~N~-LtsLP~~l------~~nL~~L~Ls~N-~LtsLP~-~-l--~~~L~~L~Ls~N~-L~  254 (754)
T PRK15370        190 LTTIPACI--PEQITTLILDNNE-LKSLPENL------QGNIKTLYANSN-QLTSIPA-T-L--PDTIQEMELSINR-IT  254 (754)
T ss_pred             cCcCCccc--ccCCcEEEecCCC-CCcCChhh------ccCCCEEECCCC-ccccCCh-h-h--hccccEEECcCCc-cC
Confidence            33455444  2579999998764 76554333      578999999987 6776433 2 2  3579999999864 55


Q ss_pred             eecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCcc
Q 040122          119 EVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEP  198 (388)
Q Consensus       119 ~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l  198 (388)
                      .+|..            ..++|+.|+++++ .+..+  +..   -.++|+.|++++| +++.+|..             +
T Consensus       255 ~LP~~------------l~s~L~~L~Ls~N-~L~~L--P~~---l~~sL~~L~Ls~N-~Lt~LP~~-------------l  302 (754)
T PRK15370        255 ELPER------------LPSALQSLDLFHN-KISCL--PEN---LPEELRYLSVYDN-SIRTLPAH-------------L  302 (754)
T ss_pred             cCChh------------HhCCCCEEECcCC-ccCcc--ccc---cCCCCcEEECCCC-ccccCccc-------------c
Confidence            65432            1357899999754 56665  322   2358999999887 67766532             1


Q ss_pred             ccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCC
Q 040122          199 QKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLEN  277 (388)
Q Consensus       199 ~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~  277 (388)
                        .++|+.|++++ ....++..+  +++|+.|+++++ .++.++.      ..+++|+.|++++|. +..+|..+  .++
T Consensus       303 --p~sL~~L~Ls~N~Lt~LP~~l--~~sL~~L~Ls~N-~Lt~LP~------~l~~sL~~L~Ls~N~-L~~LP~~l--p~~  368 (754)
T PRK15370        303 --PSGITHLNVQSNSLTALPETL--PPGLKTLEAGEN-ALTSLPA------SLPPELQVLDVSKNQ-ITVLPETL--PPT  368 (754)
T ss_pred             --hhhHHHHHhcCCccccCCccc--cccceeccccCC-ccccCCh------hhcCcccEEECCCCC-CCcCChhh--cCC
Confidence              23567777766 333333322  367888888775 4555553      224678888888874 44555433  357


Q ss_pred             CCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCC
Q 040122          278 LEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLP  345 (388)
Q Consensus       278 L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  345 (388)
                      |+.|++++| .+..++.. +.   ..|+.|++++|. +..++.   .+... ...++.+..|.+.+++
T Consensus       369 L~~LdLs~N-~Lt~LP~~-l~---~sL~~LdLs~N~-L~~LP~---sl~~~-~~~~~~l~~L~L~~Np  426 (754)
T PRK15370        369 ITTLDVSRN-ALTNLPEN-LP---AALQIMQASRNN-LVRLPE---SLPHF-RGEGPQPTRIIVEYNP  426 (754)
T ss_pred             cCEEECCCC-cCCCCCHh-HH---HHHHHHhhccCC-cccCch---hHHHH-hhcCCCccEEEeeCCC
Confidence            888888876 45555432 11   357777887764 334432   11100 0223566777776654

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

Probab=98.95  E-value=2.6e-11  Score=96.58  Aligned_cols=159  Identities=21%  Similarity=0.282  Sum_probs=83.5

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      +.++..|.++++ +++..+|.  +..+.+|+.|++++ +.++++|..          ..++++|+.|++. +..+..+  
T Consensus        32 ~s~ITrLtLSHN-Kl~~vppn--ia~l~nlevln~~n-nqie~lp~~----------issl~klr~lnvg-mnrl~~l--   94 (264)
T KOG0617|consen   32 MSNITRLTLSHN-KLTVVPPN--IAELKNLEVLNLSN-NQIEELPTS----------ISSLPKLRILNVG-MNRLNIL--   94 (264)
T ss_pred             hhhhhhhhcccC-ceeecCCc--HHHhhhhhhhhccc-chhhhcChh----------hhhchhhhheecc-hhhhhcC--
Confidence            455566666666 55554443  66666777777766 445555443          3556666666664 3344444  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLH  235 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~  235 (388)
                      +.+ ++.+|.|+.|++.+. ++..-.....           +-.++.|+-|++++ .+..++...+.+++|+.|.+++ +
T Consensus        95 prg-fgs~p~levldltyn-nl~e~~lpgn-----------ff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrd-n  160 (264)
T KOG0617|consen   95 PRG-FGSFPALEVLDLTYN-NLNENSLPGN-----------FFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRD-N  160 (264)
T ss_pred             ccc-cCCCchhhhhhcccc-ccccccCCcc-----------hhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeecc-C
Confidence            334 556777777777664 3332211110           33444455555555 4444555555666666666655 3


Q ss_pred             CcceecccCchhHhhhccccEEEEecCCCcccccCC
Q 040122          236 KVQHLWKENDESNKAFANLERLEISECSKLQKLVPP  271 (388)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~  271 (388)
                      ++-.+|.+.    +.++.|++|.|.++ .++.+|+.
T Consensus       161 dll~lpkei----g~lt~lrelhiqgn-rl~vlppe  191 (264)
T KOG0617|consen  161 DLLSLPKEI----GDLTRLRELHIQGN-RLTVLPPE  191 (264)
T ss_pred             chhhCcHHH----HHHHHHHHHhcccc-eeeecChh
Confidence            344444332    45555555555554 23344433

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.89  E-value=2.2e-09  Score=109.81  Aligned_cols=151  Identities=23%  Similarity=0.328  Sum_probs=76.0

Q ss_pred             ccccccCCCCcceEEecCCCCccee--cccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCccccc
Q 040122          216 LFDEKVAFPQLGNLRLSGLHKVQHL--WKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVL  293 (388)
Q Consensus       216 ~~~~~~~~~~L~~L~l~~~~~l~~~--~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~  293 (388)
                      .+..++.+.+|+.|.+.+|...+..  +.........++++.++.+..|...... ......++|+.|.+.+|+.+.+..
T Consensus       709 ~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l-~~~~f~~~L~~l~l~~~~~~e~~i  787 (889)
T KOG4658|consen  709 LISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDL-TWLLFAPHLTSLSLVSCRLLEDII  787 (889)
T ss_pred             eecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhcccccccc-chhhccCcccEEEEecccccccCC
Confidence            3455567788888888887654321  1111100012456666666777655543 233456788888888888777764


Q ss_pred             chhhhcCccccceeeEccccccchh--hcccccccCC--ccccccccceEecccCCCcceecCCCccccCCCcceEEecc
Q 040122          294 TLSASKNLVNLGRMMIADCKMIEQI--IQLQVGEEAK--DCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQ  369 (388)
Q Consensus       294 ~~~~~~~l~~L~~L~l~~~~~~~~~--~~~~~~~~~~--~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~  369 (388)
                      ...  +.+..+..+.+..+. ....  .....+...+  ....++.|..+.+..||++..         +|.+.++.+.+
T Consensus       788 ~~~--k~~~~l~~~i~~f~~-~~~l~~~~~l~~l~~i~~~~l~~~~l~~~~ve~~p~l~~---------~P~~~~~~i~~  855 (889)
T KOG4658|consen  788 PKL--KALLELKELILPFNK-LEGLRMLCSLGGLPQLYWLPLSFLKLEELIVEECPKLGK---------LPLLSTLTIVG  855 (889)
T ss_pred             CHH--HHhhhcccEEecccc-cccceeeecCCCCceeEecccCccchhheehhcCccccc---------Cccccccceec
Confidence            321  223333332222211 1111  0000011000  001223455555555555443         46777777888


Q ss_pred             C-CCcccccCC
Q 040122          370 C-PKMKIFSQG  379 (388)
Q Consensus       370 c-~~l~~lp~~  379 (388)
                      | +++...|.+
T Consensus       856 ~~~~~~~~~~~  866 (889)
T KOG4658|consen  856 CEEKLKEYPDG  866 (889)
T ss_pred             cccceeecCCc
Confidence            6 777777765

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

Probab=98.87  E-value=2.5e-10  Score=105.31  Aligned_cols=116  Identities=21%  Similarity=0.086  Sum_probs=50.8

Q ss_pred             CCcceEEecCccccceecccc-ccCccccCCccEEEecCCCCCcccCC-----hhhhhcCCCCcEEEeccccccceeccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQ-ALPVRFFNNLAELVVDDSTNMSSAIP-----ANLLRCLNNLEWLAVRNCDSLEEVLHL  123 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~-----~~~~~~l~~L~~L~l~~~~~l~~i~~~  123 (388)
                      .+|++++++++. +....... .-.....+++++++++++. +...+.     ...+..+++|++|++++|......+..
T Consensus        23 ~~L~~l~l~~~~-l~~~~~~~i~~~l~~~~~l~~l~l~~~~-~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~  100 (319)
T cd00116          23 LCLQVLRLEGNT-LGEEAAKALASALRPQPSLKELCLSLNE-TGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGV  100 (319)
T ss_pred             hhccEEeecCCC-CcHHHHHHHHHHHhhCCCceEEeccccc-cCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHH
Confidence            447777777665 42110000 0001345567777776653 221000     012455667777777775432211110


Q ss_pred             -ccccccccccCCcCccccEeecccCcccc-cccCCCCccccC-CCcceEeEecC
Q 040122          124 -EELSAKEEHIGPLFPRLLSLKLIDLPKLK-RFCNFTGNIIEL-PKLEYLIIENC  175 (388)
Q Consensus       124 -~~~~~~~~~~~~~~~~L~~L~l~~~~~l~-~~~~~~~~~~~l-~~L~~L~l~~c  175 (388)
                       ..+       ... ++|++|+++++.... ........+..+ ++|++|++.+|
T Consensus       101 ~~~l-------~~~-~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n  147 (319)
T cd00116         101 LESL-------LRS-SSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRN  147 (319)
T ss_pred             HHHH-------hcc-CcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCC
Confidence             000       112 447777776653211 000000112344 66777777776

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).

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

Probab=98.86  E-value=4.9e-10  Score=103.35  Aligned_cols=245  Identities=19%  Similarity=0.114  Sum_probs=126.2

Q ss_pred             ccCCccEEEecCCCCCcccC---ChhhhhcCCCCcEEEeccccccceecc-cccccccccccCCcCccccEeecccCccc
Q 040122           76 FFNNLAELVVDDSTNMSSAI---PANLLRCLNNLEWLAVRNCDSLEEVLH-LEELSAKEEHIGPLFPRLLSLKLIDLPKL  151 (388)
Q Consensus        76 ~~~~L~~L~l~~~~~l~~~~---~~~~~~~l~~L~~L~l~~~~~l~~i~~-~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  151 (388)
                      .+.+|+.|++++| .++...   -...+...++|++++++++.. ...+. .....    .....+++|+.|+++++...
T Consensus        21 ~l~~L~~l~l~~~-~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~-~~~~~~~~~~~----~~l~~~~~L~~L~l~~~~~~   94 (319)
T cd00116          21 KLLCLQVLRLEGN-TLGEEAAKALASALRPQPSLKELCLSLNET-GRIPRGLQSLL----QGLTKGCGLQELDLSDNALG   94 (319)
T ss_pred             HHhhccEEeecCC-CCcHHHHHHHHHHHhhCCCceEEecccccc-CCcchHHHHHH----HHHHhcCceeEEEccCCCCC
Confidence            4677999999988 443211   111256778899999988543 21111 00000    00234779999999887543


Q ss_pred             ccccCCCCccccC---CCcceEeEecCCCcccccCCcceeeecccCCCccccc-cCCceEEEec-cc-----cccccccc
Q 040122          152 KRFCNFTGNIIEL---PKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKL-KSEENLLVAN-QI-----QHLFDEKV  221 (388)
Q Consensus       152 ~~~~~~~~~~~~l---~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l-~~L~~L~l~~-~~-----~~~~~~~~  221 (388)
                      ....   ..+..+   ++|++|++.+|. ++.......        ...+..+ ++|+.|++++ ..     ..+...+.
T Consensus        95 ~~~~---~~~~~l~~~~~L~~L~ls~~~-~~~~~~~~l--------~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~  162 (319)
T cd00116          95 PDGC---GVLESLLRSSSLQELKLNNNG-LGDRGLRLL--------AKGLKDLPPALEKLVLGRNRLEGASCEALAKALR  162 (319)
T ss_pred             hhHH---HHHHHHhccCcccEEEeeCCc-cchHHHHHH--------HHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHH
Confidence            2221   112222   559999999874 432111100        0013445 7788888876 11     12333344


Q ss_pred             CCCCcceEEecCCCCcceecccCc-hhHhhhccccEEEEecCCCc----ccccCCccccCCCCEEeeccCcCcccccchh
Q 040122          222 AFPQLGNLRLSGLHKVQHLWKEND-ESNKAFANLERLEISECSKL----QKLVPPSWHLENLEALKVSKCHELINVLTLS  296 (388)
Q Consensus       222 ~~~~L~~L~l~~~~~l~~~~~~~~-~~~~~~~~L~~L~i~~~~~~----~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~  296 (388)
                      .+++|+.|+++++. ++....... ......++|+.|++++|..-    ..+...+..+++|++|++++| .+.+.....
T Consensus       163 ~~~~L~~L~l~~n~-l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n-~l~~~~~~~  240 (319)
T cd00116         163 ANRDLKELNLANNG-IGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDN-NLTDAGAAA  240 (319)
T ss_pred             hCCCcCEEECcCCC-CchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCC-cCchHHHHH
Confidence            55678888887753 332110000 01123357888888877532    122333455677888888876 344432222


Q ss_pred             hhcC----ccccceeeEccccccchhh-cccccccCCccccccccceEecccCC
Q 040122          297 ASKN----LVNLGRMMIADCKMIEQII-QLQVGEEAKDCNVFKELEYLGLDCLP  345 (388)
Q Consensus       297 ~~~~----l~~L~~L~l~~~~~~~~~~-~~~~~~~~~~~~~~~~L~~L~l~~~~  345 (388)
                      +...    .+.|++|++++|.....-. ....     ....+++|++++++++.
T Consensus       241 l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~-----~~~~~~~L~~l~l~~N~  289 (319)
T cd00116         241 LASALLSPNISLLTLSLSCNDITDDGAKDLAE-----VLAEKESLLELDLRGNK  289 (319)
T ss_pred             HHHHHhccCCCceEEEccCCCCCcHHHHHHHH-----HHhcCCCccEEECCCCC
Confidence            2222    3678888887774321000 0000     01233677777777753

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).

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

Probab=98.85  E-value=8.6e-11  Score=93.65  Aligned_cols=161  Identities=22%  Similarity=0.225  Sum_probs=116.9

Q ss_pred             cCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccc
Q 040122           47 IGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEEL  126 (388)
Q Consensus        47 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~  126 (388)
                      ....+.+.|.++... ++.++...    ..+.+|+.|++.++ ++.++|..  ++.+++|++|+++- +.+..+|..   
T Consensus        30 f~~s~ITrLtLSHNK-l~~vppni----a~l~nlevln~~nn-qie~lp~~--issl~klr~lnvgm-nrl~~lprg---   97 (264)
T KOG0617|consen   30 FNMSNITRLTLSHNK-LTVVPPNI----AELKNLEVLNLSNN-QIEELPTS--ISSLPKLRILNVGM-NRLNILPRG---   97 (264)
T ss_pred             cchhhhhhhhcccCc-eeecCCcH----HHhhhhhhhhcccc-hhhhcChh--hhhchhhhheecch-hhhhcCccc---
Confidence            345777888887654 77666666    67888899988877 67775544  78889999998875 344444443   


Q ss_pred             cccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCce
Q 040122          127 SAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEEN  206 (388)
Q Consensus       127 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~  206 (388)
                             +++++-|+.|++.... +.+-..+.. ++.+..|+.|.+.+. .++.+|++             ++.+++|+.
T Consensus        98 -------fgs~p~levldltynn-l~e~~lpgn-ff~m~tlralyl~dn-dfe~lp~d-------------vg~lt~lqi  154 (264)
T KOG0617|consen   98 -------FGSFPALEVLDLTYNN-LNENSLPGN-FFYMTTLRALYLGDN-DFEILPPD-------------VGKLTNLQI  154 (264)
T ss_pred             -------cCCCchhhhhhccccc-cccccCCcc-hhHHHHHHHHHhcCC-CcccCChh-------------hhhhcceeE
Confidence                   4778888888887653 333222333 666777888888874 67777776             788888998


Q ss_pred             EEEec-ccccccccccCCCCcceEEecCCCCcceeccc
Q 040122          207 LLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKE  243 (388)
Q Consensus       207 L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  243 (388)
                      |.+.+ ..-.++.+++.++.|++|+|.+ +.++-+|++
T Consensus       155 l~lrdndll~lpkeig~lt~lrelhiqg-nrl~vlppe  191 (264)
T KOG0617|consen  155 LSLRDNDLLSLPKEIGDLTRLRELHIQG-NRLTVLPPE  191 (264)
T ss_pred             EeeccCchhhCcHHHHHHHHHHHHhccc-ceeeecChh
Confidence            88887 6677888889999999999988 567777754

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

Probab=98.79  E-value=8.9e-10  Score=100.02  Aligned_cols=211  Identities=17%  Similarity=0.162  Sum_probs=122.2

Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      .++.+|+.+.|+++ .+..+........|++++.||++++ .+.+......+       ...+++|+.|+++.+.....+
T Consensus       118 sn~kkL~~IsLdn~-~V~~~~~~~~~k~~~~v~~LdLS~N-L~~nw~~v~~i-------~eqLp~Le~LNls~Nrl~~~~  188 (505)
T KOG3207|consen  118 SNLKKLREISLDNY-RVEDAGIEEYSKILPNVRDLDLSRN-LFHNWFPVLKI-------AEQLPSLENLNLSSNRLSNFI  188 (505)
T ss_pred             hhHHhhhheeecCc-cccccchhhhhhhCCcceeecchhh-hHHhHHHHHHH-------HHhcccchhcccccccccCCc
Confidence            56888888888887 4444332235788999999999985 22222111111       356889999999875332222


Q ss_pred             cCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEeccccccc--ccccCCCCcceEEec
Q 040122          155 CNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLF--DEKVAFPQLGNLRLS  232 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~--~~~~~~~~L~~L~l~  232 (388)
                        .......+++|+.|.+++| +++.-....+           +..+|+|+.|++.++.....  ....-+..|+.|+|+
T Consensus       189 --~s~~~~~l~~lK~L~l~~C-Gls~k~V~~~-----------~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs  254 (505)
T KOG3207|consen  189 --SSNTTLLLSHLKQLVLNSC-GLSWKDVQWI-----------LLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLS  254 (505)
T ss_pred             --cccchhhhhhhheEEeccC-CCCHHHHHHH-----------HHhCCcHHHhhhhcccccceecchhhhhhHHhhcccc
Confidence              1121346888999999998 5665444444           56788888888776321111  112235677888887


Q ss_pred             CCCCcceecccCchhHhhhccccEEEEecCCCccc-ccCC-----ccccCCCCEEeeccCcCcccccchhhhcCccccce
Q 040122          233 GLHKVQHLWKENDESNKAFANLERLEISECSKLQK-LVPP-----SWHLENLEALKVSKCHELINVLTLSASKNLVNLGR  306 (388)
Q Consensus       233 ~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~-~~~~-----~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~  306 (388)
                      +.+ +.+.+..  .....++.|..|.++.|...+- .|+.     ...+++|++|++... .+.+.+.......+++|+.
T Consensus       255 ~N~-li~~~~~--~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N-~I~~w~sl~~l~~l~nlk~  330 (505)
T KOG3207|consen  255 NNN-LIDFDQG--YKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISEN-NIRDWRSLNHLRTLENLKH  330 (505)
T ss_pred             CCc-ccccccc--cccccccchhhhhccccCcchhcCCCccchhhhcccccceeeecccC-ccccccccchhhccchhhh
Confidence            744 3333211  1126777788888777643221 1221     346778888888764 4444433333344555666


Q ss_pred             eeEccc
Q 040122          307 MMIADC  312 (388)
Q Consensus       307 L~l~~~  312 (388)
                      |.+..+
T Consensus       331 l~~~~n  336 (505)
T KOG3207|consen  331 LRITLN  336 (505)
T ss_pred             hhcccc
Confidence            655433

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

Probab=98.53  E-value=1.3e-09  Score=94.37  Aligned_cols=164  Identities=18%  Similarity=0.099  Sum_probs=109.0

Q ss_pred             cccccCCceEEEec--ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCc-cc
Q 040122          198 PQKLKSEENLLVAN--QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPS-WH  274 (388)
Q Consensus       198 l~~l~~L~~L~l~~--~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~-~~  274 (388)
                      +..|..|+.|.+.+  -.+.+...+..-.+|+.|+++.|++++......  +...|+.|+.|+++.|...++....+ .+
T Consensus       206 Ls~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~l--l~~scs~L~~LNlsWc~l~~~~Vtv~V~h  283 (419)
T KOG2120|consen  206 LSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQL--LLSSCSRLDELNLSWCFLFTEKVTVAVAH  283 (419)
T ss_pred             HHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHH--HHHhhhhHhhcCchHhhccchhhhHHHhh
Confidence            56777788887777  334444555666789999999998887654322  23788999999999997766542211 22


Q ss_pred             -cCCCCEEeeccCcC-cccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecC
Q 040122          275 -LENLEALKVSKCHE-LINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCL  352 (388)
Q Consensus       275 -~~~L~~L~l~~c~~-l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  352 (388)
                       -++|+.|+++||.+ +...-.......+|+|.+||+++|..+..-..+       ....|+.|++|.++.|=.+-  +.
T Consensus       284 ise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~-------~~~kf~~L~~lSlsRCY~i~--p~  354 (419)
T KOG2120|consen  284 ISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQ-------EFFKFNYLQHLSLSRCYDII--PE  354 (419)
T ss_pred             hchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHH-------HHHhcchheeeehhhhcCCC--hH
Confidence             25889999999863 222222335678999999999998776642220       22457899999999884320  11


Q ss_pred             CC-ccccCCCcceEEeccCCC
Q 040122          353 GN-YALEFPSLKQVVVRQCPK  372 (388)
Q Consensus       353 ~~-~~~~~~~L~~L~l~~c~~  372 (388)
                      .. .....|+|.+|++.+|-.
T Consensus       355 ~~~~l~s~psl~yLdv~g~vs  375 (419)
T KOG2120|consen  355 TLLELNSKPSLVYLDVFGCVS  375 (419)
T ss_pred             HeeeeccCcceEEEEeccccC
Confidence            00 112368999999998754

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

Probab=98.43  E-value=3.2e-09  Score=92.00  Aligned_cols=161  Identities=17%  Similarity=0.196  Sum_probs=93.7

Q ss_pred             CCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec--
Q 040122          134 GPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN--  211 (388)
Q Consensus       134 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~--  211 (388)
                      +..|++|+.|.+.+...-+.++   ..+++-.+|+.|+++.|.+++.......           +..|+.|..|+++-  
T Consensus       206 Ls~C~kLk~lSlEg~~LdD~I~---~~iAkN~~L~~lnlsm~sG~t~n~~~ll-----------~~scs~L~~LNlsWc~  271 (419)
T KOG2120|consen  206 LSQCSKLKNLSLEGLRLDDPIV---NTIAKNSNLVRLNLSMCSGFTENALQLL-----------LSSCSRLDELNLSWCF  271 (419)
T ss_pred             HHHHHhhhhccccccccCcHHH---HHHhccccceeeccccccccchhHHHHH-----------HHhhhhHhhcCchHhh
Confidence            3557777777777764333331   1255677788888888877777665554           66777777777765  


Q ss_pred             -ccccc---cccccCCCCcceEEecCCCC-cceecccCchhHhhhccccEEEEecCCCccc-ccCCccccCCCCEEeecc
Q 040122          212 -QIQHL---FDEKVAFPQLGNLRLSGLHK-VQHLWKENDESNKAFANLERLEISECSKLQK-LVPPSWHLENLEALKVSK  285 (388)
Q Consensus       212 -~~~~~---~~~~~~~~~L~~L~l~~~~~-l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~-~~~~~~~~~~L~~L~l~~  285 (388)
                       ....+   ...+  -++|+.|++++|.+ +..-..+  .....+++|..|++++|..+.. ....+..++.|++|.++.
T Consensus       272 l~~~~Vtv~V~hi--se~l~~LNlsG~rrnl~~sh~~--tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsR  347 (419)
T KOG2120|consen  272 LFTEKVTVAVAHI--SETLTQLNLSGYRRNLQKSHLS--TLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSR  347 (419)
T ss_pred             ccchhhhHHHhhh--chhhhhhhhhhhHhhhhhhHHH--HHHHhCCceeeeccccccccCchHHHHHHhcchheeeehhh
Confidence             11111   1111  25677777777643 2111111  1125677888888887766553 223455677888888887


Q ss_pred             CcCcccccchhhhcCccccceeeEcccc
Q 040122          286 CHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       286 c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      |..+.--... -...-|+|.+|++.+|-
T Consensus       348 CY~i~p~~~~-~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  348 CYDIIPETLL-ELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             hcCCChHHee-eeccCcceEEEEecccc
Confidence            7654321111 12455778888877763

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

Probab=98.42  E-value=3.7e-08  Score=89.73  Aligned_cols=186  Identities=18%  Similarity=0.201  Sum_probs=104.8

Q ss_pred             hcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccc
Q 040122          101 RCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMET  180 (388)
Q Consensus       101 ~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~  180 (388)
                      +++.+|+.+.+.++. +..++..+        +...|++++.|+++.. .+..|.....-...+|+|+.|.++.. ++..
T Consensus       118 sn~kkL~~IsLdn~~-V~~~~~~~--------~~k~~~~v~~LdLS~N-L~~nw~~v~~i~eqLp~Le~LNls~N-rl~~  186 (505)
T KOG3207|consen  118 SNLKKLREISLDNYR-VEDAGIEE--------YSKILPNVRDLDLSRN-LFHNWFPVLKIAEQLPSLENLNLSSN-RLSN  186 (505)
T ss_pred             hhHHhhhheeecCcc-ccccchhh--------hhhhCCcceeecchhh-hHHhHHHHHHHHHhcccchhcccccc-cccC
Confidence            467778888888752 33332111        1366888888988864 23333211121347888888888885 4443


Q ss_pred             ccCCcceeeecccCCCccccccCCceEEEec---ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEE
Q 040122          181 FTSNSTFVLHMTADNKEPQKLKSEENLLVAN---QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERL  257 (388)
Q Consensus       181 ~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~---~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L  257 (388)
                      +.....           -..+++|+.|.++.   +...+......||+|+.|++.....+......    ...++.|++|
T Consensus       187 ~~~s~~-----------~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~----~~i~~~L~~L  251 (505)
T KOG3207|consen  187 FISSNT-----------TLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATS----TKILQTLQEL  251 (505)
T ss_pred             Cccccc-----------hhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecch----hhhhhHHhhc
Confidence            333322           33567777777776   44445555556777777777664322111111    1445667777


Q ss_pred             EEecCCCcccc-cCCccccCCCCEEeeccCcCcccccchhh-----hcCccccceeeEcccc
Q 040122          258 EISECSKLQKL-VPPSWHLENLEALKVSKCHELINVLTLSA-----SKNLVNLGRMMIADCK  313 (388)
Q Consensus       258 ~i~~~~~~~~~-~~~~~~~~~L~~L~l~~c~~l~~~~~~~~-----~~~l~~L~~L~l~~~~  313 (388)
                      +++++..+..- ....+.++.|..|+++.| ++.++.....     ...+++|++|.+..++
T Consensus       252 dLs~N~li~~~~~~~~~~l~~L~~Lnls~t-gi~si~~~d~~s~~kt~~f~kL~~L~i~~N~  312 (505)
T KOG3207|consen  252 DLSNNNLIDFDQGYKVGTLPGLNQLNLSST-GIASIAEPDVESLDKTHTFPKLEYLNISENN  312 (505)
T ss_pred             cccCCcccccccccccccccchhhhhcccc-CcchhcCCCccchhhhcccccceeeecccCc
Confidence            77776544321 134566777777777665 3444322211     2456777777777664

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

Probab=98.35  E-value=1.7e-08  Score=90.83  Aligned_cols=256  Identities=20%  Similarity=0.181  Sum_probs=128.8

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .+.-..|+|..| +++.+|+ ..++.+++||.||++. +.++.|.+-.         +..+.+|-.|-+.+..+++++  
T Consensus        66 P~~tveirLdqN-~I~~iP~-~aF~~l~~LRrLdLS~-N~Is~I~p~A---------F~GL~~l~~Lvlyg~NkI~~l--  131 (498)
T KOG4237|consen   66 PPETVEIRLDQN-QISSIPP-GAFKTLHRLRRLDLSK-NNISFIAPDA---------FKGLASLLSLVLYGNNKITDL--  131 (498)
T ss_pred             CCcceEEEeccC-CcccCCh-hhccchhhhceecccc-cchhhcChHh---------hhhhHhhhHHHhhcCCchhhh--
Confidence            345667778776 6676444 4488888888888888 4556553321         345667777777776677777  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccc-cccCCCCcceEEecCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFD-EKVAFPQLGNLRLSGL  234 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~-~~~~~~~L~~L~l~~~  234 (388)
                      +...++.+.+|+.|.+.-+ ++.-.....            +..++++..|.+.+ ....+.. .+..+.+++.+++...
T Consensus       132 ~k~~F~gL~slqrLllNan-~i~Cir~~a------------l~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~n  198 (498)
T KOG4237|consen  132 PKGAFGGLSSLQRLLLNAN-HINCIRQDA------------LRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQN  198 (498)
T ss_pred             hhhHhhhHHHHHHHhcChh-hhcchhHHH------------HHHhhhcchhcccchhhhhhccccccchhccchHhhhcC
Confidence            5554666777776666543 222222221            55666666666666 2233322 3334555666655432


Q ss_pred             CCcce--------e----cccC--chh----------------HhhhccccEE---EEecCCCccccc-CCccccCCCCE
Q 040122          235 HKVQH--------L----WKEN--DES----------------NKAFANLERL---EISECSKLQKLV-PPSWHLENLEA  280 (388)
Q Consensus       235 ~~l~~--------~----~~~~--~~~----------------~~~~~~L~~L---~i~~~~~~~~~~-~~~~~~~~L~~  280 (388)
                      +.+.+        +    +..-  +.+                ......++.+   -.+.|.....-| .-+..+++|++
T Consensus       199 p~icdCnL~wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~  278 (498)
T KOG4237|consen  199 PFICDCNLPWLADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRK  278 (498)
T ss_pred             ccccccccchhhhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceE
Confidence            21110        0    0000  000                0000000000   000110000000 12445677777


Q ss_pred             EeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCC
Q 040122          281 LKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFP  360 (388)
Q Consensus       281 L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~  360 (388)
                      |++++. +++.+... ....+.++++|++..+. ++.+..   ++    ...+..|+.|++.+. +++.+..+.. ....
T Consensus       279 lnlsnN-~i~~i~~~-aFe~~a~l~eL~L~~N~-l~~v~~---~~----f~~ls~L~tL~L~~N-~it~~~~~aF-~~~~  346 (498)
T KOG4237|consen  279 LNLSNN-KITRIEDG-AFEGAAELQELYLTRNK-LEFVSS---GM----FQGLSGLKTLSLYDN-QITTVAPGAF-QTLF  346 (498)
T ss_pred             eccCCC-ccchhhhh-hhcchhhhhhhhcCcch-HHHHHH---Hh----hhccccceeeeecCC-eeEEEecccc-cccc
Confidence            777764 55555433 23556777777776653 333322   11    133467777888774 4555544431 1245


Q ss_pred             CcceEEeccCC
Q 040122          361 SLKQVVVRQCP  371 (388)
Q Consensus       361 ~L~~L~l~~c~  371 (388)
                      +|.+|.+..+|
T Consensus       347 ~l~~l~l~~Np  357 (498)
T KOG4237|consen  347 SLSTLNLLSNP  357 (498)
T ss_pred             eeeeeehccCc
Confidence            77777775543

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

Probab=98.32  E-value=2.7e-08  Score=97.05  Aligned_cols=12  Identities=25%  Similarity=0.841  Sum_probs=6.8

Q ss_pred             cceeeEcccccc
Q 040122          304 LGRMMIADCKMI  315 (388)
Q Consensus       304 L~~L~l~~~~~~  315 (388)
                      ++.|.+..|...
T Consensus       403 l~~L~l~~~~~~  414 (482)
T KOG1947|consen  403 LRVLNLSDCRLV  414 (482)
T ss_pred             cceEecccCccc
Confidence            566666655543

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

Probab=98.30  E-value=2.3e-07  Score=76.61  Aligned_cols=107  Identities=21%  Similarity=0.268  Sum_probs=31.0

Q ss_pred             CCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccc
Q 040122           49 FLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSA  128 (388)
Q Consensus        49 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~  128 (388)
                      ...+++|++.++. +..+..-.    ..+.+|+.|++++| .++.+..   +..+++|++|++++| .+..+...  +  
T Consensus        18 ~~~~~~L~L~~n~-I~~Ie~L~----~~l~~L~~L~Ls~N-~I~~l~~---l~~L~~L~~L~L~~N-~I~~i~~~--l--   83 (175)
T PF14580_consen   18 PVKLRELNLRGNQ-ISTIENLG----ATLDKLEVLDLSNN-QITKLEG---LPGLPRLKTLDLSNN-RISSISEG--L--   83 (175)
T ss_dssp             -------------------S------TT-TT--EEE-TTS---S--TT-------TT--EEE--SS----S-CHH--H--
T ss_pred             ccccccccccccc-cccccchh----hhhcCCCEEECCCC-CCccccC---ccChhhhhhcccCCC-CCCccccc--h--
Confidence            3457777777665 55332111    24677888888777 5666443   567777888888774 44444211  0  


Q ss_pred             cccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCC
Q 040122          129 KEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCP  176 (388)
Q Consensus       129 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~  176 (388)
                           ...+++|+.|++.++ ++.++..... +..+|+|+.|++.++|
T Consensus        84 -----~~~lp~L~~L~L~~N-~I~~l~~l~~-L~~l~~L~~L~L~~NP  124 (175)
T PF14580_consen   84 -----DKNLPNLQELYLSNN-KISDLNELEP-LSSLPKLRVLSLEGNP  124 (175)
T ss_dssp             -----HHH-TT--EEE-TTS----SCCCCGG-GGG-TT--EEE-TT-G
T ss_pred             -----HHhCCcCCEEECcCC-cCCChHHhHH-HHcCCCcceeeccCCc
Confidence                 124677788887654 3444322222 5567777777777764

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

Probab=98.20  E-value=1.3e-06  Score=72.24  Aligned_cols=129  Identities=22%  Similarity=0.193  Sum_probs=50.6

Q ss_pred             cceeeecCCCCchhHHHHhhhcc-CCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcC
Q 040122           25 GELHHWEGNNLNSTIQKCYDEKI-GFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCL  103 (388)
Q Consensus        25 ~~~~~~~~~~~~~~~~~l~~~~~-~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l  103 (388)
                      ..+++..|    ..+..+ ..+. .+.+|+.|+++++. ++.+. +.    ..+++|++|++++| .++.+ +..+...+
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~~~l   87 (175)
T PF14580_consen   21 LRELNLRG----NQISTI-ENLGATLDKLEVLDLSNNQ-ITKLE-GL----PGLPRLKTLDLSNN-RISSI-SEGLDKNL   87 (175)
T ss_dssp             --------------------S--TT-TT--EEE-TTS---S--T-T--------TT--EEE--SS----S--CHHHHHH-
T ss_pred             cccccccc----cccccc-cchhhhhcCCCEEECCCCC-Ccccc-Cc----cChhhhhhcccCCC-CCCcc-ccchHHhC
Confidence            45566666    333333 2233 46889999999876 66443 22    45899999999998 67764 33334579


Q ss_pred             CCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecC
Q 040122          104 NNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       104 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c  175 (388)
                      ++|++|++++| .+..+.++..        ...+++|+.|++.++|-...-..-...+..+|+|+.||-...
T Consensus        88 p~L~~L~L~~N-~I~~l~~l~~--------L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~~V  150 (175)
T PF14580_consen   88 PNLQELYLSNN-KISDLNELEP--------LSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQDV  150 (175)
T ss_dssp             TT--EEE-TTS----SCCCCGG--------GGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTEET
T ss_pred             CcCCEEECcCC-cCCChHHhHH--------HHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCEEc
Confidence            99999999984 5555544433        367999999999987643221001112567899998876554

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

Probab=98.20  E-value=8.1e-08  Score=86.49  Aligned_cols=78  Identities=14%  Similarity=0.213  Sum_probs=56.9

Q ss_pred             hhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccc
Q 040122           37 STIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDS  116 (388)
Q Consensus        37 ~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~  116 (388)
                      ..++++|..+.  +.-..+.+..+. |+.++.+. .  ..+++|+.|+|++| ++..+-|.. +.++++|..|-+.+++.
T Consensus        56 ~GL~eVP~~LP--~~tveirLdqN~-I~~iP~~a-F--~~l~~LRrLdLS~N-~Is~I~p~A-F~GL~~l~~Lvlyg~Nk  127 (498)
T KOG4237|consen   56 KGLTEVPANLP--PETVEIRLDQNQ-ISSIPPGA-F--KTLHRLRRLDLSKN-NISFIAPDA-FKGLASLLSLVLYGNNK  127 (498)
T ss_pred             CCcccCcccCC--CcceEEEeccCC-cccCChhh-c--cchhhhceeccccc-chhhcChHh-hhhhHhhhHHHhhcCCc
Confidence            34566776653  556677776554 77777666 2  46889999999988 677655554 88999999998988888


Q ss_pred             cceecc
Q 040122          117 LEEVLH  122 (388)
Q Consensus       117 l~~i~~  122 (388)
                      +..++.
T Consensus       128 I~~l~k  133 (498)
T KOG4237|consen  128 ITDLPK  133 (498)
T ss_pred             hhhhhh
Confidence            888765

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.15  E-value=1.8e-05  Score=73.63  Aligned_cols=60  Identities=20%  Similarity=0.310  Sum_probs=32.7

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      +.++..|++++| .++.+|.   +  -.+|++|.+++|..+..+|+.            ..++|++|.+.+|..+..+
T Consensus        51 ~~~l~~L~Is~c-~L~sLP~---L--P~sLtsL~Lsnc~nLtsLP~~------------LP~nLe~L~Ls~Cs~L~sL  110 (426)
T PRK15386         51 ARASGRLYIKDC-DIESLPV---L--PNELTEITIENCNNLTTLPGS------------IPEGLEKLTVCHCPEISGL  110 (426)
T ss_pred             hcCCCEEEeCCC-CCcccCC---C--CCCCcEEEccCCCCcccCCch------------hhhhhhheEccCccccccc
Confidence            566666666666 5555331   1  134666666666665555431            1246666666666544433

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

Probab=98.09  E-value=2e-07  Score=90.98  Aligned_cols=244  Identities=18%  Similarity=0.182  Sum_probs=128.2

Q ss_pred             CCCcceEEecCccccceeccccccCccccCCccEEEecCC-CCCcccC--ChhhhhcCCCCcEEEeccccccceeccccc
Q 040122           49 FLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDS-TNMSSAI--PANLLRCLNNLEWLAVRNCDSLEEVLHLEE  125 (388)
Q Consensus        49 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~-~~l~~~~--~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~  125 (388)
                      .++|+.+.+.+|..+...+...  ....+++|+.|++.+| ......+  .......+++|++|++++|..+.... +..
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~--~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~-l~~  263 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDA--LALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIG-LSA  263 (482)
T ss_pred             CchhhHhhhcccccCChhhHHH--HHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchh-HHH
Confidence            6889999999998887644222  1156899999999873 2222211  12235677899999999987544421 111


Q ss_pred             ccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCc
Q 040122          126 LSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEE  205 (388)
Q Consensus       126 ~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~  205 (388)
                      +       ...+++|+.|.+.+|..+++-..... ...+++|++|++++|..++.......           ..++++++
T Consensus       264 l-------~~~c~~L~~L~l~~c~~lt~~gl~~i-~~~~~~L~~L~l~~c~~~~d~~l~~~-----------~~~c~~l~  324 (482)
T KOG1947|consen  264 L-------ASRCPNLETLSLSNCSNLTDEGLVSI-AERCPSLRELDLSGCHGLTDSGLEAL-----------LKNCPNLR  324 (482)
T ss_pred             H-------HhhCCCcceEccCCCCccchhHHHHH-HHhcCcccEEeeecCccchHHHHHHH-----------HHhCcchh
Confidence            1       23488999999888876544311111 34689999999999987744332222           33455555


Q ss_pred             eEEEecccc-------cccccccCC-CCcceEEecCCCCcceecccCchhHhhhcccc-EEEEecCCCc-ccccCCcccc
Q 040122          206 NLLVANQIQ-------HLFDEKVAF-PQLGNLRLSGLHKVQHLWKENDESNKAFANLE-RLEISECSKL-QKLVPPSWHL  275 (388)
Q Consensus       206 ~L~l~~~~~-------~~~~~~~~~-~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~-~L~i~~~~~~-~~~~~~~~~~  275 (388)
                      .+.+.....       .+....... ..+..+.+..|++++.......   . ..... .+.+.+|+.+ ..+.......
T Consensus       325 ~l~~~~~~~c~~l~~~~l~~~~~~~~d~~~~~~~~~~~~l~~~~l~~~---~-~~~~~~~~~l~gc~~l~~~l~~~~~~~  400 (482)
T KOG1947|consen  325 ELKLLSLNGCPSLTDLSLSGLLTLTSDDLAELILRSCPKLTDLSLSYC---G-ISDLGLELSLRGCPNLTESLELRLCRS  400 (482)
T ss_pred             hhhhhhcCCCccHHHHHHHHhhccCchhHhHHHHhcCCCcchhhhhhh---h-ccCcchHHHhcCCcccchHHHHHhccC
Confidence            554333100       000000000 1223333333333332211100   0 11111 2333445444 2221112223


Q ss_pred             CCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchh
Q 040122          276 ENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQI  318 (388)
Q Consensus       276 ~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~  318 (388)
                      ..++.|++..|...++.........+..+..+++.+|+.+...
T Consensus       401 ~~l~~L~l~~~~~~t~~~l~~~~~~~~~~~~l~~~~~~~~~~~  443 (482)
T KOG1947|consen  401 DSLRVLNLSDCRLVTDKGLRCLADSCSNLKDLDLSGCRVITLK  443 (482)
T ss_pred             CccceEecccCccccccchHHHhhhhhccccCCccCcccccch
Confidence            3378899998876665543332222667777888777665433

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.99  E-value=2.9e-05  Score=72.24  Aligned_cols=115  Identities=13%  Similarity=0.213  Sum_probs=59.4

Q ss_pred             CCcceEEecCCCCcceecccCchhHhhhccccEEEEecCC--CcccccCCccccCCCCEEeeccCcCcccccchhhhcCc
Q 040122          224 PQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECS--KLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNL  301 (388)
Q Consensus       224 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~--~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l  301 (388)
                      ++|+.|.+++|..+..+|          +.|+.|++.++.  .+..+|      ++|+.|.+.++.........   ..+
T Consensus        94 ~nLe~L~Ls~Cs~L~sLP----------~sLe~L~L~~n~~~~L~~LP------ssLk~L~I~~~n~~~~~~lp---~~L  154 (426)
T PRK15386         94 EGLEKLTVCHCPEISGLP----------ESVRSLEIKGSATDSIKNVP------NGLTSLSINSYNPENQARID---NLI  154 (426)
T ss_pred             hhhhheEccCcccccccc----------cccceEEeCCCCCcccccCc------chHhheeccccccccccccc---ccc
Confidence            477788888776665544          446777765422  233333      36667776543211111000   112


Q ss_pred             -cccceeeEccccccchhhcccccccCCccccccccceEecccCCCcc--eecCCCccccCCCcceEEeccCCCc
Q 040122          302 -VNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLT--SFCLGNYALEFPSLKQVVVRQCPKM  373 (388)
Q Consensus       302 -~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~--~~~~~~~~~~~~~L~~L~l~~c~~l  373 (388)
                       ++|++|++.+|..+. .+.          ....+|+.|.+..+. ..  .++....+   +++ .|.+.+|-++
T Consensus       155 PsSLk~L~Is~c~~i~-LP~----------~LP~SLk~L~ls~n~-~~sLeI~~~sLP---~nl-~L~f~n~lkL  213 (426)
T PRK15386        155 SPSLKTLSLTGCSNII-LPE----------KLPESLQSITLHIEQ-KTTWNISFEGFP---DGL-DIDLQNSVLL  213 (426)
T ss_pred             CCcccEEEecCCCccc-Ccc----------cccccCcEEEecccc-cccccCcccccc---ccc-Eechhhhccc
Confidence             578888888887542 111          122578888876542 11  12222211   345 7777777443

>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=97.92  E-value=1.9e-05  Score=53.23  Aligned_cols=58  Identities=26%  Similarity=0.303  Sum_probs=27.4

Q ss_pred             CccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccC
Q 040122           79 NLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDL  148 (388)
Q Consensus        79 ~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~  148 (388)
                      +|++|++++| +++.+++. .+.++++|++|++++ +.+..+++..         +..+++|++|+++++
T Consensus         2 ~L~~L~l~~n-~l~~i~~~-~f~~l~~L~~L~l~~-N~l~~i~~~~---------f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    2 NLESLDLSNN-KLTEIPPD-SFSNLPNLETLDLSN-NNLTSIPPDA---------FSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSS-TESEECTT-TTTTGTTESEEEETS-SSESEEETTT---------TTTSTTESEEEETSS
T ss_pred             cCcEEECCCC-CCCccCHH-HHcCCCCCCEeEccC-CccCccCHHH---------HcCCCCCCEEeCcCC
Confidence            4555555555 44443322 255555555555554 2334433211         244555555555544

...

>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=97.88  E-value=2.9e-05  Score=52.36  Aligned_cols=59  Identities=29%  Similarity=0.383  Sum_probs=37.7

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNC  114 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~  114 (388)
                      |+|++|+++++. +..++.+. .  ..+++|++|++++| .++.+++. .+.++++|++|++++|
T Consensus         1 p~L~~L~l~~n~-l~~i~~~~-f--~~l~~L~~L~l~~N-~l~~i~~~-~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    1 PNLESLDLSNNK-LTEIPPDS-F--SNLPNLETLDLSNN-NLTSIPPD-AFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TTESEEEETSST-ESEECTTT-T--TTGTTESEEEETSS-SESEEETT-TTTTSTTESEEEETSS
T ss_pred             CcCcEEECCCCC-CCccCHHH-H--cCCCCCCEeEccCC-ccCccCHH-HHcCCCCCCEEeCcCC
Confidence            467777777663 66554433 2  35677777777766 56664443 3677777777777775

...

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

Probab=97.77  E-value=1.9e-06  Score=76.64  Aligned_cols=259  Identities=19%  Similarity=0.135  Sum_probs=124.3

Q ss_pred             hHHHHhhhccCCCCcceEEecCccccc-e--eccccccCccccCCccEEEecCC--CCCcccCChh------hhhcCCCC
Q 040122           38 TIQKCYDEKIGFLDINRLQLSHFPRLQ-E--IWHGQALPVRFFNNLAELVVDDS--TNMSSAIPAN------LLRCLNNL  106 (388)
Q Consensus        38 ~~~~l~~~~~~~~~L~~L~l~~~~~l~-~--~~~~~~~~~~~~~~L~~L~l~~~--~~l~~~~~~~------~~~~l~~L  106 (388)
                      ..+.+.+..-.+..++++++++.. +. .  .|.+.  ...+-++|+..++++-  ..+....|..      .+..+++|
T Consensus        18 d~~~v~~~~~~~~s~~~l~lsgnt-~G~EAa~~i~~--~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L   94 (382)
T KOG1909|consen   18 DEKDVEEELEPMDSLTKLDLSGNT-FGTEAARAIAK--VLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKL   94 (382)
T ss_pred             hhhhHHHHhcccCceEEEeccCCc-hhHHHHHHHHH--HHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCce
Confidence            344555666778899999999865 33 1  11111  1134567777777653  1111112221      24567789


Q ss_pred             cEEEecccccc-ceecccccccccccccCCcCccccEeecccCcccccccCC-----------CCccccCCCcceEeEec
Q 040122          107 EWLAVRNCDSL-EEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF-----------TGNIIELPKLEYLIIEN  174 (388)
Q Consensus       107 ~~L~l~~~~~l-~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~-----------~~~~~~l~~L~~L~l~~  174 (388)
                      ++|++|+|-.. +.++..+.+       +.++..|++|.+.+|. +......           ....+.-+.|+++...+
T Consensus        95 ~~ldLSDNA~G~~g~~~l~~l-------l~s~~~L~eL~L~N~G-lg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~r  166 (382)
T KOG1909|consen   95 QKLDLSDNAFGPKGIRGLEEL-------LSSCTDLEELYLNNCG-LGPEAGGRLGRALFELAVNKKAASKPKLRVFICGR  166 (382)
T ss_pred             eEeeccccccCccchHHHHHH-------HHhccCHHHHhhhcCC-CChhHHHHHHHHHHHHHHHhccCCCcceEEEEeec
Confidence            99999986322 223222222       4668888888888873 2222000           01123445666666555


Q ss_pred             CCCcccccCCcceeeecccCCCccccccCCceEEEecccccccccccCCCCcceEEecCCCCcceec-ccCchhHhhhcc
Q 040122          175 CPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLW-KENDESNKAFAN  253 (388)
Q Consensus       175 c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~-~~~~~~~~~~~~  253 (388)
                      + ++...+...                              +-..+...+.|+.+.+... .+..-. ......+.++++
T Consensus       167 N-rlen~ga~~------------------------------~A~~~~~~~~leevr~~qN-~I~~eG~~al~eal~~~~~  214 (382)
T KOG1909|consen  167 N-RLENGGATA------------------------------LAEAFQSHPTLEEVRLSQN-GIRPEGVTALAEALEHCPH  214 (382)
T ss_pred             c-ccccccHHH------------------------------HHHHHHhccccceEEEecc-cccCchhHHHHHHHHhCCc
Confidence            3 443333211                              1111122345555555431 111100 011122355666


Q ss_pred             ccEEEEecCCCcc----cccCCccccCCCCEEeeccCcCcccccch----hhhcCccccceeeEccccccchhhcccccc
Q 040122          254 LERLEISECSKLQ----KLVPPSWHLENLEALKVSKCHELINVLTL----SASKNLVNLGRMMIADCKMIEQIIQLQVGE  325 (388)
Q Consensus       254 L~~L~i~~~~~~~----~~~~~~~~~~~L~~L~l~~c~~l~~~~~~----~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~  325 (388)
                      |++|++.++..-.    .+...+..+++|+.|++++| .+++-...    .+-...|+|+.|.+.+|....+-..    .
T Consensus       215 LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dc-ll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~----~  289 (382)
T KOG1909|consen  215 LEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDC-LLENEGAIAFVDALKESAPSLEVLELAGNEITRDAAL----A  289 (382)
T ss_pred             ceeeecccchhhhHHHHHHHHHhcccchheeeccccc-ccccccHHHHHHHHhccCCCCceeccCcchhHHHHHH----H
Confidence            6666666654321    22334455667777777776 33332211    1223456777777777653322111    0


Q ss_pred             cCCccccccccceEecccC
Q 040122          326 EAKDCNVFKELEYLGLDCL  344 (388)
Q Consensus       326 ~~~~~~~~~~L~~L~l~~~  344 (388)
                      -+.....-|.|..|.+.+|
T Consensus       290 la~~~~ek~dL~kLnLngN  308 (382)
T KOG1909|consen  290 LAACMAEKPDLEKLNLNGN  308 (382)
T ss_pred             HHHHHhcchhhHHhcCCcc
Confidence            0001122356666666665

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

Probab=97.69  E-value=5.3e-06  Score=73.90  Aligned_cols=200  Identities=16%  Similarity=0.103  Sum_probs=109.4

Q ss_pred             ccCcceeeecCCCCc-hhHHHHhhhccCCCCcceEEecCccccc---eecc-----ccccCccccCCccEEEecCCCCCc
Q 040122           22 KEEGELHHWEGNNLN-STIQKCYDEKIGFLDINRLQLSHFPRLQ---EIWH-----GQALPVRFFNNLAELVVDDSTNMS   92 (388)
Q Consensus        22 ~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~L~~L~l~~~~~l~---~~~~-----~~~~~~~~~~~L~~L~l~~~~~l~   92 (388)
                      +....+++.+|+... ...+.+-..+...++|+..+++++..=.   .++.     +.++  -.+++|++|+|++|-...
T Consensus        29 ~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL--~~~~~L~~ldLSDNA~G~  106 (382)
T KOG1909|consen   29 MDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKAL--LGCPKLQKLDLSDNAFGP  106 (382)
T ss_pred             cCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHH--hcCCceeEeeccccccCc
Confidence            344567778885332 2345677777788899999999753111   1111     1101  236799999999985333


Q ss_pred             ccCCh--hhhhcCCCCcEEEeccccccceecccc-ccccc---ccccCCcCccccEeecccCcccccccC--CCCccccC
Q 040122           93 SAIPA--NLLRCLNNLEWLAVRNCDSLEEVLHLE-ELSAK---EEHIGPLFPRLLSLKLIDLPKLKRFCN--FTGNIIEL  164 (388)
Q Consensus        93 ~~~~~--~~~~~l~~L~~L~l~~~~~l~~i~~~~-~~~~~---~~~~~~~~~~L~~L~l~~~~~l~~~~~--~~~~~~~l  164 (388)
                      ..++.  .++.++..|++|.+.+|.. +...... +-.+.   ...-..+-++||.+...++. +.+...  ....+..+
T Consensus       107 ~g~~~l~~ll~s~~~L~eL~L~N~Gl-g~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNr-len~ga~~~A~~~~~~  184 (382)
T KOG1909|consen  107 KGIRGLEELLSSCTDLEELYLNNCGL-GPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNR-LENGGATALAEAFQSH  184 (382)
T ss_pred             cchHHHHHHHHhccCHHHHhhhcCCC-ChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccc-cccccHHHHHHHHHhc
Confidence            22221  1578899999999999742 2111100 00000   00113567888888887653 333200  01114457


Q ss_pred             CCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecc-c-----ccccccccCCCCcceEEecCC
Q 040122          165 PKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQ-I-----QHLFDEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       165 ~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~-~-----~~~~~~~~~~~~L~~L~l~~~  234 (388)
                      +.|+.+.++.. .+..-.....        ...+..+++|+.|++.++ +     ..+...+..+++|+.+++++|
T Consensus       185 ~~leevr~~qN-~I~~eG~~al--------~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dc  251 (382)
T KOG1909|consen  185 PTLEEVRLSQN-GIRPEGVTAL--------AEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDC  251 (382)
T ss_pred             cccceEEEecc-cccCchhHHH--------HHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeeccccc
Confidence            89999998875 3332221100        002567777777777761 1     122333445666667766666

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

Probab=97.60  E-value=7.7e-05  Score=70.96  Aligned_cols=177  Identities=25%  Similarity=0.303  Sum_probs=97.0

Q ss_pred             hhcCCCCcEEEeccccccceecccccccccccccCCcCc-cccEeecccCcccccccCCCCccccCCCcceEeEecCCCc
Q 040122          100 LRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFP-RLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDM  178 (388)
Q Consensus       100 ~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~-~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l  178 (388)
                      +..++.++.|++.+ ..+..+++..          .... +|+.|++++. .+..+.  .. +..+++|+.|++.++ .+
T Consensus       112 ~~~~~~l~~L~l~~-n~i~~i~~~~----------~~~~~nL~~L~l~~N-~i~~l~--~~-~~~l~~L~~L~l~~N-~l  175 (394)
T COG4886         112 LLELTNLTSLDLDN-NNITDIPPLI----------GLLKSNLKELDLSDN-KIESLP--SP-LRNLPNLKNLDLSFN-DL  175 (394)
T ss_pred             hhcccceeEEecCC-cccccCcccc----------ccchhhccccccccc-chhhhh--hh-hhccccccccccCCc-hh
Confidence            44456677777766 3455554431          2242 6777777654 234431  12 557777777777775 45


Q ss_pred             ccccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEE
Q 040122          179 ETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERL  257 (388)
Q Consensus       179 ~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L  257 (388)
                      ..++..             .+..++|+.|++++ ....++...+....|+++.+++...+.... .    ...+.++..+
T Consensus       176 ~~l~~~-------------~~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~-~----~~~~~~l~~l  237 (394)
T COG4886         176 SDLPKL-------------LSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIELLS-S----LSNLKNLSGL  237 (394)
T ss_pred             hhhhhh-------------hhhhhhhhheeccCCccccCchhhhhhhhhhhhhhcCCcceecch-h----hhhccccccc
Confidence            555543             22566777777776 444444444444457777776642222211 1    1445555555


Q ss_pred             EEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccccc
Q 040122          258 EISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMI  315 (388)
Q Consensus       258 ~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~  315 (388)
                      .+.++. +..++.....++++++|+++++ .+.+++.   ...+.+++.|+++++...
T Consensus       238 ~l~~n~-~~~~~~~~~~l~~l~~L~~s~n-~i~~i~~---~~~~~~l~~L~~s~n~~~  290 (394)
T COG4886         238 ELSNNK-LEDLPESIGNLSNLETLDLSNN-QISSISS---LGSLTNLRELDLSGNSLS  290 (394)
T ss_pred             ccCCce-eeeccchhccccccceeccccc-ccccccc---ccccCccCEEeccCcccc
Confidence            544432 3333445566667777777764 4555433   356677777777765443

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

Probab=97.49  E-value=8.2e-05  Score=70.78  Aligned_cols=172  Identities=24%  Similarity=0.300  Sum_probs=112.6

Q ss_pred             ccCCccEEEecCCCCCcccCChhhhhcCC-CCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           76 FFNNLAELVVDDSTNMSSAIPANLLRCLN-NLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        76 ~~~~L~~L~l~~~~~l~~~~~~~~~~~l~-~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      .++++..|++.++ .+..+++.  ...+. +|+.|++++ +.+..++..          ...+++|+.|++++++ +..+
T Consensus       114 ~~~~l~~L~l~~n-~i~~i~~~--~~~~~~nL~~L~l~~-N~i~~l~~~----------~~~l~~L~~L~l~~N~-l~~l  178 (394)
T COG4886         114 ELTNLTSLDLDNN-NITDIPPL--IGLLKSNLKELDLSD-NKIESLPSP----------LRNLPNLKNLDLSFND-LSDL  178 (394)
T ss_pred             cccceeEEecCCc-ccccCccc--cccchhhcccccccc-cchhhhhhh----------hhccccccccccCCch-hhhh
Confidence            3567888888776 66665554  34553 888998888 455555311          3668888888888763 5555


Q ss_pred             cCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecc-cccccccccCCCCcceEEecC
Q 040122          155 CNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQ-IQHLFDEKVAFPQLGNLRLSG  233 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~-~~~~~~~~~~~~~L~~L~l~~  233 (388)
                      +  .. .+..++|+.|++.+. .++.++..             +....+|+.+.++.+ ....+.....+.++..+.+.+
T Consensus       179 ~--~~-~~~~~~L~~L~ls~N-~i~~l~~~-------------~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~  241 (394)
T COG4886         179 P--KL-LSNLSNLNNLDLSGN-KISDLPPE-------------IELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSN  241 (394)
T ss_pred             h--hh-hhhhhhhhheeccCC-ccccCchh-------------hhhhhhhhhhhhcCCcceecchhhhhcccccccccCC
Confidence            2  11 237788888888885 67777654             334556888888775 556666666777777777554


Q ss_pred             CCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          234 LHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                       ..+..++..    .+.++.++.|+++++. +..++. +....+++.|++++.
T Consensus       242 -n~~~~~~~~----~~~l~~l~~L~~s~n~-i~~i~~-~~~~~~l~~L~~s~n  287 (394)
T COG4886         242 -NKLEDLPES----IGNLSNLETLDLSNNQ-ISSISS-LGSLTNLRELDLSGN  287 (394)
T ss_pred             -ceeeeccch----hccccccceecccccc-cccccc-ccccCccCEEeccCc
Confidence             233332211    1666778888888864 444443 777788888888874

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

Probab=97.44  E-value=3.4e-05  Score=77.54  Aligned_cols=37  Identities=19%  Similarity=0.133  Sum_probs=17.3

Q ss_pred             cCccccEeecccCccc-ccccCCCCccccCCCcceEeEec
Q 040122          136 LFPRLLSLKLIDLPKL-KRFCNFTGNIIELPKLEYLIIEN  174 (388)
Q Consensus       136 ~~~~L~~L~l~~~~~l-~~~~~~~~~~~~l~~L~~L~l~~  174 (388)
                      +-.+|++|++.+...+ ..|  +..-...+|+|+.|.+.+
T Consensus       120 sr~nL~~LdI~G~~~~s~~W--~~kig~~LPsL~sL~i~~  157 (699)
T KOG3665|consen  120 SRQNLQHLDISGSELFSNGW--PKKIGTMLPSLRSLVISG  157 (699)
T ss_pred             HHHhhhhcCccccchhhccH--HHHHhhhCcccceEEecC
Confidence            3556666666553222 111  111012466666666665

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

Probab=97.39  E-value=3.7e-05  Score=67.32  Aligned_cols=125  Identities=18%  Similarity=0.227  Sum_probs=87.7

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      ..|++++++++. ++.+....    .-.|+++.|++++| .+...-.   +..+++|++||++++ .+.++...      
T Consensus       284 q~LtelDLS~N~-I~~iDESv----KL~Pkir~L~lS~N-~i~~v~n---La~L~~L~~LDLS~N-~Ls~~~Gw------  347 (490)
T KOG1259|consen  284 QELTELDLSGNL-ITQIDESV----KLAPKLRRLILSQN-RIRTVQN---LAELPQLQLLDLSGN-LLAECVGW------  347 (490)
T ss_pred             hhhhhccccccc-hhhhhhhh----hhccceeEEecccc-ceeeehh---hhhcccceEeecccc-hhHhhhhh------
Confidence            568999998765 66444344    55799999999998 4554222   788999999999995 44433111      


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEE
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLV  209 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l  209 (388)
                          -..+.+++.|.+..+ .++.+    +-++++-+|..|++.+. +++.+..-.           +++++|.|+.+.+
T Consensus       348 ----h~KLGNIKtL~La~N-~iE~L----SGL~KLYSLvnLDl~~N-~Ie~ldeV~-----------~IG~LPCLE~l~L  406 (490)
T KOG1259|consen  348 ----HLKLGNIKTLKLAQN-KIETL----SGLRKLYSLVNLDLSSN-QIEELDEVN-----------HIGNLPCLETLRL  406 (490)
T ss_pred             ----HhhhcCEeeeehhhh-hHhhh----hhhHhhhhheecccccc-chhhHHHhc-----------ccccccHHHHHhh
Confidence                145788888888764 45555    22667888899999885 666654333           3888999999988


Q ss_pred             ec
Q 040122          210 AN  211 (388)
Q Consensus       210 ~~  211 (388)
                      .+
T Consensus       407 ~~  408 (490)
T KOG1259|consen  407 TG  408 (490)
T ss_pred             cC
Confidence            77

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

Probab=97.35  E-value=5.8e-05  Score=75.96  Aligned_cols=36  Identities=17%  Similarity=0.363  Sum_probs=15.4

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecC
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDD   87 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~   87 (388)
                      .+|++|++++...+...|... .. .-+|+|++|.+.+
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~k-ig-~~LPsL~sL~i~~  157 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKK-IG-TMLPSLRSLVISG  157 (699)
T ss_pred             HhhhhcCccccchhhccHHHH-Hh-hhCcccceEEecC
Confidence            445555555444333444322 11 2345555555543

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

Probab=97.26  E-value=7.8e-05  Score=65.36  Aligned_cols=40  Identities=25%  Similarity=0.338  Sum_probs=22.4

Q ss_pred             cccCCccEEEecCCCCC-------cccCChhhhhcCCCCcEEEecccc
Q 040122           75 RFFNNLAELVVDDSTNM-------SSAIPANLLRCLNNLEWLAVRNCD  115 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l-------~~~~~~~~~~~l~~L~~L~l~~~~  115 (388)
                      ..+..|..|.+++...-       .+..++. +.-+++|+.+.++.|.
T Consensus       179 df~~~l~~l~vs~~~~p~~~sni~~~~l~f~-l~~f~~l~~~~~s~~~  225 (490)
T KOG1259|consen  179 DFCTQLVALVVTPVKDPIDRSNIIPNRLSFN-LNAFRNLKTLKFSALS  225 (490)
T ss_pred             HhhhheeEEEecCCCCCCccccccccccccc-hHHhhhhheeeeeccc
Confidence            34667777777653211       1122222 4556778888888874

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=97.24  E-value=8.4e-06  Score=77.13  Aligned_cols=158  Identities=19%  Similarity=0.146  Sum_probs=90.6

Q ss_pred             hHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEecccccc
Q 040122           38 TIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSL  117 (388)
Q Consensus        38 ~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l  117 (388)
                      ...++|.+.+.|..|+.+.++.+- +..++...    ..+..|.+|+++.+ .+...++.  +..|+ |+.|-+++ +++
T Consensus        86 R~~elp~~~~~f~~Le~liLy~n~-~r~ip~~i----~~L~~lt~l~ls~N-qlS~lp~~--lC~lp-Lkvli~sN-Nkl  155 (722)
T KOG0532|consen   86 RFSELPEEACAFVSLESLILYHNC-IRTIPEAI----CNLEALTFLDLSSN-QLSHLPDG--LCDLP-LKVLIVSN-NKL  155 (722)
T ss_pred             ccccCchHHHHHHHHHHHHHHhcc-ceecchhh----hhhhHHHHhhhccc-hhhcCChh--hhcCc-ceeEEEec-Ccc
Confidence            345567777777777777776433 44444444    55677777777766 44543332  55555 77777776 455


Q ss_pred             ceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCc
Q 040122          118 EEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKE  197 (388)
Q Consensus       118 ~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~  197 (388)
                      +.+|...          +....|..|+.+.|. +..+  +.. ++.+.+|+.|.+... ++..+|..             
T Consensus       156 ~~lp~~i----------g~~~tl~~ld~s~ne-i~sl--psq-l~~l~slr~l~vrRn-~l~~lp~E-------------  207 (722)
T KOG0532|consen  156 TSLPEEI----------GLLPTLAHLDVSKNE-IQSL--PSQ-LGYLTSLRDLNVRRN-HLEDLPEE-------------  207 (722)
T ss_pred             ccCCccc----------ccchhHHHhhhhhhh-hhhc--hHH-hhhHHHHHHHHHhhh-hhhhCCHH-------------
Confidence            5555542          346666677776553 3333  222 556666666666663 55555544             


Q ss_pred             cccccCCceEEEec-ccccccccccCCCCcceEEecCC
Q 040122          198 PQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       198 l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~  234 (388)
                      ++ .-.|.+|+++. ....+|..+..+..|+.|-|.+.
T Consensus       208 l~-~LpLi~lDfScNkis~iPv~fr~m~~Lq~l~LenN  244 (722)
T KOG0532|consen  208 LC-SLPLIRLDFSCNKISYLPVDFRKMRHLQVLQLENN  244 (722)
T ss_pred             Hh-CCceeeeecccCceeecchhhhhhhhheeeeeccC
Confidence            23 22455555555 44455555555666666666553

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.18  E-value=9.8e-05  Score=64.71  Aligned_cols=142  Identities=18%  Similarity=0.137  Sum_probs=78.0

Q ss_pred             CCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCc
Q 040122          222 AFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNL  301 (388)
Q Consensus       222 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l  301 (388)
                      ..+.++.+++.+ +.+.+| .+...++.++|.|++|+++.+..-..+-..-....+|+.|.+.+. .+.-....++...+
T Consensus        69 ~~~~v~elDL~~-N~iSdW-seI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT-~L~w~~~~s~l~~l  145 (418)
T KOG2982|consen   69 SVTDVKELDLTG-NLISDW-SEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGT-GLSWTQSTSSLDDL  145 (418)
T ss_pred             Hhhhhhhhhccc-chhccH-HHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCC-CCChhhhhhhhhcc
Confidence            346677778776 334443 233334578888889888886543332111123468888888774 33222233455788


Q ss_pred             cccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEeccCC
Q 040122          302 VNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCP  371 (388)
Q Consensus       302 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~  371 (388)
                      |.+++|+++.++ .+++-..+++.++.    -+.+++|+...|+...-.........||++..+.+..||
T Consensus       146 P~vtelHmS~N~-~rq~n~Dd~c~e~~----s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~P  210 (418)
T KOG2982|consen  146 PKVTELHMSDNS-LRQLNLDDNCIEDW----STEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGP  210 (418)
T ss_pred             hhhhhhhhccch-hhhhcccccccccc----chhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCc
Confidence            899999998874 44444433333332    145666666665322111000111126777777776665

>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=97.12  E-value=0.00088  Score=41.59  Aligned_cols=39  Identities=31%  Similarity=0.490  Sum_probs=27.1

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEecccccccee
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEV  120 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i  120 (388)
                      ++|++|++++| +++++++.  +++|++|++|++++| .+..+
T Consensus         1 ~~L~~L~l~~N-~i~~l~~~--l~~l~~L~~L~l~~N-~i~~i   39 (44)
T PF12799_consen    1 KNLEELDLSNN-QITDLPPE--LSNLPNLETLNLSNN-PISDI   39 (44)
T ss_dssp             TT-SEEEETSS-S-SSHGGH--GTTCTTSSEEEETSS-CCSBE
T ss_pred             CcceEEEccCC-CCcccCch--HhCCCCCCEEEecCC-CCCCC
Confidence            47888888887 67775553  788888888888886 45554

...

>PLN03150 hypothetical protein; Provisional

Probab=97.07  E-value=0.0013  Score=66.29  Aligned_cols=83  Identities=14%  Similarity=0.096  Sum_probs=59.0

Q ss_pred             CccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCC
Q 040122           79 NLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFT  158 (388)
Q Consensus        79 ~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  158 (388)
                      .++.|+|+++ .+....|.. +.++++|++|++++|...+.+|..          +..+++|+.|+++++.....+  +.
T Consensus       419 ~v~~L~L~~n-~L~g~ip~~-i~~L~~L~~L~Ls~N~l~g~iP~~----------~~~l~~L~~LdLs~N~lsg~i--P~  484 (623)
T PLN03150        419 FIDGLGLDNQ-GLRGFIPND-ISKLRHLQSINLSGNSIRGNIPPS----------LGSITSLEVLDLSYNSFNGSI--PE  484 (623)
T ss_pred             EEEEEECCCC-CccccCCHH-HhCCCCCCEEECCCCcccCcCChH----------HhCCCCCCEEECCCCCCCCCC--ch
Confidence            3678888877 555545554 788899999999987544455543          356888999999887543344  33


Q ss_pred             CccccCCCcceEeEecCC
Q 040122          159 GNIIELPKLEYLIIENCP  176 (388)
Q Consensus       159 ~~~~~l~~L~~L~l~~c~  176 (388)
                      . ++.+++|++|++.++.
T Consensus       485 ~-l~~L~~L~~L~Ls~N~  501 (623)
T PLN03150        485 S-LGQLTSLRILNLNGNS  501 (623)
T ss_pred             H-HhcCCCCCEEECcCCc
Confidence            3 6788899999998874

>PLN03150 hypothetical protein; Provisional

Probab=96.81  E-value=0.0022  Score=64.61  Aligned_cols=113  Identities=8%  Similarity=0.007  Sum_probs=70.3

Q ss_pred             ccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccc
Q 040122          254 LERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVF  333 (388)
Q Consensus       254 L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~  333 (388)
                      ++.|++.++.....+|..+..+++|+.|+++++ .+...... ....+++|+.|++++|.....++.        ....+
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  489 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGN-SIRGNIPP-SLGSITSLEVLDLSYNSFNGSIPE--------SLGQL  489 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCC-cccCcCCh-HHhCCCCCCEEECCCCCCCCCCch--------HHhcC
Confidence            667777777666677777778888888888876 34322121 236778888888888765544443        23456


Q ss_pred             cccceEecccCCCcceecCCCccccCCCcceEEeccCCCccccc
Q 040122          334 KELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFS  377 (388)
Q Consensus       334 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp  377 (388)
                      ++|+.|+++++..-..+|..... ...++..+++.+++.+...|
T Consensus       490 ~~L~~L~Ls~N~l~g~iP~~l~~-~~~~~~~l~~~~N~~lc~~p  532 (623)
T PLN03150        490 TSLRILNLNGNSLSGRVPAALGG-RLLHRASFNFTDNAGLCGIP  532 (623)
T ss_pred             CCCCEEECcCCcccccCChHHhh-ccccCceEEecCCccccCCC
Confidence            78888888876544455543321 12355677777766555443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.73  E-value=0.00096  Score=58.67  Aligned_cols=69  Identities=12%  Similarity=0.179  Sum_probs=36.5

Q ss_pred             hhhccccEEEEecCCCcccc-cCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchh
Q 040122          249 KAFANLERLEISECSKLQKL-VPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQI  318 (388)
Q Consensus       249 ~~~~~L~~L~i~~~~~~~~~-~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~  318 (388)
                      ..++++..+.+..|+.-..- -.....+|.+-.|+++. .++.+.....-...+++|..|.+++++.++.+
T Consensus       196 r~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~-~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l  265 (418)
T KOG2982|consen  196 RIFPNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGA-NNIDSWASVDALNGFPQLVDLRVSENPLSDPL  265 (418)
T ss_pred             hhcccchheeeecCcccchhhcccCCCCCcchhhhhcc-cccccHHHHHHHcCCchhheeeccCCcccccc
Confidence            44566666666666432211 11223344455555554 24444433333456677777777777766544

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=96.70  E-value=7.8e-05  Score=70.78  Aligned_cols=172  Identities=19%  Similarity=0.187  Sum_probs=110.0

Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      ..|-.|+.+.+..+ .+..++..  +.++..|.+|+++.+ .+..+|.-           -..--|+.|-+++. +++.+
T Consensus        95 ~~f~~Le~liLy~n-~~r~ip~~--i~~L~~lt~l~ls~N-qlS~lp~~-----------lC~lpLkvli~sNN-kl~~l  158 (722)
T KOG0532|consen   95 CAFVSLESLILYHN-CIRTIPEA--ICNLEALTFLDLSSN-QLSHLPDG-----------LCDLPLKVLIVSNN-KLTSL  158 (722)
T ss_pred             HHHHHHHHHHHHhc-cceecchh--hhhhhHHHHhhhccc-hhhcCChh-----------hhcCcceeEEEecC-ccccC
Confidence            44667777777665 34443443  788888888888884 44444442           12344677777664 56666


Q ss_pred             cCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecC
Q 040122          155 CNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSG  233 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~  233 (388)
                        +.. ++..+.|..|+++.| .+..++..             ++++.+|+.|.+.. ....++.++..+ .|..|++++
T Consensus       159 --p~~-ig~~~tl~~ld~s~n-ei~slpsq-------------l~~l~slr~l~vrRn~l~~lp~El~~L-pLi~lDfSc  220 (722)
T KOG0532|consen  159 --PEE-IGLLPTLAHLDVSKN-EIQSLPSQ-------------LGYLTSLRDLNVRRNHLEDLPEELCSL-PLIRLDFSC  220 (722)
T ss_pred             --Ccc-cccchhHHHhhhhhh-hhhhchHH-------------hhhHHHHHHHHHhhhhhhhCCHHHhCC-ceeeeeccc
Confidence              444 667888888888887 56666654             67788888887776 556666666644 567788875


Q ss_pred             CCCcceecccCchhHhhhccccEEEEecCCCcccccCCc---cccCCCCEEeeccC
Q 040122          234 LHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPS---WHLENLEALKVSKC  286 (388)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~---~~~~~L~~L~l~~c  286 (388)
                       +++..+|.+.    ..+..|++|-+.+++.- +-|..+   +...-.++|++..|
T Consensus       221 -Nkis~iPv~f----r~m~~Lq~l~LenNPLq-SPPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  221 -NKISYLPVDF----RKMRHLQVLQLENNPLQ-SPPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             -Cceeecchhh----hhhhhheeeeeccCCCC-CChHHHHhccceeeeeeecchhc
Confidence             6778777643    67788888888876532 222211   22233456666555

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

Probab=96.54  E-value=0.005  Score=51.26  Aligned_cols=107  Identities=21%  Similarity=0.255  Sum_probs=57.5

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceec-ccccccccccccCCcCccccEeecccCcccccccC
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVL-HLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~-~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .+...+++++++ +.....   +.++++|.+|.+.++ .+..|. .+          ...+++|+.|.+.+++ +.++..
T Consensus        42 d~~d~iDLtdNd-l~~l~~---lp~l~rL~tLll~nN-rIt~I~p~L----------~~~~p~l~~L~LtnNs-i~~l~d  105 (233)
T KOG1644|consen   42 DQFDAIDLTDND-LRKLDN---LPHLPRLHTLLLNNN-RITRIDPDL----------DTFLPNLKTLILTNNS-IQELGD  105 (233)
T ss_pred             cccceecccccc-hhhccc---CCCccccceEEecCC-cceeeccch----------hhhccccceEEecCcc-hhhhhh
Confidence            445566776663 332222   566777777777764 344432 22          2446677777776542 333322


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN  211 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~  211 (388)
                      ... +..||.|++|.+-+.+.-..-..-..          -+..+|+|+.|++..
T Consensus       106 l~p-La~~p~L~~Ltll~Npv~~k~~YR~y----------vl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  106 LDP-LASCPKLEYLTLLGNPVEHKKNYRLY----------VLYKLPSLRTLDFQK  149 (233)
T ss_pred             cch-hccCCccceeeecCCchhcccCceeE----------EEEecCcceEeehhh
Confidence            223 55677777777766542221111111          256777777777776

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

Probab=96.27  E-value=0.0087  Score=49.87  Aligned_cols=87  Identities=25%  Similarity=0.332  Sum_probs=38.4

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      ++.|.+|.+.+| .++.+-|. ....+++|..|.+.+ +++.++.++..+        ..|++|++|.+.+.+--..-..
T Consensus        63 l~rL~tLll~nN-rIt~I~p~-L~~~~p~l~~L~Ltn-Nsi~~l~dl~pL--------a~~p~L~~Ltll~Npv~~k~~Y  131 (233)
T KOG1644|consen   63 LPRLHTLLLNNN-RITRIDPD-LDTFLPNLKTLILTN-NSIQELGDLDPL--------ASCPKLEYLTLLGNPVEHKKNY  131 (233)
T ss_pred             ccccceEEecCC-cceeeccc-hhhhccccceEEecC-cchhhhhhcchh--------ccCCccceeeecCCchhcccCc
Confidence            455555555554 34442222 133445566666655 334444443332        4455666665554431111000


Q ss_pred             CCCccccCCCcceEeEec
Q 040122          157 FTGNIIELPKLEYLIIEN  174 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~  174 (388)
                      -...+..+|+|+.|++.+
T Consensus       132 R~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  132 RLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             eeEEEEecCcceEeehhh
Confidence            001133555666655554

>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=96.19  E-value=0.0078  Score=37.29  Aligned_cols=40  Identities=18%  Similarity=0.230  Sum_probs=28.2

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccC
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAI   95 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~   95 (388)
                      ++|++|+++++. ++.++...    ..+++|+.|++++| .+++++
T Consensus         1 ~~L~~L~l~~N~-i~~l~~~l----~~l~~L~~L~l~~N-~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQ-ITDLPPEL----SNLPNLETLNLSNN-PISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS--SSHGGHG----TTCTTSSEEEETSS-CCSBEG
T ss_pred             CcceEEEccCCC-CcccCchH----hCCCCCCEEEecCC-CCCCCc
Confidence            478999998875 77655434    67999999999988 566543

...

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

Probab=96.07  E-value=0.0022  Score=55.36  Aligned_cols=13  Identities=46%  Similarity=0.657  Sum_probs=6.3

Q ss_pred             cCCCcceEeEecC
Q 040122          163 ELPKLEYLIIENC  175 (388)
Q Consensus       163 ~l~~L~~L~l~~c  175 (388)
                      .+++|..|++.+|
T Consensus       114 ~l~nL~~Ldl~n~  126 (260)
T KOG2739|consen  114 ELENLKSLDLFNC  126 (260)
T ss_pred             hhcchhhhhcccC
Confidence            4444445554444

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.57  E-value=0.00041  Score=60.34  Aligned_cols=107  Identities=20%  Similarity=0.161  Sum_probs=72.3

Q ss_pred             CCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCcc
Q 040122          223 FPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLV  302 (388)
Q Consensus       223 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~  302 (388)
                      +.+.+.|+.++| ++.++...     ..++.|++|.++-++ ++.+ ..+..|.+|+.|++... .+.++......+++|
T Consensus        18 l~~vkKLNcwg~-~L~DIsic-----~kMp~lEVLsLSvNk-IssL-~pl~rCtrLkElYLRkN-~I~sldEL~YLknlp   88 (388)
T KOG2123|consen   18 LENVKKLNCWGC-GLDDISIC-----EKMPLLEVLSLSVNK-ISSL-APLQRCTRLKELYLRKN-CIESLDELEYLKNLP   88 (388)
T ss_pred             HHHhhhhcccCC-CccHHHHH-----HhcccceeEEeeccc-cccc-hhHHHHHHHHHHHHHhc-ccccHHHHHHHhcCc
Confidence            456778888886 57776543     778899999998864 3333 35778899999998763 577776666778999


Q ss_pred             ccceeeEccccccchhhcccccccCCccccccccceEec
Q 040122          303 NLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGL  341 (388)
Q Consensus       303 ~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l  341 (388)
                      +|+.|++..|+..+....   .-...-...+|+|+.|+=
T Consensus        89 sLr~LWL~ENPCc~~ag~---nYR~~VLR~LPnLkKLDn  124 (388)
T KOG2123|consen   89 SLRTLWLDENPCCGEAGQ---NYRRKVLRVLPNLKKLDN  124 (388)
T ss_pred             hhhhHhhccCCcccccch---hHHHHHHHHcccchhccC
Confidence            999999988876543311   000001144577776643

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

Probab=95.49  E-value=0.00096  Score=65.50  Aligned_cols=110  Identities=19%  Similarity=0.131  Sum_probs=63.9

Q ss_pred             ccccccCCceEEEecccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccC
Q 040122          197 EPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLE  276 (388)
Q Consensus       197 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~  276 (388)
                      .++-++.++.|+++++--.-...+..+++|++|+|+. +.+..++.-..   ..| +|+.|.+.++..- . ..++.++.
T Consensus       182 SLqll~ale~LnLshNk~~~v~~Lr~l~~LkhLDlsy-N~L~~vp~l~~---~gc-~L~~L~lrnN~l~-t-L~gie~Lk  254 (1096)
T KOG1859|consen  182 SLQLLPALESLNLSHNKFTKVDNLRRLPKLKHLDLSY-NCLRHVPQLSM---VGC-KLQLLNLRNNALT-T-LRGIENLK  254 (1096)
T ss_pred             HHHHHHHhhhhccchhhhhhhHHHHhccccccccccc-chhccccccch---hhh-hheeeeecccHHH-h-hhhHHhhh
Confidence            4666777888888772222222566778888888875 34555543221   222 3777877776432 2 23566777


Q ss_pred             CCCEEeeccCcCcccccchhhhcCccccceeeEccccc
Q 040122          277 NLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKM  314 (388)
Q Consensus       277 ~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~  314 (388)
                      +|+-|++++. -+.+.........|..|..|++.+|+.
T Consensus       255 sL~~LDlsyN-ll~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  255 SLYGLDLSYN-LLSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             hhhccchhHh-hhhcchhhhHHHHHHHHHHHhhcCCcc
Confidence            7777777763 233322222234566777777777763

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.40  E-value=0.0017  Score=53.98  Aligned_cols=46  Identities=13%  Similarity=0.218  Sum_probs=25.5

Q ss_pred             ccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccch
Q 040122          272 SWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQ  317 (388)
Q Consensus       272 ~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~  317 (388)
                      +..++.++.|.+.+|..+.|.....+.+-.++|+.|+|++|+.+++
T Consensus       121 L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~  166 (221)
T KOG3864|consen  121 LRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITD  166 (221)
T ss_pred             HhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeech
Confidence            3445555566666666555554444444455666666666665543

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

Probab=95.38  E-value=0.0048  Score=59.12  Aligned_cols=59  Identities=17%  Similarity=0.092  Sum_probs=27.8

Q ss_pred             ccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEecc
Q 040122           46 KIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRN  113 (388)
Q Consensus        46 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~  113 (388)
                      +..+.+|+.|++.+.. +..+....    ..+++|++|+++++ .++.+.+   +..++.|+.|++++
T Consensus        91 l~~~~~l~~l~l~~n~-i~~i~~~l----~~~~~L~~L~ls~N-~I~~i~~---l~~l~~L~~L~l~~  149 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNK-IEKIENLL----SSLVNLQVLDLSFN-KITKLEG---LSTLTLLKELNLSG  149 (414)
T ss_pred             cccccceeeeeccccc-hhhcccch----hhhhcchheecccc-ccccccc---hhhccchhhheecc
Confidence            3445555555555433 33221111    34555555555555 4444333   34455555555555

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

Probab=95.38  E-value=0.0036  Score=59.94  Aligned_cols=86  Identities=17%  Similarity=0.188  Sum_probs=51.0

Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      ..+.+|..+++.++ .+..+...  +..+++|++|++++ +.++.+..+           ..++.|+.|+++++. +..+
T Consensus        92 ~~~~~l~~l~l~~n-~i~~i~~~--l~~~~~L~~L~ls~-N~I~~i~~l-----------~~l~~L~~L~l~~N~-i~~~  155 (414)
T KOG0531|consen   92 SKLKSLEALDLYDN-KIEKIENL--LSSLVNLQVLDLSF-NKITKLEGL-----------STLTLLKELNLSGNL-ISDI  155 (414)
T ss_pred             ccccceeeeecccc-chhhcccc--hhhhhcchheeccc-cccccccch-----------hhccchhhheeccCc-chhc
Confidence            34677777777776 45543331  46677888888887 345554332           345667777777653 3444


Q ss_pred             cCCCCccccCCCcceEeEecCCCcccc
Q 040122          155 CNFTGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                          .....+++|+.+++.++ .+..+
T Consensus       156 ----~~~~~l~~L~~l~l~~n-~i~~i  177 (414)
T KOG0531|consen  156 ----SGLESLKSLKLLDLSYN-RIVDI  177 (414)
T ss_pred             ----cCCccchhhhcccCCcc-hhhhh
Confidence                11334677777777775 34433

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.80  E-value=0.0014  Score=57.07  Aligned_cols=82  Identities=24%  Similarity=0.231  Sum_probs=43.1

Q ss_pred             CCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccc
Q 040122           49 FLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSA  128 (388)
Q Consensus        49 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~  128 (388)
                      +.+.+.|+..+|. +.++....     .++.|+.|.|+-| +++++-|   +..|++|++|++..| .+..+-.+.+   
T Consensus        18 l~~vkKLNcwg~~-L~DIsic~-----kMp~lEVLsLSvN-kIssL~p---l~rCtrLkElYLRkN-~I~sldEL~Y---   83 (388)
T KOG2123|consen   18 LENVKKLNCWGCG-LDDISICE-----KMPLLEVLSLSVN-KISSLAP---LQRCTRLKELYLRKN-CIESLDELEY---   83 (388)
T ss_pred             HHHhhhhcccCCC-ccHHHHHH-----hcccceeEEeecc-ccccchh---HHHHHHHHHHHHHhc-ccccHHHHHH---
Confidence            4455666666665 55443333     4666666666655 4554333   566666666666652 3333322222   


Q ss_pred             cccccCCcCccccEeecccCc
Q 040122          129 KEEHIGPLFPRLLSLKLIDLP  149 (388)
Q Consensus       129 ~~~~~~~~~~~L~~L~l~~~~  149 (388)
                           +..+++|+.|.|..++
T Consensus        84 -----LknlpsLr~LWL~ENP   99 (388)
T KOG2123|consen   84 -----LKNLPSLRTLWLDENP   99 (388)
T ss_pred             -----HhcCchhhhHhhccCC
Confidence                 2456666666665443

>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=94.70  E-value=0.024  Score=29.18  Aligned_cols=21  Identities=5%  Similarity=0.131  Sum_probs=16.2

Q ss_pred             CcceEEeccCCCcccccCCCCC
Q 040122          361 SLKQVVVRQCPKMKIFSQGLLD  382 (388)
Q Consensus       361 ~L~~L~l~~c~~l~~lp~~~~~  382 (388)
                      +|++|++++| +++.+|.++.+
T Consensus         1 ~L~~Ldls~n-~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSS-EESEEGTTTTT
T ss_pred             CccEEECCCC-cCEeCChhhcC
Confidence            5788888888 77788877654

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 ....

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

Probab=94.63  E-value=0.017  Score=50.11  Aligned_cols=110  Identities=17%  Similarity=0.198  Sum_probs=62.2

Q ss_pred             CCCcceEEecCccccceeccccccCccccCCccEEEecCC--CCCcccCChhhhhcCCCCcEEEeccccccceecccccc
Q 040122           49 FLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDS--TNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEEL  126 (388)
Q Consensus        49 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~--~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~  126 (388)
                      +..|+.|.+.++. ++..-  . +  -.+++|++|.++++  .-...+...  ..++|+|++|++++| .+..+..+.. 
T Consensus        42 ~~~le~ls~~n~g-ltt~~--~-~--P~Lp~LkkL~lsdn~~~~~~~l~vl--~e~~P~l~~l~ls~N-ki~~lstl~p-  111 (260)
T KOG2739|consen   42 FVELELLSVINVG-LTTLT--N-F--PKLPKLKKLELSDNYRRVSGGLEVL--AEKAPNLKVLNLSGN-KIKDLSTLRP-  111 (260)
T ss_pred             ccchhhhhhhccc-eeecc--c-C--CCcchhhhhcccCCcccccccceeh--hhhCCceeEEeecCC-ccccccccch-
Confidence            4556666655544 22111  1 1  24788889988877  333332332  566789999999885 3333322222 


Q ss_pred             cccccccCCcCccccEeecccCcccc--cccCCCCccccCCCcceEeEecCCC
Q 040122          127 SAKEEHIGPLFPRLLSLKLIDLPKLK--RFCNFTGNIIELPKLEYLIIENCPD  177 (388)
Q Consensus       127 ~~~~~~~~~~~~~L~~L~l~~~~~l~--~~~~~~~~~~~l~~L~~L~l~~c~~  177 (388)
                             ...+.+|..|++.+|+-..  ..  -......+|+|++|+-..+..
T Consensus       112 -------l~~l~nL~~Ldl~n~~~~~l~dy--re~vf~ll~~L~~LD~~dv~~  155 (260)
T KOG2739|consen  112 -------LKELENLKSLDLFNCSVTNLDDY--REKVFLLLPSLKYLDGCDVDG  155 (260)
T ss_pred             -------hhhhcchhhhhcccCCccccccH--HHHHHHHhhhhccccccccCC
Confidence                   2557778888888875322  21  112134578888887776644

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

Probab=94.60  E-value=0.0011  Score=65.01  Aligned_cols=90  Identities=17%  Similarity=0.152  Sum_probs=48.5

Q ss_pred             hhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccc
Q 040122           37 STIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDS  116 (388)
Q Consensus        37 ~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~  116 (388)
                      +.++.+-..+.-++.|+.|+++.+. +.... ..    ..+++|++|++++| .+..++... ...+. |..|.+.+| .
T Consensus       174 N~L~~mD~SLqll~ale~LnLshNk-~~~v~-~L----r~l~~LkhLDlsyN-~L~~vp~l~-~~gc~-L~~L~lrnN-~  243 (1096)
T KOG1859|consen  174 NRLVLMDESLQLLPALESLNLSHNK-FTKVD-NL----RRLPKLKHLDLSYN-CLRHVPQLS-MVGCK-LQLLNLRNN-A  243 (1096)
T ss_pred             hhHHhHHHHHHHHHHhhhhccchhh-hhhhH-HH----Hhcccccccccccc-hhccccccc-hhhhh-heeeeeccc-H
Confidence            3444455555566777777777654 33211 22    45777777777776 555544433 22233 666666663 3


Q ss_pred             cceecccccccccccccCCcCccccEeeccc
Q 040122          117 LEEVLHLEELSAKEEHIGPLFPRLLSLKLID  147 (388)
Q Consensus       117 l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~  147 (388)
                      ++.+-.+           ..+.+|+.|+++.
T Consensus       244 l~tL~gi-----------e~LksL~~LDlsy  263 (1096)
T KOG1859|consen  244 LTTLRGI-----------ENLKSLYGLDLSY  263 (1096)
T ss_pred             HHhhhhH-----------HhhhhhhccchhH
Confidence            3333222           3456666666653

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=94.44  E-value=0.26  Score=38.28  Aligned_cols=13  Identities=23%  Similarity=0.219  Sum_probs=4.2

Q ss_pred             hhcCCCCcEEEec
Q 040122          100 LRCLNNLEWLAVR  112 (388)
Q Consensus       100 ~~~l~~L~~L~l~  112 (388)
                      +.++.+|+.+.+.
T Consensus         8 F~~~~~l~~i~~~   20 (129)
T PF13306_consen    8 FYNCSNLESITFP   20 (129)
T ss_dssp             TTT-TT--EEEET
T ss_pred             HhCCCCCCEEEEC
Confidence            3344444444443

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.34  E-value=0.0044  Score=51.54  Aligned_cols=49  Identities=18%  Similarity=0.163  Sum_probs=36.7

Q ss_pred             CcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCC
Q 040122          135 PLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSN  184 (388)
Q Consensus       135 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~  184 (388)
                      ..++.++.|.+.+|..+.++..... -+..++|+.|++++|++++.....
T Consensus       122 ~~l~~i~~l~l~~ck~~dD~~L~~l-~~~~~~L~~L~lsgC~rIT~~GL~  170 (221)
T KOG3864|consen  122 RDLRSIKSLSLANCKYFDDWCLERL-GGLAPSLQDLDLSGCPRITDGGLA  170 (221)
T ss_pred             hccchhhhheeccccchhhHHHHHh-cccccchheeeccCCCeechhHHH
Confidence            5678888888888888877743322 235789999999999999877654

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=93.73  E-value=0.047  Score=26.10  Aligned_cols=17  Identities=12%  Similarity=0.339  Sum_probs=8.8

Q ss_pred             CCcceEEeccCCCccccc
Q 040122          360 PSLKQVVVRQCPKMKIFS  377 (388)
Q Consensus       360 ~~L~~L~l~~c~~l~~lp  377 (388)
                      ++|++|++++|. ++.+|
T Consensus         1 ~~L~~L~l~~n~-L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNR-LTSLP   17 (17)
T ss_dssp             TT-SEEEETSS---SSE-
T ss_pred             CccCEEECCCCC-CCCCc
Confidence            466777777776 66655

...

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

Probab=93.64  E-value=0.029  Score=49.01  Aligned_cols=203  Identities=13%  Similarity=0.033  Sum_probs=98.7

Q ss_pred             ccCcceeeecCCCCc-hhHHHHhhhccCCCCcceEEecCccc--cce-eccccc---cCccccCCccEEEecCCCCCccc
Q 040122           22 KEEGELHHWEGNNLN-STIQKCYDEKIGFLDINRLQLSHFPR--LQE-IWHGQA---LPVRFFNNLAELVVDDSTNMSSA   94 (388)
Q Consensus        22 ~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~L~~L~l~~~~~--l~~-~~~~~~---~~~~~~~~L~~L~l~~~~~l~~~   94 (388)
                      |....+.+.+|+... ...+.+...+.+-.+|+..++++...  ..+ ++....   ..--.||+|+.+++++|-....+
T Consensus        29 ~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~~  108 (388)
T COG5238          29 MDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEF  108 (388)
T ss_pred             hcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCccc
Confidence            566777888885332 33456667777777888888775321  110 000000   00145899999999988544443


Q ss_pred             CChh--hhhcCCCCcEEEeccccccceecccccc-cc---cccccCCcCccccEeecccCcccccccC--CCCccccCCC
Q 040122           95 IPAN--LLRCLNNLEWLAVRNCDSLEEVLHLEEL-SA---KEEHIGPLFPRLLSLKLIDLPKLKRFCN--FTGNIIELPK  166 (388)
Q Consensus        95 ~~~~--~~~~l~~L~~L~l~~~~~l~~i~~~~~~-~~---~~~~~~~~~~~L~~L~l~~~~~l~~~~~--~~~~~~~l~~  166 (388)
                      ++.-  ++++-..|.||.+++| +++.+....-. ..   ....-...-|.|+......+. +.....  ....+..-.+
T Consensus       109 ~e~L~d~is~~t~l~HL~l~Nn-GlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNR-lengs~~~~a~~l~sh~~  186 (388)
T COG5238         109 PEELGDLISSSTDLVHLKLNNN-GLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNR-LENGSKELSAALLESHEN  186 (388)
T ss_pred             chHHHHHHhcCCCceeEEeecC-CCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccch-hccCcHHHHHHHHHhhcC
Confidence            3321  4677788999999886 23222110000 00   000001234556655554332 222100  0000112247


Q ss_pred             cceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEeccc------ccccccccCCCCcceEEecCC
Q 040122          167 LEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQI------QHLFDEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       167 L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~------~~~~~~~~~~~~L~~L~l~~~  234 (388)
                      |+++.+... .+..-+....  ..     -++..+.+|+.|++.++.      ..+...+..++.|+.|.+.+|
T Consensus       187 lk~vki~qN-gIrpegv~~L--~~-----~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDC  252 (388)
T COG5238         187 LKEVKIQQN-GIRPEGVTML--AF-----LGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDC  252 (388)
T ss_pred             ceeEEeeec-CcCcchhHHH--HH-----HHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccch
Confidence            777777764 3332211110  00     025567778888877611      122223334555666666665

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=92.22  E-value=1.4  Score=34.15  Aligned_cols=11  Identities=9%  Similarity=0.105  Sum_probs=3.8

Q ss_pred             cCCCcceEeEe
Q 040122          163 ELPKLEYLIIE  173 (388)
Q Consensus       163 ~l~~L~~L~l~  173 (388)
                      .+++|+.+.+.
T Consensus        33 ~~~~l~~i~~~   43 (129)
T PF13306_consen   33 NCTSLKSINFP   43 (129)
T ss_dssp             T-TT-SEEEES
T ss_pred             ccccccccccc
Confidence            34444444443

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=91.20  E-value=0.015  Score=45.47  Aligned_cols=107  Identities=21%  Similarity=0.152  Sum_probs=67.4

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      ..+..++++.|+ +.++.... .....-.+|..+++++| .++. .|..+..+++.++.|++.+ +.+..+|..      
T Consensus        27 kE~h~ldLssc~-lm~i~dav-y~l~~~~el~~i~ls~N-~fk~-fp~kft~kf~t~t~lNl~~-neisdvPeE------   95 (177)
T KOG4579|consen   27 KELHFLDLSSCQ-LMYIADAV-YMLSKGYELTKISLSDN-GFKK-FPKKFTIKFPTATTLNLAN-NEISDVPEE------   95 (177)
T ss_pred             HHhhhcccccch-hhHHHHHH-HHHhCCceEEEEecccc-hhhh-CCHHHhhccchhhhhhcch-hhhhhchHH------
Confidence            345667777776 44333333 12234567778889888 6676 4555567778899999988 566666654      


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecC
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c  175 (388)
                          +..++.|+.|++..++.....   .. +..+.++-.|+..+.
T Consensus        96 ----~Aam~aLr~lNl~~N~l~~~p---~v-i~~L~~l~~Lds~~n  133 (177)
T KOG4579|consen   96 ----LAAMPALRSLNLRFNPLNAEP---RV-IAPLIKLDMLDSPEN  133 (177)
T ss_pred             ----HhhhHHhhhcccccCccccch---HH-HHHHHhHHHhcCCCC
Confidence                356889999999876543222   12 445666666666553

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

Probab=89.96  E-value=0.18  Score=27.10  Aligned_cols=17  Identities=18%  Similarity=0.526  Sum_probs=13.6

Q ss_pred             CCCcceEEeccCCCccc
Q 040122          359 FPSLKQVVVRQCPKMKI  375 (388)
Q Consensus       359 ~~~L~~L~l~~c~~l~~  375 (388)
                      +|+|++|++++|+++++
T Consensus         1 c~~L~~L~l~~C~~itD   17 (26)
T smart00367        1 CPNLRELDLSGCTNITD   17 (26)
T ss_pred             CCCCCEeCCCCCCCcCH
Confidence            47888888888888775

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

Probab=80.65  E-value=0.44  Score=41.93  Aligned_cols=114  Identities=11%  Similarity=-0.066  Sum_probs=54.0

Q ss_pred             cccccCCceEEEec--ccccc----cccccCCCCcceEEecCCCCcceecccCch-----h-----HhhhccccEEEEec
Q 040122          198 PQKLKSEENLLVAN--QIQHL----FDEKVAFPQLGNLRLSGLHKVQHLWKENDE-----S-----NKAFANLERLEISE  261 (388)
Q Consensus       198 l~~l~~L~~L~l~~--~~~~~----~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~-----~-----~~~~~~L~~L~i~~  261 (388)
                      +-.||.|+.+++++  .....    ...+++-+.|.+|.+.+| ++..+..+...     .     ...-|.|+++....
T Consensus        88 Llkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~Nn-GlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgr  166 (388)
T COG5238          88 LLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNN-GLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGR  166 (388)
T ss_pred             HhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecC-CCCccchhHHHHHHHHHHHHhhhccCCCceEEEecc
Confidence            55678888888887  11222    223345567888888775 44443322211     0     02234566655554


Q ss_pred             CCCccc----ccCCccccCCCCEEeeccCcCcccccch----hhhcCccccceeeEcccc
Q 040122          262 CSKLQK----LVPPSWHLENLEALKVSKCHELINVLTL----SASKNLVNLGRMMIADCK  313 (388)
Q Consensus       262 ~~~~~~----~~~~~~~~~~L~~L~l~~c~~l~~~~~~----~~~~~l~~L~~L~l~~~~  313 (388)
                      ++...-    ....+.+-.+|+.+.+... .++--...    -....+++|+.|++.++.
T Consensus       167 NRlengs~~~~a~~l~sh~~lk~vki~qN-gIrpegv~~L~~~gl~y~~~LevLDlqDNt  225 (388)
T COG5238         167 NRLENGSKELSAALLESHENLKEVKIQQN-GIRPEGVTMLAFLGLFYSHSLEVLDLQDNT  225 (388)
T ss_pred             chhccCcHHHHHHHHHhhcCceeEEeeec-CcCcchhHHHHHHHHHHhCcceeeeccccc
Confidence            432110    0111222346666666543 22211000    112455677777776654

---

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	388
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-04

>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 = 55.2 bits (132), Expect = 2e-08
 Identities = 60/383 (15%), Positives = 116/383 (30%), Gaps = 88/383 (22%)

Query: 33  NNLNSTIQKCYDEKIGFLDINRLQLSHF-PRLQEIWHGQALPVRFFNNLAELVVDDSTNM 91
             L   I   +  +       +L++      L+ +   +       N L  LV+ +  N 
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE----NCL--LVLLNVQN- 255

Query: 92  SSAIPANLLRC--------LNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSL 143
           + A  A  L C            ++L+      +    H   L+  +E    L  + L  
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT-PDEVKS-LLLKYLDC 313

Query: 144 KLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKS 203
           +  DLP+     N        P+   +I E+  D     +      H+  D      ++S
Sbjct: 314 RPQDLPREVLTTN--------PRRLSIIAESIRDG---LATWDNWKHVNCDKLT-TIIES 361

Query: 204 EENLLVANQIQHLFDEKVAFP---------------------------QLGNLRL----- 231
             N+L   + + +FD    FP                           +L    L     
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421

Query: 232 ----SGLHKVQHLWKENDESNKAFAN--LERLEISECSKLQKLVPPSW----------HL 275
                 +  +    K   E+  A     ++   I +      L+PP            HL
Sbjct: 422 KESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHL 481

Query: 276 ENLEALKVSKCHELINVLTLS----ASKNLVNLGRMMIADCKMIEQIIQLQVGEE--AKD 329
           +N+E     +   L  ++ L       K + +      A   ++  + QL+  +     +
Sbjct: 482 KNIEH---PERMTLFRMVFLDFRFLEQK-IRHDSTAWNASGSILNTLQQLKFYKPYICDN 537

Query: 330 CNVFKELEYLGLDCLPSLTSFCL 352
              ++ L    LD LP +    +
Sbjct: 538 DPKYERLVNAILDFLPKIEENLI 560

>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 = 47.9 bits (113), Expect = 4e-06
 Identities = 43/253 (16%), Positives = 85/253 (33%), Gaps = 67/253 (26%)

Query: 26  ELHHWEG------NNLNSTIQKCYDEKIGFLDINRLQ-----LSHFP--------RLQEI 66
            L  W+       + L + I+   +     L+    +     LS FP         L  I
Sbjct: 340 GLATWDNWKHVNCDKLTTIIESSLNV----LEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395

Query: 67  WHG--QALPVRFFNNLAE--LVVDDSTNMSSAIPANLLRCLNNLEWLA-----VRNCDSL 117
           W    ++  +   N L +  LV       + +IP+  L     LE        + +  ++
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455

Query: 118 EEVLHLEELSAKEE------HIG------------PLFPRL-LSLKLIDLPKLKRF---C 155
            +    ++L           HIG             LF  + L  + ++  K++      
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE-QKIRHDSTAW 514

Query: 156 NFTGNI----IELPKLEYLIIENCPDMETFTSN-STFVLHMTADNKEPQKLKSEENLLVA 210
           N +G+I     +L   +  I +N P  E   +    F+        E   + S+   L+ 
Sbjct: 515 NASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLP-----KIEENLICSKYTDLL- 568

Query: 211 NQIQHLFDEKVAF 223
            +I  + +++  F
Sbjct: 569 -RIALMAEDEAIF 580

>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 = 45.6 bits (107), Expect = 2e-05
 Identities = 61/339 (17%), Positives = 107/339 (31%), Gaps = 101/339 (29%)

Query: 37  STIQKCYDEKIGFL--DINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTN---- 90
           S + + Y E+   L  D       +  RLQ         +R    L EL    + N    
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK-----LR--QALLEL--RPAKNVLID 156

Query: 91  -MS----SAIPANLLR-----CLNNLE--WLAVRNCDSLEEVL-HLEEL--------SAK 129
            +     + +  ++       C  + +  WL ++NC+S E VL  L++L        +++
Sbjct: 157 GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSR 216

Query: 130 EEHIGPLFPRLLSLK--LIDLPKLKRFCNFTGNIIELPKLEYLIIENCPD---METFTSN 184
            +H   +  R+ S++  L  L K K + N             L++ N  +      F  +
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYEN-----------CLLVLLNVQNAKAWNAFNLS 265

Query: 185 STFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKEN 244
              +L  T         K   + L A    H+  +              L          
Sbjct: 266 CK-ILLTTRF-------KQVTDFLSAATTTHISLDH---------HSMTLTP-------- 300

Query: 245 DESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNL 304
           DE          L+     + Q L P        E L  +     ++++  S    L   
Sbjct: 301 DEVKSLLLKY--LDC----RPQDL-PR-------EVLTTNPRR--LSIIAESIRDGLATW 344

Query: 305 GRMMIADCKMIEQIIQ--LQVGEEA------KDCNVFKE 335
                 +C  +  II+  L V E A         +VF  
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383

>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 = 44.9 bits (106), Expect = 3e-05
 Identities = 32/219 (14%), Positives = 73/219 (33%), Gaps = 25/219 (11%)

Query: 90  NMSSAIPANLLRCLNNLEWLAVRNCDSLE--EVLHLEELSAKEEHIGPLFPRLLSLKLID 147
           N  +  PA ++R    +  + ++         ++           I  +      L+ I 
Sbjct: 52  NCYAVSPATVIRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIR 111

Query: 148 LPKLKRFCNFTGNIIEL-----PKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLK 202
           L    +    T + +EL        + L++ +C     F+++   +  + A  +  ++L 
Sbjct: 112 L----KRMVVTDDCLELIAKSFKNFKVLVLSSCEG---FSTDG--LAAIAATCRNLKELD 162

Query: 203 SEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFA----NLERLE 258
             E+ +       L      +  L +L +S L       + +  + +       NL+ L+
Sbjct: 163 LRESDVDDVSGHWLSHFPDTYTSLVSLNISCLA-----SEVSFSALERLVTRCPNLKSLK 217

Query: 259 ISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSA 297
           ++    L+KL         LE L        +     S 
Sbjct: 218 LNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSG 256

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 42.5 bits (100), Expect = 1e-04
 Identities = 54/255 (21%), Positives = 81/255 (31%), Gaps = 45/255 (17%)

Query: 70  QALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK 129
             +P     N  EL           I         +LE + +   D LE +    E    
Sbjct: 22  TEIPSDLPRNAIELRFVL--TKLRVIQKGAFSGFGDLEKIEISQNDVLEVI----EADV- 74

Query: 130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIE-LPKLEYLIIENC-----PDMETFTS 183
                  F  L  L  I + K            + LP L+YL+I N      PD+    S
Sbjct: 75  -------FSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHS 127

Query: 184 NSTFVLHMTADNKEPQKL----------KSEENLLVANQIQHLFDEKVAFPQLGNLRLSG 233
               +L +  DN     +          +S    L  N IQ +     AF       L+ 
Sbjct: 128 LQKVLLDI-QDNINIHTIERNSFVGLSFESVILWLNKNGIQEI--HNSAFNGTQLDELNL 184

Query: 234 LH--KVQHLWKENDESNKAFANLERLEISECS--KLQKLVPPSWHLENLEALKVSKCHEL 289
                ++ L       N  F       I + S  ++  L  PS+ LENL+ L+    + L
Sbjct: 185 SDNNNLEEL------PNDVFHGASGPVILDISRTRIHSL--PSYGLENLKKLRARSTYNL 236

Query: 290 INVLTLSASKNLVNL 304
             + TL     L+  
Sbjct: 237 KKLPTLEKLVALMEA 251

>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* Length = 606

 Score = 40.4 bits (95), Expect = 7e-04
 Identities = 42/282 (14%), Positives = 85/282 (30%), Gaps = 28/282 (9%)

Query: 32  GNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNM 91
           GN  +S I K   + +  L ++RL L  F   + +   +   +    ++       +   
Sbjct: 213 GNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTN 272

Query: 92  SSAIPANLLRCLNNLEWLAVRNC-----DSLEEVLHLEELSAKEEHIGPL-FPRLLSLKL 145
             +       CL N+  +++        + + +    + LS     +       L  LK 
Sbjct: 273 DFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKS 332

Query: 146 IDLP--KLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKS 203
           + L   K             LP L YL +     +      S   L              
Sbjct: 333 LTLTMNKGSISFKKVA----LPSLSYLDLSRNA-LSFSGCCSYSDLGTN---------SL 378

Query: 204 EENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECS 263
               L  N    +    +   +L +L       ++ + + +   +     L  L+IS   
Sbjct: 379 RHLDLSFNGAIIMSANFMGLEELQHLDFQHS-TLKRVTEFSAFLS--LEKLLYLDISYT- 434

Query: 264 KLQKLVPPSW-HLENLEALKVSKCHELINVLTLSASKNLVNL 304
             +      +  L +L  LK++      +    +   N  NL
Sbjct: 435 NTKIDFDGIFLGLTSLNTLKMAGNS-FKDNTLSNVFANTTNL 475

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	388
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.89
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.89
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.88
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.87
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.87
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.87
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.86
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.86
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.86
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.86
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.86
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.86
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.85
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.85
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.85
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.85
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.84
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.84
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.84
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.84
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.84
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.83
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.83
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.83
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.83
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.83
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.83
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.82
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.82
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.81
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.81
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.81
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.81
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.81
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.81
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.81
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.8
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.8
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.8
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.8
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.8
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.79
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.78
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.77
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.77
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.77
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.76
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.73
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.73
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.72
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.72
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.72
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.72
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.72
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.72
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.72
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.72
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.71
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.71
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.7
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.7
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.69
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.69
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.68
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.67
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.66
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.65
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.64
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.63
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.63
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.63
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.63
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.6
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.6
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.59
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.59
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.58
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.58
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.57
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.56
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.56
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.56
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.55
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.54
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.54
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.54
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.5
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.49
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.45
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.45
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.45
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.4
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.37
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.34
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.34
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.33
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.31
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.3
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.3
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.29
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.29
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.25
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.14
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.14
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.14
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.13
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.1
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.09
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.09
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.06
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.05
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.04
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.03
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.02
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.01
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.99
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.97
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.95
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.93
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.92
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.9
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.87
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.82
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.81
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.78
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.77
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.72
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.72
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.69
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.64
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.64
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.62
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.6
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.59
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.58
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.48
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.46
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.44
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.42
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.41
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.39
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.32
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.3
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.13
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.1
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.05
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.03
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.98
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.89
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.84
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.81
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.8
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.67
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.65
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.89
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	96.31
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.24
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.97
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	95.82
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	95.45
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	88.08

>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=99.89  E-value=8.5e-23  Score=208.71  Aligned_cols=169  Identities=12%  Similarity=0.023  Sum_probs=96.1

Q ss_pred             ccCCceEEEec--ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCC
Q 040122          201 LKSEENLLVAN--QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENL  278 (388)
Q Consensus       201 l~~L~~L~l~~--~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L  278 (388)
                      +++|+.|++++  ..+.++..++.+++|+.|+++++. +....+..   ...+++|++|++++|.....+|..+..+++|
T Consensus       393 ~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~~~p~~---l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L  468 (768)
T 3rgz_A          393 KNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNY-LSGTIPSS---LGSLSKLRDLKLWLNMLEGEIPQELMYVKTL  468 (768)
T ss_dssp             TCCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSE-EESCCCGG---GGGCTTCCEEECCSSCCCSCCCGGGGGCTTC
T ss_pred             cCCccEEECCCCccccccCHHHhcCCCCCEEECcCCc-ccCcccHH---HhcCCCCCEEECCCCcccCcCCHHHcCCCCc
Confidence            45566666555  222444555566666666666642 33221111   1556666777776666555666666666777


Q ss_pred             CEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCcccc
Q 040122          279 EALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALE  358 (388)
Q Consensus       279 ~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  358 (388)
                      ++|+++++. +...... ...++++|++|++++|.....++.        ....+++|++|+++++.....++.....  
T Consensus       469 ~~L~L~~N~-l~~~~p~-~l~~l~~L~~L~L~~N~l~~~~p~--------~~~~l~~L~~L~L~~N~l~~~~p~~l~~--  536 (768)
T 3rgz_A          469 ETLILDFND-LTGEIPS-GLSNCTNLNWISLSNNRLTGEIPK--------WIGRLENLAILKLSNNSFSGNIPAELGD--  536 (768)
T ss_dssp             CEEECCSSC-CCSCCCG-GGGGCTTCCEEECCSSCCCSCCCG--------GGGGCTTCCEEECCSSCCEEECCGGGGG--
T ss_pred             eEEEecCCc-ccCcCCH-HHhcCCCCCEEEccCCccCCcCCh--------HHhcCCCCCEEECCCCcccCcCCHHHcC--
Confidence            777776653 3322121 235667777777776654433333        2244567777777776544455554433  


Q ss_pred             CCCcceEEeccCCCcccccCCCCCCCC
Q 040122          359 FPSLKQVVVRQCPKMKIFSQGLLDTPM  385 (388)
Q Consensus       359 ~~~L~~L~l~~c~~l~~lp~~~~~~~~  385 (388)
                      +++|++|++.+|+-...+|..+.....
T Consensus       537 l~~L~~L~Ls~N~l~g~ip~~~~~~~~  563 (768)
T 3rgz_A          537 CRSLIWLDLNTNLFNGTIPAAMFKQSG  563 (768)
T ss_dssp             CTTCCEEECCSSEEESBCCGGGGTTTT
T ss_pred             CCCCCEEECCCCccCCcCChHHhcccc
Confidence            677777777777766677766655443

>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=99.89  E-value=2.2e-22  Score=205.70  Aligned_cols=252  Identities=15%  Similarity=0.018  Sum_probs=120.7

Q ss_pred             CCCCccceeeec--------------ccCcceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccc-eeccccccCc
Q 040122           10 SIPKPCKVQVTE--------------KEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQ-EIWHGQALPV   74 (388)
Q Consensus        10 ~~~~l~~l~~~~--------------~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~-~~~~~~~~~~   74 (388)
                      .+++|+++.+..              ..+++.++..++....   .+|..+..+++|++|+++++. +. .++...   .
T Consensus       267 ~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~---~~p~~~~~l~~L~~L~L~~n~-l~~~ip~~~---l  339 (768)
T 3rgz_A          267 PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYG---AVPPFFGSCSLLESLALSSNN-FSGELPMDT---L  339 (768)
T ss_dssp             CCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEE---CCCGGGGGCTTCCEEECCSSE-EEEECCHHH---H
T ss_pred             ccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCC---ccchHHhcCCCccEEECCCCc-ccCcCCHHH---H
Confidence            467777777554              1445566666521111   345567778889999988876 43 333221   1


Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCC-CCcEEEeccccccceecccccccccccccCCcCccccEeecccCccccc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLN-NLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKR  153 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~-~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~  153 (388)
                      ..+++|++|++++| .+....|.. +.+++ +|++|++++|.....++.....        ..+++|+.|+++++.....
T Consensus       340 ~~l~~L~~L~Ls~n-~l~~~~p~~-l~~l~~~L~~L~Ls~N~l~~~~~~~~~~--------~~~~~L~~L~L~~n~l~~~  409 (768)
T 3rgz_A          340 LKMRGLKVLDLSFN-EFSGELPES-LTNLSASLLTLDLSSNNFSGPILPNLCQ--------NPKNTLQELYLQNNGFTGK  409 (768)
T ss_dssp             TTCTTCCEEECCSS-EEEECCCTT-HHHHTTTCSEEECCSSEEEEECCTTTTC--------STTCCCCEEECCSSEEEEE
T ss_pred             hcCCCCCEEeCcCC-ccCccccHH-HHhhhcCCcEEEccCCCcCCCcChhhhh--------cccCCccEEECCCCccccc
Confidence            45788888888887 444334444 55665 7888888876543333332110        1144455555554432212


Q ss_pred             ccCCCCccccCCCcceEeEecCCCcccccCCcc-eeeeccc-----------CCCccccccCCceEEEec--cccccccc
Q 040122          154 FCNFTGNIIELPKLEYLIIENCPDMETFTSNST-FVLHMTA-----------DNKEPQKLKSEENLLVAN--QIQHLFDE  219 (388)
Q Consensus       154 ~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~-~~~~l~~-----------~~~~l~~l~~L~~L~l~~--~~~~~~~~  219 (388)
                      +  + ..+..+++|++|++++| .++...+... ...+|+.           ....+..+++|+.|++++  ..+..+..
T Consensus       410 ~--p-~~l~~l~~L~~L~Ls~N-~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~  485 (768)
T 3rgz_A          410 I--P-PTLSNCSELVSLHLSFN-YLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSG  485 (768)
T ss_dssp             C--C-GGGGGCTTCCEEECCSS-EEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGG
T ss_pred             c--C-HHHhcCCCCCEEECcCC-cccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHH
Confidence            1  1 11344455555555544 2221111110 0000000           000144455555555554  12233444


Q ss_pred             ccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          220 KVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       220 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                      ++.+++|+.|+++++.-...++..    ...+++|++|++++|...+.+|..+..+++|++|+++++
T Consensus       486 l~~l~~L~~L~L~~N~l~~~~p~~----~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N  548 (768)
T 3rgz_A          486 LSNCTNLNWISLSNNRLTGEIPKW----IGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTN  548 (768)
T ss_dssp             GGGCTTCCEEECCSSCCCSCCCGG----GGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSS
T ss_pred             HhcCCCCCEEEccCCccCCcCChH----HhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCC
Confidence            445555555555554321122211    144455555555555544455555555555555555543

>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=99.88  E-value=1.5e-21  Score=181.04  Aligned_cols=274  Identities=16%  Similarity=0.176  Sum_probs=174.9

Q ss_pred             ccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccc
Q 040122           46 KIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEE  125 (388)
Q Consensus        46 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~  125 (388)
                      +..+++|++|+++++. +...+. .    ..+++|++|++++| .++.. +.  +.++++|++|++++|. +..++.   
T Consensus        62 ~~~~~~L~~L~l~~n~-i~~~~~-~----~~l~~L~~L~L~~n-~i~~~-~~--~~~l~~L~~L~l~~n~-i~~~~~---  127 (347)
T 4fmz_A           62 IEYLTNLEYLNLNGNQ-ITDISP-L----SNLVKLTNLYIGTN-KITDI-SA--LQNLTNLRELYLNEDN-ISDISP---  127 (347)
T ss_dssp             GGGCTTCCEEECCSSC-CCCCGG-G----TTCTTCCEEECCSS-CCCCC-GG--GTTCTTCSEEECTTSC-CCCCGG---
T ss_pred             hhhcCCccEEEccCCc-cccchh-h----hcCCcCCEEEccCC-cccCc-hH--HcCCCcCCEEECcCCc-ccCchh---
Confidence            5567888888888775 554433 2    46788888888887 56653 32  7888888888888853 444433   


Q ss_pred             ccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCc
Q 040122          126 LSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEE  205 (388)
Q Consensus       126 ~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~  205 (388)
                              ...+++|+.|+++++.....+    ..+..+++|++|++.+|. +...+.              +..+++|+
T Consensus       128 --------~~~l~~L~~L~l~~n~~~~~~----~~~~~l~~L~~L~l~~~~-~~~~~~--------------~~~l~~L~  180 (347)
T 4fmz_A          128 --------LANLTKMYSLNLGANHNLSDL----SPLSNMTGLNYLTVTESK-VKDVTP--------------IANLTDLY  180 (347)
T ss_dssp             --------GTTCTTCCEEECTTCTTCCCC----GGGTTCTTCCEEECCSSC-CCCCGG--------------GGGCTTCS
T ss_pred             --------hccCCceeEEECCCCCCcccc----cchhhCCCCcEEEecCCC-cCCchh--------------hccCCCCC
Confidence                    256788888888887665554    225678888888888873 443332              56677888


Q ss_pred             eEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeec
Q 040122          206 NLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVS  284 (388)
Q Consensus       206 ~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~  284 (388)
                      .|++++ ....++. +..+++|+.++++++ .+..+..     ...+++|++|++++|.. ..++. +..+++|++|+++
T Consensus       181 ~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n-~l~~~~~-----~~~~~~L~~L~l~~n~l-~~~~~-~~~l~~L~~L~l~  251 (347)
T 4fmz_A          181 SLSLNYNQIEDISP-LASLTSLHYFTAYVN-QITDITP-----VANMTRLNSLKIGNNKI-TDLSP-LANLSQLTWLEIG  251 (347)
T ss_dssp             EEECTTSCCCCCGG-GGGCTTCCEEECCSS-CCCCCGG-----GGGCTTCCEEECCSSCC-CCCGG-GTTCTTCCEEECC
T ss_pred             EEEccCCccccccc-ccCCCccceeecccC-CCCCCch-----hhcCCcCCEEEccCCcc-CCCcc-hhcCCCCCEEECC
Confidence            888877 2233322 566778888888774 3444432     16677888888887743 33333 6677788888888


Q ss_pred             cCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcce
Q 040122          285 KCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQ  364 (388)
Q Consensus       285 ~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~  364 (388)
                      ++ .+..++   ....+++|++|++++|. +..++.         ...+++|++|++++|..-...+....  .+++|++
T Consensus       252 ~n-~l~~~~---~~~~l~~L~~L~l~~n~-l~~~~~---------~~~l~~L~~L~L~~n~l~~~~~~~l~--~l~~L~~  315 (347)
T 4fmz_A          252 TN-QISDIN---AVKDLTKLKMLNVGSNQ-ISDISV---------LNNLSQLNSLFLNNNQLGNEDMEVIG--GLTNLTT  315 (347)
T ss_dssp             SS-CCCCCG---GGTTCTTCCEEECCSSC-CCCCGG---------GGGCTTCSEEECCSSCCCGGGHHHHH--TCTTCSE
T ss_pred             CC-ccCCCh---hHhcCCCcCEEEccCCc-cCCChh---------hcCCCCCCEEECcCCcCCCcChhHhh--ccccCCE
Confidence            76 455442   23567788888887774 333311         24467788888887743222222121  2678888


Q ss_pred             EEeccCCCcccccCCCCCCCCCC
Q 040122          365 VVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       365 L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                      |++++|+ ++.++. +..+++|+
T Consensus       316 L~L~~n~-l~~~~~-~~~l~~L~  336 (347)
T 4fmz_A          316 LFLSQNH-ITDIRP-LASLSKMD  336 (347)
T ss_dssp             EECCSSS-CCCCGG-GGGCTTCS
T ss_pred             EEccCCc-cccccC-hhhhhccc
Confidence            8888876 444443 55566654

>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=99.87  E-value=4.9e-21  Score=190.78  Aligned_cols=97  Identities=16%  Similarity=0.121  Sum_probs=58.5

Q ss_pred             ccCCCCccceeeec-------------ccCcceeeecCCCCchhHHHH-hhhccCCCCcceEEecCccccceeccccccC
Q 040122            8 ILSIPKPCKVQVTE-------------KEEGELHHWEGNNLNSTIQKC-YDEKIGFLDINRLQLSHFPRLQEIWHGQALP   73 (388)
Q Consensus         8 ~~~~~~l~~l~~~~-------------~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~   73 (388)
                      +..+++|+++.++.             .++++.++..++    .+..+ |..+..+++|++|+++++. +...+...   
T Consensus        52 ~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n----~l~~~~p~~~~~l~~L~~L~L~~n~-l~~~~~~~---  123 (606)
T 3vq2_A           52 FSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGN----PIQSFSPGSFSGLTSLENLVAVETK-LASLESFP---  123 (606)
T ss_dssp             TTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC----CCCCCCTTSSTTCTTCCEEECTTSC-CCCSSSSC---
T ss_pred             ccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCC----cccccChhhcCCcccCCEEEccCCc-cccccccc---
Confidence            34556666666543             334455555552    22223 4566677778888887765 44332111   


Q ss_pred             ccccCCccEEEecCCCCCcc-cCChhhhhcCCCCcEEEeccc
Q 040122           74 VRFFNNLAELVVDDSTNMSS-AIPANLLRCLNNLEWLAVRNC  114 (388)
Q Consensus        74 ~~~~~~L~~L~l~~~~~l~~-~~~~~~~~~l~~L~~L~l~~~  114 (388)
                      .+.+++|++|++++| .+.. ..|.. ++++++|++|++++|
T Consensus       124 ~~~l~~L~~L~L~~n-~l~~~~lp~~-~~~l~~L~~L~Ls~n  163 (606)
T 3vq2_A          124 IGQLITLKKLNVAHN-FIHSCKLPAY-FSNLTNLVHVDLSYN  163 (606)
T ss_dssp             CTTCTTCCEEECCSS-CCCCCCCCGG-GGTCTTCCEEECCSS
T ss_pred             cCCCCCCCEEeCCCC-cccceechHh-HhhcCCCCEEEccCC
Confidence            256788888888887 4443 22333 788888888888886

>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=99.87  E-value=5.2e-21  Score=177.32  Aligned_cols=279  Identities=17%  Similarity=0.197  Sum_probs=205.2

Q ss_pred             ccCcceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhh
Q 040122           22 KEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLR  101 (388)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~  101 (388)
                      .++++.++..++    .+..++. +..+++|++|+++++. +...+ ..    ..+++|++|++++| .+...++   +.
T Consensus        65 ~~~L~~L~l~~n----~i~~~~~-~~~l~~L~~L~L~~n~-i~~~~-~~----~~l~~L~~L~l~~n-~i~~~~~---~~  129 (347)
T 4fmz_A           65 LTNLEYLNLNGN----QITDISP-LSNLVKLTNLYIGTNK-ITDIS-AL----QNLTNLRELYLNED-NISDISP---LA  129 (347)
T ss_dssp             CTTCCEEECCSS----CCCCCGG-GTTCTTCCEEECCSSC-CCCCG-GG----TTCTTCSEEECTTS-CCCCCGG---GT
T ss_pred             cCCccEEEccCC----ccccchh-hhcCCcCCEEEccCCc-ccCch-HH----cCCCcCCEEECcCC-cccCchh---hc
Confidence            445666666663    2222333 6788999999999885 66443 22    57999999999998 5666444   78


Q ss_pred             cCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccc
Q 040122          102 CLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       102 ~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                      ++++|++|++++|.....++.           ...+++|++|+++++. +..+.   . +..+++|++|++++| .+..+
T Consensus       130 ~l~~L~~L~l~~n~~~~~~~~-----------~~~l~~L~~L~l~~~~-~~~~~---~-~~~l~~L~~L~l~~n-~l~~~  192 (347)
T 4fmz_A          130 NLTKMYSLNLGANHNLSDLSP-----------LSNMTGLNYLTVTESK-VKDVT---P-IANLTDLYSLSLNYN-QIEDI  192 (347)
T ss_dssp             TCTTCCEEECTTCTTCCCCGG-----------GTTCTTCCEEECCSSC-CCCCG---G-GGGCTTCSEEECTTS-CCCCC
T ss_pred             cCCceeEEECCCCCCcccccc-----------hhhCCCCcEEEecCCC-cCCch---h-hccCCCCCEEEccCC-ccccc
Confidence            999999999999877766544           3678999999999874 44441   1 668999999999998 45554


Q ss_pred             cCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEe
Q 040122          182 TSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEIS  260 (388)
Q Consensus       182 ~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~  260 (388)
                      +.              +..+++|+.+++++ ....... +..+++|++|+++++ .++.++.     ...+++|++|+++
T Consensus       193 ~~--------------~~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~~L~l~~n-~l~~~~~-----~~~l~~L~~L~l~  251 (347)
T 4fmz_A          193 SP--------------LASLTSLHYFTAYVNQITDITP-VANMTRLNSLKIGNN-KITDLSP-----LANLSQLTWLEIG  251 (347)
T ss_dssp             GG--------------GGGCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSS-CCCCCGG-----GTTCTTCCEEECC
T ss_pred             cc--------------ccCCCccceeecccCCCCCCch-hhcCCcCCEEEccCC-ccCCCcc-----hhcCCCCCEEECC
Confidence            42              56789999999998 3333322 678899999999996 4555543     2778999999999


Q ss_pred             cCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEe
Q 040122          261 ECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLG  340 (388)
Q Consensus       261 ~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~  340 (388)
                      +|. +..+ ..+..+++|++|++++| .+.+++   ....+++|++|++++|......+.        ....+++|++|+
T Consensus       252 ~n~-l~~~-~~~~~l~~L~~L~l~~n-~l~~~~---~~~~l~~L~~L~L~~n~l~~~~~~--------~l~~l~~L~~L~  317 (347)
T 4fmz_A          252 TNQ-ISDI-NAVKDLTKLKMLNVGSN-QISDIS---VLNNLSQLNSLFLNNNQLGNEDME--------VIGGLTNLTTLF  317 (347)
T ss_dssp             SSC-CCCC-GGGTTCTTCCEEECCSS-CCCCCG---GGGGCTTCSEEECCSSCCCGGGHH--------HHHTCTTCSEEE
T ss_pred             CCc-cCCC-hhHhcCCCcCEEEccCC-ccCCCh---hhcCCCCCCEEECcCCcCCCcChh--------HhhccccCCEEE
Confidence            985 4444 35778899999999997 566653   246789999999999964433322        224578999999


Q ss_pred             cccCCCcceecCCCccccCCCcceEEeccCC
Q 040122          341 LDCLPSLTSFCLGNYALEFPSLKQVVVRQCP  371 (388)
Q Consensus       341 l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~  371 (388)
                      +++++ ++.++. .  ..+++|++|++++|+
T Consensus       318 L~~n~-l~~~~~-~--~~l~~L~~L~l~~N~  344 (347)
T 4fmz_A          318 LSQNH-ITDIRP-L--ASLSKMDSADFANQV  344 (347)
T ss_dssp             CCSSS-CCCCGG-G--GGCTTCSEESSSCC-
T ss_pred             ccCCc-cccccC-h--hhhhccceeehhhhc
Confidence            99986 555433 2  238999999999987

>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=99.87  E-value=4.5e-20  Score=183.79  Aligned_cols=128  Identities=18%  Similarity=0.084  Sum_probs=61.5

Q ss_pred             hhhccccEEEEecCCCcccccC-CccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccC
Q 040122          249 KAFANLERLEISECSKLQKLVP-PSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEA  327 (388)
Q Consensus       249 ~~~~~L~~L~i~~~~~~~~~~~-~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~  327 (388)
                      ..+++|++|++++|......+. .+..+++|++|++++| .+...... ....+++|++|++++|...+......     
T Consensus       397 ~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~-~~~~l~~L~~L~L~~n~l~~~~~~~~-----  469 (606)
T 3t6q_A          397 KECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHS-LLDISSEQ-LFDGLPALQHLNLQGNHFPKGNIQKT-----  469 (606)
T ss_dssp             TTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTC-CCBTTCTT-TTTTCTTCCEEECTTCBCGGGEECSS-----
T ss_pred             cCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCC-ccCCcCHH-HHhCCCCCCEEECCCCCCCccccccc-----
Confidence            3344555555555433322222 2445555555555554 23222211 22445666666666554322111100     


Q ss_pred             CccccccccceEecccCCCcceec-CCCccccCCCcceEEeccCCCcccccCCCCCCCCC
Q 040122          328 KDCNVFKELEYLGLDCLPSLTSFC-LGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPML  386 (388)
Q Consensus       328 ~~~~~~~~L~~L~l~~~~~l~~~~-~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L  386 (388)
                      .....+++|++|++++|. ++.+. ....  .+++|++|++++|.-....|..+.++++|
T Consensus       470 ~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~--~l~~L~~L~Ls~N~l~~~~~~~l~~l~~L  526 (606)
T 3t6q_A          470 NSLQTLGRLEILVLSFCD-LSSIDQHAFT--SLKMMNHVDLSHNRLTSSSIEALSHLKGI  526 (606)
T ss_dssp             CGGGGCTTCCEEECTTSC-CCEECTTTTT--TCTTCCEEECCSSCCCGGGGGGGTTCCSC
T ss_pred             hhhccCCCccEEECCCCc-cCccChhhhc--cccCCCEEECCCCccCcCChhHhCccccc
Confidence            012445677777777763 44442 2222  26777777777776555556666655544

>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=99.86  E-value=3.8e-20  Score=184.33  Aligned_cols=278  Identities=13%  Similarity=0.048  Sum_probs=151.2

Q ss_pred             CccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCC
Q 040122           79 NLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFT  158 (388)
Q Consensus        79 ~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  158 (388)
                      +|++|++++| .+..+++. .++++++|++|++++| .+..+|..          +..+++|++|+++++. +..+  +.
T Consensus       255 ~L~~L~l~~n-~l~~~~~~-~~~~l~~L~~L~l~~n-~l~~lp~~----------l~~l~~L~~L~l~~n~-l~~~--~~  318 (606)
T 3t6q_A          255 SVESINLQKH-YFFNISSN-TFHCFSGLQELDLTAT-HLSELPSG----------LVGLSTLKKLVLSANK-FENL--CQ  318 (606)
T ss_dssp             EEEEEECTTC-CCSSCCTT-TTTTCTTCSEEECTTS-CCSCCCSS----------CCSCTTCCEEECTTCC-CSBG--GG
T ss_pred             ceeEEEeecC-ccCccCHH-HhccccCCCEEeccCC-ccCCCChh----------hcccccCCEEECccCC-cCcC--ch
Confidence            3444555544 33443322 2556666666666664 34444332          2345556666665542 2222  11


Q ss_pred             CccccCCCcceEeEecCCCcccccCCcc-eeeeccc-------------CCCccccccCCceEEEec-cc-ccccccccC
Q 040122          159 GNIIELPKLEYLIIENCPDMETFTSNST-FVLHMTA-------------DNKEPQKLKSEENLLVAN-QI-QHLFDEKVA  222 (388)
Q Consensus       159 ~~~~~l~~L~~L~l~~c~~l~~~~~~~~-~~~~l~~-------------~~~~l~~l~~L~~L~l~~-~~-~~~~~~~~~  222 (388)
                      ..+..+++|++|++.+|.....++.... ...++++             ....+..+++|+.|++++ .. ...+..++.
T Consensus       319 ~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~  398 (606)
T 3t6q_A          319 ISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKE  398 (606)
T ss_dssp             GCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTT
T ss_pred             hhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcC
Confidence            1144555555555555432212222110 0001111             011366777888888776 22 233455667


Q ss_pred             CCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccc--cchhhhcC
Q 040122          223 FPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINV--LTLSASKN  300 (388)
Q Consensus       223 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~--~~~~~~~~  300 (388)
                      +++|+.|+++++. +.......  ....+++|++|++++|......+..+..+++|++|+++++. +...  +.......
T Consensus       399 l~~L~~L~l~~n~-l~~~~~~~--~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~~~  474 (606)
T 3t6q_A          399 CPQLELLDLAFTR-LKVKDAQS--PFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNH-FPKGNIQKTNSLQT  474 (606)
T ss_dssp             CTTCSEEECTTCC-EECCTTCC--TTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCB-CGGGEECSSCGGGG
T ss_pred             CccCCeEECCCCc-CCCcccch--hhhCcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCC-CCccccccchhhcc
Confidence            7888888887753 33322111  11667889999998887666666677788899999998874 3331  22223467


Q ss_pred             ccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCCC
Q 040122          301 LVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGL  380 (388)
Q Consensus       301 l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~  380 (388)
                      +++|++|++++|...+..+.        ....+++|++|+++++.--...+....  .+++| +|++++|.-....|..+
T Consensus       475 l~~L~~L~Ls~n~l~~~~~~--------~~~~l~~L~~L~Ls~N~l~~~~~~~l~--~l~~L-~L~L~~N~l~~~~~~~~  543 (606)
T 3t6q_A          475 LGRLEILVLSFCDLSSIDQH--------AFTSLKMMNHVDLSHNRLTSSSIEALS--HLKGI-YLNLASNHISIILPSLL  543 (606)
T ss_dssp             CTTCCEEECTTSCCCEECTT--------TTTTCTTCCEEECCSSCCCGGGGGGGT--TCCSC-EEECCSSCCCCCCGGGH
T ss_pred             CCCccEEECCCCccCccChh--------hhccccCCCEEECCCCccCcCChhHhC--ccccc-EEECcCCcccccCHhhc
Confidence            88899999988854322222        224568888999888743333333332  26778 88888876544444444


Q ss_pred             CCCCCCC
Q 040122          381 LDTPMLN  387 (388)
Q Consensus       381 ~~~~~L~  387 (388)
                      ..+++|+
T Consensus       544 ~~l~~L~  550 (606)
T 3t6q_A          544 PILSQQR  550 (606)
T ss_dssp             HHHHTSS
T ss_pred             ccCCCCC
Confidence            5555543

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

Probab=99.86  E-value=2e-21  Score=194.34  Aligned_cols=301  Identities=15%  Similarity=0.139  Sum_probs=168.8

Q ss_pred             HHhhhccCCCCcceEEecCccccce------------------eccccccCcc--ccCCccEEEecCCCCCcccCChhhh
Q 040122           41 KCYDEKIGFLDINRLQLSHFPRLQE------------------IWHGQALPVR--FFNNLAELVVDDSTNMSSAIPANLL  100 (388)
Q Consensus        41 ~l~~~~~~~~~L~~L~l~~~~~l~~------------------~~~~~~~~~~--~~~~L~~L~l~~~~~l~~~~~~~~~  100 (388)
                      .+|..+..+++|++|+++++. +..                  ++...    +  .+++|++|++++|..... .|.. +
T Consensus       197 ~ip~~l~~l~~L~~L~Ls~n~-l~~~~~~~~~~~~~~~~~~~~ip~~l----~~~~l~~L~~L~L~~n~l~~~-~p~~-l  269 (636)
T 4eco_A          197 FVSKAVMRLTKLRQFYMGNSP-FVAENICEAWENENSEYAQQYKTEDL----KWDNLKDLTDVEVYNCPNLTK-LPTF-L  269 (636)
T ss_dssp             EECGGGGGCTTCCEEEEESCC-CCGGGBSSSCSCTTSHHHHHHTTSCC----CGGGCTTCCEEEEECCTTCSS-CCTT-T
T ss_pred             cCCHHHhcccCCCEEECcCCc-cccccccccccccccchhcccCchhh----hhcccCCCCEEEecCCcCCcc-ChHH-H
Confidence            377888899999999999887 664                  34333    5  799999999999954454 4433 8


Q ss_pred             hcCCCCcEEEeccccccc--eeccccc-ccccccccCCcCccccEeecccCcccccccCCC-CccccCCCcceEeEecCC
Q 040122          101 RCLNNLEWLAVRNCDSLE--EVLHLEE-LSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFT-GNIIELPKLEYLIIENCP  176 (388)
Q Consensus       101 ~~l~~L~~L~l~~~~~l~--~i~~~~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~-~~~~~l~~L~~L~l~~c~  176 (388)
                      +++++|++|++++|..+.  .+|..-+ +.     ....+++|++|+++++. ++.+  +. ..++.+++|++|+++++ 
T Consensus       270 ~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~-----~~~~l~~L~~L~L~~n~-l~~i--p~~~~l~~l~~L~~L~L~~N-  340 (636)
T 4eco_A          270 KALPEMQLINVACNRGISGEQLKDDWQALA-----DAPVGEKIQIIYIGYNN-LKTF--PVETSLQKMKKLGMLECLYN-  340 (636)
T ss_dssp             TTCSSCCEEECTTCTTSCHHHHHHHHHHHH-----HSGGGGTCCEEECCSSC-CSSC--CCHHHHTTCTTCCEEECCSC-
T ss_pred             hcCCCCCEEECcCCCCCccccchHHHHhhh-----ccccCCCCCEEECCCCc-CCcc--CchhhhccCCCCCEEeCcCC-
Confidence            999999999999986344  3544210 00     01235899999998874 4454  33 13778899999999987 


Q ss_pred             Ccc-cccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCC-cceEEecCCCCcceecccCchhHhhhcc
Q 040122          177 DME-TFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQ-LGNLRLSGLHKVQHLWKENDESNKAFAN  253 (388)
Q Consensus       177 ~l~-~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~-L~~L~l~~~~~l~~~~~~~~~~~~~~~~  253 (388)
                      .++ .++ .             ++.+++|+.|++++ ....++..++.+++ |+.|+++++. ++.++.....  ..+++
T Consensus       341 ~l~g~ip-~-------------~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~-l~~lp~~~~~--~~l~~  403 (636)
T 4eco_A          341 QLEGKLP-A-------------FGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNK-LKYIPNIFDA--KSVSV  403 (636)
T ss_dssp             CCEEECC-C-------------CEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSC-CSSCCSCCCT--TCSSC
T ss_pred             cCccchh-h-------------hCCCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCc-Ccccchhhhh--cccCc
Confidence            455 565 3             44455555555554 22344444444444 5555555432 3333321100  11224


Q ss_pred             ccEEEEecCCCcccccCCcc-------c------------------------cCCCCEEeeccCcCcccccchhhh----
Q 040122          254 LERLEISECSKLQKLVPPSW-------H------------------------LENLEALKVSKCHELINVLTLSAS----  298 (388)
Q Consensus       254 L~~L~i~~~~~~~~~~~~~~-------~------------------------~~~L~~L~l~~c~~l~~~~~~~~~----  298 (388)
                      |++|++++|.....+|..+.       .                        +++|++|+++++ .++.++...+.    
T Consensus       404 L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~~~~~  482 (636)
T 4eco_A          404 MSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGN-MLTEIPKNSLKDENE  482 (636)
T ss_dssp             EEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSS-CCSBCCSSSSEETTE
T ss_pred             cCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCC-CCCCcCHHHhccccc
Confidence            44444444433333333333       3                        455555555543 23333221110    


Q ss_pred             --cCccccceeeEccccccchhhcccccccCCccc--cccccceEecccCCCcceecCCCccccCCCcceEEec------
Q 040122          299 --KNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCN--VFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVR------  368 (388)
Q Consensus       299 --~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~--~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~------  368 (388)
                        +++++|++|++++|. +..++.        ...  .+++|++|+++++ .++.++.....  +++|++|+++      
T Consensus       483 ~~~~l~~L~~L~Ls~N~-l~~lp~--------~~~~~~l~~L~~L~Ls~N-~l~~ip~~~~~--l~~L~~L~Ls~N~~ls  550 (636)
T 4eco_A          483 NFKNTYLLTSIDLRFNK-LTKLSD--------DFRATTLPYLVGIDLSYN-SFSKFPTQPLN--SSTLKGFGIRNQRDAQ  550 (636)
T ss_dssp             ECTTGGGCCEEECCSSC-CCBCCG--------GGSTTTCTTCCEEECCSS-CCSSCCCGGGG--CSSCCEEECCSCBCTT
T ss_pred             cccccCCccEEECcCCc-CCccCh--------hhhhccCCCcCEEECCCC-CCCCcChhhhc--CCCCCEEECCCCcccc
Confidence              112255555555543 222222        111  4567777777775 34445554433  6777777774      


Q ss_pred             cCCCcccccCCCCCCCCCC
Q 040122          369 QCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       369 ~c~~l~~lp~~~~~~~~L~  387 (388)
                      ++...+.+|.++.++++|+
T Consensus       551 ~N~l~~~~p~~l~~l~~L~  569 (636)
T 4eco_A          551 GNRTLREWPEGITLCPSLT  569 (636)
T ss_dssp             CCBCCCCCCTTGGGCSSCC
T ss_pred             cCcccccChHHHhcCCCCC
Confidence            3444556777777777665

>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=99.86  E-value=4.4e-20  Score=178.07  Aligned_cols=133  Identities=16%  Similarity=0.199  Sum_probs=72.1

Q ss_pred             ccCcceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhh
Q 040122           22 KEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLR  101 (388)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~  101 (388)
                      .++++.+++.++    .+..++. +..+++|++|+++++. +..... .    ..+++|++|++++| .++..++   +.
T Consensus        67 l~~L~~L~Ls~n----~l~~~~~-~~~l~~L~~L~l~~n~-l~~~~~-~----~~l~~L~~L~L~~n-~l~~~~~---~~  131 (466)
T 1o6v_A           67 LNNLTQINFSNN----QLTDITP-LKNLTKLVDILMNNNQ-IADITP-L----ANLTNLTGLTLFNN-QITDIDP---LK  131 (466)
T ss_dssp             CTTCCEEECCSS----CCCCCGG-GTTCTTCCEEECCSSC-CCCCGG-G----TTCTTCCEEECCSS-CCCCCGG---GT
T ss_pred             hcCCCEEECCCC----ccCCchh-hhccccCCEEECCCCc-cccChh-h----cCCCCCCEEECCCC-CCCCChH---Hc
Confidence            344555666652    1222233 5667888888887765 443332 2    56788888888887 5666443   67


Q ss_pred             cCCCCcEEEeccccccceeccccccc----------ccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEe
Q 040122          102 CLNNLEWLAVRNCDSLEEVLHLEELS----------AKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLI  171 (388)
Q Consensus       102 ~l~~L~~L~l~~~~~l~~i~~~~~~~----------~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~  171 (388)
                      ++++|++|++++|. +..++....+.          ......+..+++|+.|+++++. +..+    ..+..+++|++|+
T Consensus       132 ~l~~L~~L~l~~n~-l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~-l~~~----~~l~~l~~L~~L~  205 (466)
T 1o6v_A          132 NLTNLNRLELSSNT-ISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNK-VSDI----SVLAKLTNLESLI  205 (466)
T ss_dssp             TCTTCSEEEEEEEE-ECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSC-CCCC----GGGGGCTTCSEEE
T ss_pred             CCCCCCEEECCCCc-cCCChhhccCCcccEeecCCcccCchhhccCCCCCEEECcCCc-CCCC----hhhccCCCCCEEE
Confidence            88888888888763 33333221110          0000113345556666665543 2332    1144556666666


Q ss_pred             EecC
Q 040122          172 IENC  175 (388)
Q Consensus       172 l~~c  175 (388)
                      +.+|
T Consensus       206 l~~n  209 (466)
T 1o6v_A          206 ATNN  209 (466)
T ss_dssp             CCSS
T ss_pred             ecCC
Confidence            6655

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

Probab=99.86  E-value=3.7e-21  Score=192.38  Aligned_cols=75  Identities=9%  Similarity=0.167  Sum_probs=43.4

Q ss_pred             Hhhhcc--CCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcc-cCChhhhhcC------CCCcEEEec
Q 040122           42 CYDEKI--GFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSS-AIPANLLRCL------NNLEWLAVR  112 (388)
Q Consensus        42 l~~~~~--~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~-~~~~~~~~~l------~~L~~L~l~  112 (388)
                      +|..+.  .+++|++|+++++.-...++...    ..+++|++|++++|..++. ..|.. ++++      ++|++|+++
T Consensus       239 ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l----~~l~~L~~L~Ls~n~~l~~~~lp~~-~~~L~~~~~l~~L~~L~L~  313 (636)
T 4eco_A          239 KTEDLKWDNLKDLTDVEVYNCPNLTKLPTFL----KALPEMQLINVACNRGISGEQLKDD-WQALADAPVGEKIQIIYIG  313 (636)
T ss_dssp             TTSCCCGGGCTTCCEEEEECCTTCSSCCTTT----TTCSSCCEEECTTCTTSCHHHHHHH-HHHHHHSGGGGTCCEEECC
T ss_pred             CchhhhhcccCCCCEEEecCCcCCccChHHH----hcCCCCCEEECcCCCCCccccchHH-HHhhhccccCCCCCEEECC
Confidence            677777  77888888888775333333333    5567777777777642443 23332 3333      666666666


Q ss_pred             cccccceecc
Q 040122          113 NCDSLEEVLH  122 (388)
Q Consensus       113 ~~~~l~~i~~  122 (388)
                      +|. +..+|.
T Consensus       314 ~n~-l~~ip~  322 (636)
T 4eco_A          314 YNN-LKTFPV  322 (636)
T ss_dssp             SSC-CSSCCC
T ss_pred             CCc-CCccCc
Confidence            643 334443

>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=99.86  E-value=2.4e-20  Score=179.23  Aligned_cols=140  Identities=16%  Similarity=0.112  Sum_probs=86.0

Q ss_pred             CcceeeecCCCCchhHHHH-hhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhc
Q 040122           24 EGELHHWEGNNLNSTIQKC-YDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRC  102 (388)
Q Consensus        24 ~~~~~~~~~~~~~~~~~~l-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  102 (388)
                      +++.++..++    .+..+ +..+..+++|++|+++++.-...+....   ...+++|++|++++| .+....+.. +++
T Consensus        31 ~l~~L~Ls~n----~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~---~~~l~~L~~L~Ls~n-~l~~~~~~~-~~~  101 (455)
T 3v47_A           31 HVNYVDLSLN----SIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNT---FRGLSSLIILKLDYN-QFLQLETGA-FNG  101 (455)
T ss_dssp             TCCEEECCSS----CCCEECTTTTSSCTTCCEEECCCCSTTCEECTTT---TTTCTTCCEEECTTC-TTCEECTTT-TTT
T ss_pred             ccCEEEecCC----ccCcCChhHhccCccccEEECcCCcccceECccc---ccccccCCEEeCCCC-ccCccChhh-ccC
Confidence            3555555552    22222 4566778888888888775222332221   245788889998888 455544443 788


Q ss_pred             CCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccccc
Q 040122          103 LNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFT  182 (388)
Q Consensus       103 l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~  182 (388)
                      +++|++|++++|..-+.++....        +..+++|++|+++++. +..+. +...+..+++|++|++.++ .++...
T Consensus       102 l~~L~~L~L~~n~l~~~~~~~~~--------~~~l~~L~~L~L~~n~-l~~~~-~~~~~~~l~~L~~L~L~~n-~l~~~~  170 (455)
T 3v47_A          102 LANLEVLTLTQCNLDGAVLSGNF--------FKPLTSLEMLVLRDNN-IKKIQ-PASFFLNMRRFHVLDLTFN-KVKSIC  170 (455)
T ss_dssp             CTTCCEEECTTSCCBTHHHHSST--------TTTCTTCCEEECCSSB-CCSCC-CCGGGGGCTTCCEEECTTC-CBSCCC
T ss_pred             cccCCEEeCCCCCCCccccCccc--------ccCcccCCEEECCCCc-cCccC-cccccCCCCcccEEeCCCC-cccccC
Confidence            88899999888753322222111        3568889999998774 34431 1111567889999999887 455443


Q ss_pred             C
Q 040122          183 S  183 (388)
Q Consensus       183 ~  183 (388)
                      .
T Consensus       171 ~  171 (455)
T 3v47_A          171 E  171 (455)
T ss_dssp             T
T ss_pred             h
Confidence            3

>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=99.86  E-value=5.5e-20  Score=177.91  Aligned_cols=278  Identities=18%  Similarity=0.165  Sum_probs=135.7

Q ss_pred             hccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccc
Q 040122           45 EKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLE  124 (388)
Q Consensus        45 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~  124 (388)
                      .+..+++|++|+++++. +..+....   ...+++|++|++++| .++.+++ ..+.++++|++|++++|. +..+++..
T Consensus        51 ~~~~l~~L~~L~L~~n~-i~~~~~~~---~~~l~~L~~L~L~~n-~l~~~~~-~~~~~l~~L~~L~Ls~n~-i~~~~~~~  123 (477)
T 2id5_A           51 EFASFPHLEELELNENI-VSAVEPGA---FNNLFNLRTLGLRSN-RLKLIPL-GVFTGLSNLTKLDISENK-IVILLDYM  123 (477)
T ss_dssp             TTTTCTTCCEEECTTSC-CCEECTTT---TTTCTTCCEEECCSS-CCCSCCT-TSSTTCTTCCEEECTTSC-CCEECTTT
T ss_pred             HccCCCCCCEEECCCCc-cCEeChhh---hhCCccCCEEECCCC-cCCccCc-ccccCCCCCCEEECCCCc-cccCChhH
Confidence            34455566666665543 43322111   134556666666555 3444332 224555666666666542 22221110


Q ss_pred             cccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCC
Q 040122          125 ELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSE  204 (388)
Q Consensus       125 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L  204 (388)
                               +..+++|++|+++++. +..+  ....+..+++|++|++.+| .++.++...            +..+++|
T Consensus       124 ---------~~~l~~L~~L~l~~n~-l~~~--~~~~~~~l~~L~~L~l~~n-~l~~~~~~~------------l~~l~~L  178 (477)
T 2id5_A          124 ---------FQDLYNLKSLEVGDND-LVYI--SHRAFSGLNSLEQLTLEKC-NLTSIPTEA------------LSHLHGL  178 (477)
T ss_dssp             ---------TTTCTTCCEEEECCTT-CCEE--CTTSSTTCTTCCEEEEESC-CCSSCCHHH------------HTTCTTC
T ss_pred             ---------ccccccCCEEECCCCc-ccee--ChhhccCCCCCCEEECCCC-cCcccChhH------------hcccCCC
Confidence                     2445566666665542 3333  1122445566666666665 344333221            4556666


Q ss_pred             ceEEEec-ccccc-cccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCccccc-CCccccCCCCEE
Q 040122          205 ENLLVAN-QIQHL-FDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLV-PPSWHLENLEAL  281 (388)
Q Consensus       205 ~~L~l~~-~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~-~~~~~~~~L~~L  281 (388)
                      +.|++++ ....+ ...+..+++|+.|++++++.+..++...    ....+|++|++++|. +..++ ..+..+++|++|
T Consensus       179 ~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~----~~~~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L  253 (477)
T 2id5_A          179 IVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNC----LYGLNLTSLSITHCN-LTAVPYLAVRHLVYLRFL  253 (477)
T ss_dssp             CEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTT----TTTCCCSEEEEESSC-CCSCCHHHHTTCTTCCEE
T ss_pred             cEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCccc----ccCccccEEECcCCc-ccccCHHHhcCccccCee
Confidence            6666665 22222 2234455666666666665555555433    223366666666653 33333 234556666666


Q ss_pred             eeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCC
Q 040122          282 KVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPS  361 (388)
Q Consensus       282 ~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~  361 (388)
                      +++++ .+..++.. ....+++|++|++++|......+.        ....+++|++|+++++ .++.++.... ..+++
T Consensus       254 ~Ls~n-~l~~~~~~-~~~~l~~L~~L~L~~n~l~~~~~~--------~~~~l~~L~~L~L~~N-~l~~~~~~~~-~~l~~  321 (477)
T 2id5_A          254 NLSYN-PISTIEGS-MLHELLRLQEIQLVGGQLAVVEPY--------AFRGLNYLRVLNVSGN-QLTTLEESVF-HSVGN  321 (477)
T ss_dssp             ECCSS-CCCEECTT-SCTTCTTCCEEECCSSCCSEECTT--------TBTTCTTCCEEECCSS-CCSCCCGGGB-SCGGG
T ss_pred             ECCCC-cCCccChh-hccccccCCEEECCCCccceECHH--------HhcCcccCCEEECCCC-cCceeCHhHc-CCCcc
Confidence            66664 34443322 224566666666666532221111        1234566777777665 3444443321 12566


Q ss_pred             cceEEeccCC
Q 040122          362 LKQVVVRQCP  371 (388)
Q Consensus       362 L~~L~l~~c~  371 (388)
                      |++|++.+++
T Consensus       322 L~~L~l~~N~  331 (477)
T 2id5_A          322 LETLILDSNP  331 (477)
T ss_dssp             CCEEECCSSC
T ss_pred             cCEEEccCCC
Confidence            7777776654

>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=99.85  E-value=2.3e-20  Score=180.51  Aligned_cols=297  Identities=19%  Similarity=0.182  Sum_probs=212.6

Q ss_pred             HHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccce
Q 040122           40 QKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEE  119 (388)
Q Consensus        40 ~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~  119 (388)
                      ..+|..+  .++++.|+++++. +..+....   ...+++|++|++++| .+....+.. +.++++|++|++++| .+..
T Consensus        24 ~~ip~~~--~~~l~~L~L~~n~-l~~~~~~~---~~~l~~L~~L~L~~n-~i~~~~~~~-~~~l~~L~~L~L~~n-~l~~   94 (477)
T 2id5_A           24 VAVPEGI--PTETRLLDLGKNR-IKTLNQDE---FASFPHLEELELNEN-IVSAVEPGA-FNNLFNLRTLGLRSN-RLKL   94 (477)
T ss_dssp             SSCCSCC--CTTCSEEECCSSC-CCEECTTT---TTTCTTCCEEECTTS-CCCEECTTT-TTTCTTCCEEECCSS-CCCS
T ss_pred             CcCCCCC--CCCCcEEECCCCc-cceECHhH---ccCCCCCCEEECCCC-ccCEeChhh-hhCCccCCEEECCCC-cCCc
Confidence            3455443  3689999999876 66554322   256899999999998 677755544 889999999999995 4555


Q ss_pred             ecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccc
Q 040122          120 VLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQ  199 (388)
Q Consensus       120 i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~  199 (388)
                      ++..         .+..+++|++|+++++. +..+  ....+..+++|++|++.++ .++......            +.
T Consensus        95 ~~~~---------~~~~l~~L~~L~Ls~n~-i~~~--~~~~~~~l~~L~~L~l~~n-~l~~~~~~~------------~~  149 (477)
T 2id5_A           95 IPLG---------VFTGLSNLTKLDISENK-IVIL--LDYMFQDLYNLKSLEVGDN-DLVYISHRA------------FS  149 (477)
T ss_dssp             CCTT---------SSTTCTTCCEEECTTSC-CCEE--CTTTTTTCTTCCEEEECCT-TCCEECTTS------------ST
T ss_pred             cCcc---------cccCCCCCCEEECCCCc-cccC--ChhHccccccCCEEECCCC-ccceeChhh------------cc
Confidence            5432         13568999999999874 4444  2233678999999999996 566665543            78


Q ss_pred             cccCCceEEEec-cccccc-ccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCC
Q 040122          200 KLKSEENLLVAN-QIQHLF-DEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLEN  277 (388)
Q Consensus       200 ~l~~L~~L~l~~-~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~  277 (388)
                      .+++|+.|++++ ....++ ..+..+++|+.|+++++ .+..++...+   ..+++|+.|++++|.....++.......+
T Consensus       150 ~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n-~i~~~~~~~~---~~l~~L~~L~l~~~~~~~~~~~~~~~~~~  225 (477)
T 2id5_A          150 GLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHL-NINAIRDYSF---KRLYRLKVLEISHWPYLDTMTPNCLYGLN  225 (477)
T ss_dssp             TCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESC-CCCEECTTCS---CSCTTCCEEEEECCTTCCEECTTTTTTCC
T ss_pred             CCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCC-cCcEeChhhc---ccCcccceeeCCCCccccccCcccccCcc
Confidence            899999999998 333333 34667899999999985 4666655433   67889999999999888888887777789


Q ss_pred             CCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccc
Q 040122          278 LEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYAL  357 (388)
Q Consensus       278 L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~  357 (388)
                      |++|+++++ .++.++.. ....+++|+.|++++|. +..++.       .....+++|++|++.++. ++.+..... .
T Consensus       226 L~~L~l~~n-~l~~~~~~-~~~~l~~L~~L~Ls~n~-l~~~~~-------~~~~~l~~L~~L~L~~n~-l~~~~~~~~-~  293 (477)
T 2id5_A          226 LTSLSITHC-NLTAVPYL-AVRHLVYLRFLNLSYNP-ISTIEG-------SMLHELLRLQEIQLVGGQ-LAVVEPYAF-R  293 (477)
T ss_dssp             CSEEEEESS-CCCSCCHH-HHTTCTTCCEEECCSSC-CCEECT-------TSCTTCTTCCEEECCSSC-CSEECTTTB-T
T ss_pred             ccEEECcCC-cccccCHH-HhcCccccCeeECCCCc-CCccCh-------hhccccccCCEEECCCCc-cceECHHHh-c
Confidence            999999987 56666533 34688999999999885 333322       122456899999999874 555533221 2


Q ss_pred             cCCCcceEEeccCCCcccccCC-CCCCCCCC
Q 040122          358 EFPSLKQVVVRQCPKMKIFSQG-LLDTPMLN  387 (388)
Q Consensus       358 ~~~~L~~L~l~~c~~l~~lp~~-~~~~~~L~  387 (388)
                      .+++|++|++++|. ++.+|.. +.++++|+
T Consensus       294 ~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~  323 (477)
T 2id5_A          294 GLNYLRVLNVSGNQ-LTTLEESVFHSVGNLE  323 (477)
T ss_dssp             TCTTCCEEECCSSC-CSCCCGGGBSCGGGCC
T ss_pred             CcccCCEEECCCCc-CceeCHhHcCCCcccC
Confidence            37999999999874 6666643 35555554

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

Probab=99.85  E-value=1.3e-20  Score=192.60  Aligned_cols=115  Identities=14%  Similarity=0.090  Sum_probs=54.7

Q ss_pred             Hhhhcc--CCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcc-cCChhhhhc-------CCCCcEEEe
Q 040122           42 CYDEKI--GFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSS-AIPANLLRC-------LNNLEWLAV  111 (388)
Q Consensus        42 l~~~~~--~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~-~~~~~~~~~-------l~~L~~L~l  111 (388)
                      +|..+.  .+++|++|+++++.-...++...    ..+++|++|++++|..++. ..|.. +++       +++|++|++
T Consensus       481 iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l----~~L~~L~~L~Ls~N~~lsg~~iP~~-i~~L~~~~~~l~~L~~L~L  555 (876)
T 4ecn_A          481 ENEELSWSNLKDLTDVELYNCPNMTQLPDFL----YDLPELQSLNIACNRGISAAQLKAD-WTRLADDEDTGPKIQIFYM  555 (876)
T ss_dssp             TTSCCCGGGCTTCCEEEEESCTTCCSCCGGG----GGCSSCCEEECTTCTTSCHHHHHHH-HHHHHHCTTTTTTCCEEEC
T ss_pred             CChhhhhccCCCCCEEECcCCCCCccChHHH----hCCCCCCEEECcCCCCcccccchHH-HHhhhhcccccCCccEEEe
Confidence            566655  66777777776665333333222    4566666666666632443 22222 222       336666666


Q ss_pred             ccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecC
Q 040122          112 RNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       112 ~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c  175 (388)
                      ++|. +..+|....        +..+++|+.|+++++. +..+  +  .++.+++|++|+++++
T Consensus       556 s~N~-L~~ip~~~~--------l~~L~~L~~L~Ls~N~-l~~l--p--~~~~L~~L~~L~Ls~N  605 (876)
T 4ecn_A          556 GYNN-LEEFPASAS--------LQKMVKLGLLDCVHNK-VRHL--E--AFGTNVKLTDLKLDYN  605 (876)
T ss_dssp             CSSC-CCBCCCHHH--------HTTCTTCCEEECTTSC-CCBC--C--CCCTTSEESEEECCSS
T ss_pred             eCCc-CCccCChhh--------hhcCCCCCEEECCCCC-cccc--h--hhcCCCcceEEECcCC
Confidence            6643 234443000        2345555555555442 2233  1  1444555555555554

>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=99.85  E-value=5.1e-20  Score=183.39  Aligned_cols=54  Identities=13%  Similarity=-0.006  Sum_probs=34.5

Q ss_pred             ccccccceEecccCCCcceec-CCCccccCCCcceEEeccCCCcccccCCCCCCCCCC
Q 040122          331 NVFKELEYLGLDCLPSLTSFC-LGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       331 ~~~~~L~~L~l~~~~~l~~~~-~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                      ..+++|++|+++++. ++.+. ....  .+++|++|++++|+-....|..+.++++|+
T Consensus       470 ~~l~~L~~L~Ls~n~-l~~~~~~~~~--~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~  524 (606)
T 3vq2_A          470 ANTTNLTFLDLSKCQ-LEQISWGVFD--TLHRLQLLNMSHNNLLFLDSSHYNQLYSLS  524 (606)
T ss_dssp             TTCTTCCEEECTTSC-CCEECTTTTT--TCTTCCEEECCSSCCSCEEGGGTTTCTTCC
T ss_pred             ccCCCCCEEECCCCc-CCccChhhhc--ccccCCEEECCCCcCCCcCHHHccCCCcCC
Confidence            345777777777763 44433 2222  267888888888765555577777777765

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

Probab=99.85  E-value=3.9e-20  Score=174.27  Aligned_cols=280  Identities=15%  Similarity=0.149  Sum_probs=167.0

Q ss_pred             cCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccc
Q 040122           47 IGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEEL  126 (388)
Q Consensus        47 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~  126 (388)
                      ..+++|++|+++++. +..++...   ...+++|++|++++| .++..++.. ++++++|++|++++| .+..++...  
T Consensus        66 ~~l~~L~~L~L~~n~-i~~~~~~~---~~~l~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~L~~n-~l~~l~~~~--  136 (390)
T 3o6n_A           66 DSFRQVELLNLNDLQ-IEEIDTYA---FAYAHTIQKLYMGFN-AIRYLPPHV-FQNVPLLTVLVLERN-DLSSLPRGI--  136 (390)
T ss_dssp             HHCCCCSEEECTTSC-CCEECTTT---TTTCTTCCEEECCSS-CCCCCCTTT-TTTCTTCCEEECCSS-CCCCCCTTT--
T ss_pred             cccccCcEEECCCCc-ccccChhh---ccCCCCcCEEECCCC-CCCcCCHHH-hcCCCCCCEEECCCC-ccCcCCHHH--
Confidence            457888888888775 65544322   156788888888888 566644433 778888888888885 455554321  


Q ss_pred             cccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcce-eeecccCC---Ccccccc
Q 040122          127 SAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTF-VLHMTADN---KEPQKLK  202 (388)
Q Consensus       127 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~-~~~l~~~~---~~l~~l~  202 (388)
                             +..+++|++|+++++. +..+  +...+..+++|++|+++++ .++..+....+ +..+...+   ..+...+
T Consensus       137 -------~~~l~~L~~L~L~~n~-l~~~--~~~~~~~l~~L~~L~l~~n-~l~~~~~~~l~~L~~L~l~~n~l~~~~~~~  205 (390)
T 3o6n_A          137 -------FHNTPKLTTLSMSNNN-LERI--EDDTFQATTSLQNLQLSSN-RLTHVDLSLIPSLFHANVSYNLLSTLAIPI  205 (390)
T ss_dssp             -------TTTCTTCCEEECCSSC-CCBC--CTTTTSSCTTCCEEECCSS-CCSBCCGGGCTTCSEEECCSSCCSEEECCS
T ss_pred             -------hcCCCCCcEEECCCCc-cCcc--ChhhccCCCCCCEEECCCC-cCCccccccccccceeecccccccccCCCC
Confidence                   3567888888888764 4444  2233567888888888886 45544321110 00011000   1122334


Q ss_pred             CCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEE
Q 040122          203 SEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEAL  281 (388)
Q Consensus       203 ~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L  281 (388)
                      +|+.|++++ ....++.  ..+++|+.|+++++ .++..+     ....+++|++|++++|......+..+..+++|++|
T Consensus       206 ~L~~L~l~~n~l~~~~~--~~~~~L~~L~l~~n-~l~~~~-----~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L  277 (390)
T 3o6n_A          206 AVEELDASHNSINVVRG--PVNVELTILKLQHN-NLTDTA-----WLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERL  277 (390)
T ss_dssp             SCSEEECCSSCCCEEEC--CCCSSCCEEECCSS-CCCCCG-----GGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEE
T ss_pred             cceEEECCCCeeeeccc--cccccccEEECCCC-CCcccH-----HHcCCCCccEEECCCCcCCCcChhHccccccCCEE
Confidence            555555555 2222222  22456777777764 344332     22667778888887776554445566777788888


Q ss_pred             eeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCC
Q 040122          282 KVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPS  361 (388)
Q Consensus       282 ~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~  361 (388)
                      +++++ .++.++..  ...+++|++|++++|. +..++.        ....+++|++|++.+++ ++.++.+.    +++
T Consensus       278 ~L~~n-~l~~~~~~--~~~l~~L~~L~L~~n~-l~~~~~--------~~~~l~~L~~L~L~~N~-i~~~~~~~----~~~  340 (390)
T 3o6n_A          278 YISNN-RLVALNLY--GQPIPTLKVLDLSHNH-LLHVER--------NQPQFDRLENLYLDHNS-IVTLKLST----HHT  340 (390)
T ss_dssp             ECCSS-CCCEEECS--SSCCTTCCEEECCSSC-CCCCGG--------GHHHHTTCSEEECCSSC-CCCCCCCT----TCC
T ss_pred             ECCCC-cCcccCcc--cCCCCCCCEEECCCCc-ceecCc--------cccccCcCCEEECCCCc-cceeCchh----hcc
Confidence            88775 45554322  2567778888887774 333332        12446778888887764 55554333    678


Q ss_pred             cceEEeccCC
Q 040122          362 LKQVVVRQCP  371 (388)
Q Consensus       362 L~~L~l~~c~  371 (388)
                      |++|++.+++
T Consensus       341 L~~L~l~~N~  350 (390)
T 3o6n_A          341 LKNLTLSHND  350 (390)
T ss_dssp             CSEEECCSSC
T ss_pred             CCEEEcCCCC
Confidence            8888887765

>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=99.84  E-value=3.9e-20  Score=169.99  Aligned_cols=224  Identities=16%  Similarity=0.193  Sum_probs=112.4

Q ss_pred             CCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccc
Q 040122           49 FLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSA  128 (388)
Q Consensus        49 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~  128 (388)
                      .++++.|+++++. +..++...    ..+++|++|++++| .+..++. . ++++++|++|++++| .+..+|..     
T Consensus        80 ~~~l~~L~L~~n~-l~~lp~~l----~~l~~L~~L~L~~n-~l~~lp~-~-~~~l~~L~~L~Ls~n-~l~~lp~~-----  145 (328)
T 4fcg_A           80 QPGRVALELRSVP-LPQFPDQA----FRLSHLQHMTIDAA-GLMELPD-T-MQQFAGLETLTLARN-PLRALPAS-----  145 (328)
T ss_dssp             STTCCEEEEESSC-CSSCCSCG----GGGTTCSEEEEESS-CCCCCCS-C-GGGGTTCSEEEEESC-CCCCCCGG-----
T ss_pred             ccceeEEEccCCC-chhcChhh----hhCCCCCEEECCCC-CccchhH-H-HhccCCCCEEECCCC-ccccCcHH-----
Confidence            4566666666554 44443333    44666666666666 3444332 2 566666666666664 23344332     


Q ss_pred             cccccCCcCccccEeecccCcccccccCCCC------ccccCCCcceEeEecCCCcccccCCcceeeecccCCCcccccc
Q 040122          129 KEEHIGPLFPRLLSLKLIDLPKLKRFCNFTG------NIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLK  202 (388)
Q Consensus       129 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~------~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~  202 (388)
                           +..+++|++|++++|...+.++....      .+..+++|++|++++| .++                       
T Consensus       146 -----l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n-~l~-----------------------  196 (328)
T 4fcg_A          146 -----IASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIR-----------------------  196 (328)
T ss_dssp             -----GGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEE-CCC-----------------------
T ss_pred             -----HhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCC-CcC-----------------------
Confidence                 24456666666665544444411100      0112445555555544 333                       


Q ss_pred             CCceEEEecccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEe
Q 040122          203 SEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALK  282 (388)
Q Consensus       203 ~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~  282 (388)
                                  .++..++.+++|+.|+++++ .++.++..    ...+++|++|++++|.....+|..+..+++|++|+
T Consensus       197 ------------~lp~~l~~l~~L~~L~L~~N-~l~~l~~~----l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~  259 (328)
T 4fcg_A          197 ------------SLPASIANLQNLKSLKIRNS-PLSALGPA----IHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLI  259 (328)
T ss_dssp             ------------CCCGGGGGCTTCCEEEEESS-CCCCCCGG----GGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEE
T ss_pred             ------------cchHhhcCCCCCCEEEccCC-CCCcCchh----hccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEE
Confidence                        33344445555555555553 23333322    14455566666666555555555555566666666


Q ss_pred             eccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecc
Q 040122          283 VSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLD  342 (388)
Q Consensus       283 l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~  342 (388)
                      +++|.....++..  ..++++|++|++++|+..+.++.        ....+++|+.+.+.
T Consensus       260 L~~n~~~~~~p~~--~~~l~~L~~L~L~~n~~~~~iP~--------~l~~L~~L~~l~l~  309 (328)
T 4fcg_A          260 LKDCSNLLTLPLD--IHRLTQLEKLDLRGCVNLSRLPS--------LIAQLPANCIILVP  309 (328)
T ss_dssp             CTTCTTCCBCCTT--GGGCTTCCEEECTTCTTCCCCCG--------GGGGSCTTCEEECC
T ss_pred             CCCCCchhhcchh--hhcCCCCCEEeCCCCCchhhccH--------HHhhccCceEEeCC
Confidence            6665444443322  24556666666666655555544        22334555555544

>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=99.84  E-value=5.2e-20  Score=176.89  Aligned_cols=114  Identities=18%  Similarity=0.118  Sum_probs=59.3

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEecccccccee-cccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEV-LHLEELSA  128 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i-~~~~~~~~  128 (388)
                      ++|++|+++++. +.......   ...+++|++|++++|.....+++ ..+.++++|++|++++|. +..+ +..     
T Consensus        30 ~~l~~L~Ls~n~-i~~~~~~~---~~~l~~L~~L~L~~n~~~~~i~~-~~~~~l~~L~~L~Ls~n~-l~~~~~~~-----   98 (455)
T 3v47_A           30 AHVNYVDLSLNS-IAELNETS---FSRLQDLQFLKVEQQTPGLVIRN-NTFRGLSSLIILKLDYNQ-FLQLETGA-----   98 (455)
T ss_dssp             TTCCEEECCSSC-CCEECTTT---TSSCTTCCEEECCCCSTTCEECT-TTTTTCTTCCEEECTTCT-TCEECTTT-----
T ss_pred             CccCEEEecCCc-cCcCChhH---hccCccccEEECcCCcccceECc-ccccccccCCEEeCCCCc-cCccChhh-----
Confidence            567777776654 44332221   14566777777776633223222 226666777777777653 3332 222     


Q ss_pred             cccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccc
Q 040122          129 KEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       129 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                           +..+++|++|+++++....... ....+..+++|++|+++++ .++..
T Consensus        99 -----~~~l~~L~~L~L~~n~l~~~~~-~~~~~~~l~~L~~L~L~~n-~l~~~  144 (455)
T 3v47_A           99 -----FNGLANLEVLTLTQCNLDGAVL-SGNFFKPLTSLEMLVLRDN-NIKKI  144 (455)
T ss_dssp             -----TTTCTTCCEEECTTSCCBTHHH-HSSTTTTCTTCCEEECCSS-BCCSC
T ss_pred             -----ccCcccCCEEeCCCCCCCcccc-CcccccCcccCCEEECCCC-ccCcc
Confidence                 3456677777776653221111 1111445667777777665 34444

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

Probab=99.84  E-value=3.7e-20  Score=189.28  Aligned_cols=303  Identities=14%  Similarity=0.118  Sum_probs=176.2

Q ss_pred             HhhhccCCCCcceEEecCccccce------------------eccccccCcc--ccCCccEEEecCCCCCcccCChhhhh
Q 040122           42 CYDEKIGFLDINRLQLSHFPRLQE------------------IWHGQALPVR--FFNNLAELVVDDSTNMSSAIPANLLR  101 (388)
Q Consensus        42 l~~~~~~~~~L~~L~l~~~~~l~~------------------~~~~~~~~~~--~~~~L~~L~l~~~~~l~~~~~~~~~~  101 (388)
                      +|..+..+++|++|+++++. +..                  ++...    +  .+++|++|++++|..... .|.. ++
T Consensus       440 IP~~l~~L~~L~~L~Ls~N~-Lsg~~i~~~~~~~s~n~~~g~iP~~l----~f~~L~~L~~L~Ls~N~l~~~-iP~~-l~  512 (876)
T 4ecn_A          440 ISKAIQRLTKLQIIYFANSP-FTYDNIAVDWEDANSDYAKQYENEEL----SWSNLKDLTDVELYNCPNMTQ-LPDF-LY  512 (876)
T ss_dssp             ECGGGGGCTTCCEEEEESCC-CCGGGBSSSCSCTTSHHHHHHTTSCC----CGGGCTTCCEEEEESCTTCCS-CCGG-GG
T ss_pred             hhHHHhcCCCCCEEECcCCc-CCCCcccccccccccccccccCChhh----hhccCCCCCEEECcCCCCCcc-ChHH-Hh
Confidence            78888999999999999876 654                  33332    4  799999999999955555 4433 89


Q ss_pred             cCCCCcEEEeccccccc--eeccc-ccccccccccCCcCccccEeecccCcccccccCCC-CccccCCCcceEeEecCCC
Q 040122          102 CLNNLEWLAVRNCDSLE--EVLHL-EELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFT-GNIIELPKLEYLIIENCPD  177 (388)
Q Consensus       102 ~l~~L~~L~l~~~~~l~--~i~~~-~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~-~~~~~l~~L~~L~l~~c~~  177 (388)
                      ++++|++|++++|..+.  .+|.. ..+.    .....+++|+.|+++++. +..+  +. ..++.+++|++|+++++ .
T Consensus       513 ~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~----~~~~~l~~L~~L~Ls~N~-L~~i--p~~~~l~~L~~L~~L~Ls~N-~  584 (876)
T 4ecn_A          513 DLPELQSLNIACNRGISAAQLKADWTRLA----DDEDTGPKIQIFYMGYNN-LEEF--PASASLQKMVKLGLLDCVHN-K  584 (876)
T ss_dssp             GCSSCCEEECTTCTTSCHHHHHHHHHHHH----HCTTTTTTCCEEECCSSC-CCBC--CCHHHHTTCTTCCEEECTTS-C
T ss_pred             CCCCCCEEECcCCCCcccccchHHHHhhh----hcccccCCccEEEeeCCc-CCcc--CChhhhhcCCCCCEEECCCC-C
Confidence            99999999999986344  34442 1100    012456799999999875 4455  43 13789999999999997 5


Q ss_pred             cccccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCC-cceEEecCCCCcceecccCchhHhhhcccc
Q 040122          178 METFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQ-LGNLRLSGLHKVQHLWKENDESNKAFANLE  255 (388)
Q Consensus       178 l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~-L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~  255 (388)
                      ++.+| .             ++.+++|+.|++++ ....++..++.+++ |+.|+++++. ++.++.....  ...++|+
T Consensus       585 l~~lp-~-------------~~~L~~L~~L~Ls~N~l~~lp~~l~~l~~~L~~L~Ls~N~-L~~lp~~~~~--~~~~~L~  647 (876)
T 4ecn_A          585 VRHLE-A-------------FGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNK-LKYIPNIFNA--KSVYVMG  647 (876)
T ss_dssp             CCBCC-C-------------CCTTSEESEEECCSSCCSCCCTTSCEECTTCCEEECCSSC-CCSCCSCCCT--TCSSCEE
T ss_pred             cccch-h-------------hcCCCcceEEECcCCccccchHHHhhccccCCEEECcCCC-CCcCchhhhc--cccCCCC
Confidence            66666 2             55666666666666 33355555555666 6666666542 4444321100  1112255


Q ss_pred             EEEEecCCCcc----------------------------cccCCcc-ccCCCCEEeeccCcCcccccchhh------hcC
Q 040122          256 RLEISECSKLQ----------------------------KLVPPSW-HLENLEALKVSKCHELINVLTLSA------SKN  300 (388)
Q Consensus       256 ~L~i~~~~~~~----------------------------~~~~~~~-~~~~L~~L~l~~c~~l~~~~~~~~------~~~  300 (388)
                      .|++++|....                            .+|..+. .+++|+.|+++++ .+..++...+      .++
T Consensus       648 ~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N-~L~~ip~~~~~~~~~~l~n  726 (876)
T 4ecn_A          648 SVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNN-LMTSIPENSLKPKDGNYKN  726 (876)
T ss_dssp             EEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSC-CCSCCCTTSSSCTTSCCTT
T ss_pred             EEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCC-cCCccChHHhccccccccc
Confidence            55555543322                            2332221 3455555555543 3333322111      012


Q ss_pred             ccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEecc------CCCcc
Q 040122          301 LVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQ------CPKMK  374 (388)
Q Consensus       301 l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~------c~~l~  374 (388)
                      +++|+.|++++|. +..++.   .+.   ...+++|+.|+++++ .++.++.....  +++|+.|++++      |...+
T Consensus       727 l~~L~~L~Ls~N~-L~~lp~---~l~---~~~l~~L~~L~Ls~N-~L~~lp~~l~~--L~~L~~L~Ls~N~~ls~N~l~~  796 (876)
T 4ecn_A          727 TYLLTTIDLRFNK-LTSLSD---DFR---ATTLPYLSNMDVSYN-CFSSFPTQPLN--SSQLKAFGIRHQRDAEGNRILR  796 (876)
T ss_dssp             GGGCCEEECCSSC-CCCCCG---GGS---TTTCTTCCEEECCSS-CCSSCCCGGGG--CTTCCEEECCCCBCTTCCBCCC
T ss_pred             cCCccEEECCCCC-CccchH---Hhh---hccCCCcCEEEeCCC-CCCccchhhhc--CCCCCEEECCCCCCcccccccc
Confidence            2355555555553 223322   000   014567777777665 34445544432  67777777755      44445


Q ss_pred             cccCCCCCCCCCC
Q 040122          375 IFSQGLLDTPMLN  387 (388)
Q Consensus       375 ~lp~~~~~~~~L~  387 (388)
                      .+|..+.++++|+
T Consensus       797 ~ip~~l~~L~~L~  809 (876)
T 4ecn_A          797 QWPTGITTCPSLI  809 (876)
T ss_dssp             CCCTTGGGCSSCC
T ss_pred             cChHHHhcCCCCC
Confidence            6677777777665

>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=99.84  E-value=1.3e-19  Score=177.20  Aligned_cols=133  Identities=14%  Similarity=0.130  Sum_probs=70.0

Q ss_pred             hhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccc-hhhhcCccccceeeEccccccchhhccc-ccccC
Q 040122          250 AFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLT-LSASKNLVNLGRMMIADCKMIEQIIQLQ-VGEEA  327 (388)
Q Consensus       250 ~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~-~~~~~  327 (388)
                      .+++|++|++++|.....+|..+..+++|++|+++++ .+..++. ......+++|++|++++|.....++... .....
T Consensus       322 ~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          322 KISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMN-QLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKS  400 (520)
T ss_dssp             SCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSS-CCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTT
T ss_pred             hCCcccEEEeECCccChhhhhhhccCCCCCEEEccCC-ccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCcc
Confidence            3455666666655444444555555556666666554 2332211 1122445555555555554322122210 00000


Q ss_pred             C-------------ccccc-cccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCC-CCCCCCCC
Q 040122          328 K-------------DCNVF-KELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQG-LLDTPMLN  387 (388)
Q Consensus       328 ~-------------~~~~~-~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~-~~~~~~L~  387 (388)
                      +             ....+ ++|++|+++++ .++.++.+..  .+++|++|++++| +++.+|.+ +.++++|+
T Consensus       401 L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N-~l~~ip~~~~--~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~  471 (520)
T 2z7x_B          401 LLSLNMSSNILTDTIFRCLPPRIKVLDLHSN-KIKSIPKQVV--KLEALQELNVASN-QLKSVPDGIFDRLTSLQ  471 (520)
T ss_dssp             CCEEECCSSCCCGGGGGSCCTTCCEEECCSS-CCCCCCGGGG--GCTTCCEEECCSS-CCCCCCTTTTTTCTTCC
T ss_pred             CCEEECcCCCCCcchhhhhcccCCEEECCCC-cccccchhhh--cCCCCCEEECCCC-cCCccCHHHhccCCccc
Confidence            0             00112 57888888776 4666666553  3788999999887 46788876 66777765

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

Probab=99.84  E-value=1.2e-19  Score=174.14  Aligned_cols=274  Identities=15%  Similarity=0.116  Sum_probs=135.8

Q ss_pred             hccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccc
Q 040122           45 EKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLE  124 (388)
Q Consensus        45 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~  124 (388)
                      .+..+++|++|+++++. +..++      ...+++|++|++++| .++.. +   ++++++|++|++++| .+..++   
T Consensus        59 ~l~~l~~L~~L~Ls~n~-l~~~~------~~~l~~L~~L~Ls~N-~l~~~-~---~~~l~~L~~L~L~~N-~l~~l~---  122 (457)
T 3bz5_A           59 GIEKLTGLTKLICTSNN-ITTLD------LSQNTNLTYLACDSN-KLTNL-D---VTPLTKLTYLNCDTN-KLTKLD---  122 (457)
T ss_dssp             TGGGCTTCSEEECCSSC-CSCCC------CTTCTTCSEEECCSS-CCSCC-C---CTTCTTCCEEECCSS-CCSCCC---
T ss_pred             hhcccCCCCEEEccCCc-CCeEc------cccCCCCCEEECcCC-CCcee-e---cCCCCcCCEEECCCC-cCCeec---
Confidence            45667778888887765 55432      245777888888777 45553 3   567777888887775 333331   


Q ss_pred             cccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcce-eeeccc-----CCCcc
Q 040122          125 ELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTF-VLHMTA-----DNKEP  198 (388)
Q Consensus       125 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~-~~~l~~-----~~~~l  198 (388)
                               +..+++|++|+++++. ++.+    . ++.+++|++|++.+|..+..++..... +..+..     ..-.+
T Consensus       123 ---------~~~l~~L~~L~l~~N~-l~~l----~-l~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~l~l  187 (457)
T 3bz5_A          123 ---------VSQNPLLTYLNCARNT-LTEI----D-VSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELDV  187 (457)
T ss_dssp             ---------CTTCTTCCEEECTTSC-CSCC----C-CTTCTTCCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCCCCCC
T ss_pred             ---------CCCCCcCCEEECCCCc-ccee----c-cccCCcCCEEECCCCCcccccccccCCcCCEEECCCCccceecc
Confidence                     2446667777766552 3333    1 445666666666666444433211000 000000     00013


Q ss_pred             ccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCC
Q 040122          199 QKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLEN  277 (388)
Q Consensus       199 ~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~  277 (388)
                      ..+++|+.|++++ ....+  .++.+++|+.|+++++ .++.++.      ..+++|+.|++++|... .++  ...+++
T Consensus       188 ~~l~~L~~L~l~~N~l~~~--~l~~l~~L~~L~Ls~N-~l~~ip~------~~l~~L~~L~l~~N~l~-~~~--~~~l~~  255 (457)
T 3bz5_A          188 SQNKLLNRLNCDTNNITKL--DLNQNIQLTFLDCSSN-KLTEIDV------TPLTQLTYFDCSVNPLT-ELD--VSTLSK  255 (457)
T ss_dssp             TTCTTCCEEECCSSCCSCC--CCTTCTTCSEEECCSS-CCSCCCC------TTCTTCSEEECCSSCCS-CCC--CTTCTT
T ss_pred             ccCCCCCEEECcCCcCCee--ccccCCCCCEEECcCC-cccccCc------cccCCCCEEEeeCCcCC-CcC--HHHCCC
Confidence            4445555555554 11111  2444555555555553 3444331      44555666666555322 222  223333


Q ss_pred             CCEE----------eeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCc
Q 040122          278 LEAL----------KVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSL  347 (388)
Q Consensus       278 L~~L----------~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  347 (388)
                      |+.|          ++++|..+..++    ...+++|+.|++++|..++.++.....+..++...+++|++|+++++ .+
T Consensus       256 L~~L~l~~n~L~~L~l~~n~~~~~~~----~~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~~N-~l  330 (457)
T 3bz5_A          256 LTTLHCIQTDLLEIDLTHNTQLIYFQ----AEGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNT-EL  330 (457)
T ss_dssp             CCEEECTTCCCSCCCCTTCTTCCEEE----CTTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTC-CC
T ss_pred             CCEEeccCCCCCEEECCCCccCCccc----ccccccCCEEECCCCcccceeccCCCcceEechhhcccCCEEECCCC-cc
Confidence            3333          233332222221    13456666666666666555554333333334444556666666554 34


Q ss_pred             ceecCCCccccCCCcceEEeccC
Q 040122          348 TSFCLGNYALEFPSLKQVVVRQC  370 (388)
Q Consensus       348 ~~~~~~~~~~~~~~L~~L~l~~c  370 (388)
                      +.++.+.    +++|+.|++.++
T Consensus       331 ~~l~l~~----l~~L~~L~l~~N  349 (457)
T 3bz5_A          331 TELDVSH----NTKLKSLSCVNA  349 (457)
T ss_dssp             SCCCCTT----CTTCSEEECCSS
T ss_pred             ccccccc----CCcCcEEECCCC
Confidence            4443222    667777777664

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

Probab=99.83  E-value=1.3e-19  Score=170.58  Aligned_cols=281  Identities=15%  Similarity=0.135  Sum_probs=182.9

Q ss_pred             CCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccc
Q 040122           48 GFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELS  127 (388)
Q Consensus        48 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~  127 (388)
                      .+++++.++++++. +..++...   ...+++|++|++++| .+...++.. +.++++|++|++++|. +..+++..   
T Consensus        43 ~l~~l~~l~l~~~~-l~~l~~~~---~~~l~~L~~L~L~~n-~i~~~~~~~-~~~l~~L~~L~L~~n~-l~~~~~~~---  112 (390)
T 3o6n_A           43 TLNNQKIVTFKNST-MRKLPAAL---LDSFRQVELLNLNDL-QIEEIDTYA-FAYAHTIQKLYMGFNA-IRYLPPHV---  112 (390)
T ss_dssp             GGCCCSEEEEESCE-ESEECTHH---HHHCCCCSEEECTTS-CCCEECTTT-TTTCTTCCEEECCSSC-CCCCCTTT---
T ss_pred             ccCCceEEEecCCc-hhhCChhH---hcccccCcEEECCCC-cccccChhh-ccCCCCcCEEECCCCC-CCcCCHHH---
Confidence            46889999999876 66555432   145899999999998 577755543 8899999999999964 44443311   


Q ss_pred             ccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceE
Q 040122          128 AKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENL  207 (388)
Q Consensus       128 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L  207 (388)
                            +..+++|++|+++++ .++.+  +...+..+++|++|+++++ .++..+...            ++.+++|+.|
T Consensus       113 ------~~~l~~L~~L~L~~n-~l~~l--~~~~~~~l~~L~~L~L~~n-~l~~~~~~~------------~~~l~~L~~L  170 (390)
T 3o6n_A          113 ------FQNVPLLTVLVLERN-DLSSL--PRGIFHNTPKLTTLSMSNN-NLERIEDDT------------FQATTSLQNL  170 (390)
T ss_dssp             ------TTTCTTCCEEECCSS-CCCCC--CTTTTTTCTTCCEEECCSS-CCCBCCTTT------------TSSCTTCCEE
T ss_pred             ------hcCCCCCCEEECCCC-ccCcC--CHHHhcCCCCCcEEECCCC-ccCccChhh------------ccCCCCCCEE
Confidence                  467899999999987 45665  3332468999999999997 566665543            5667777777


Q ss_pred             EEec-ccccccccccCCCCcceEEecCC------------------CCcceecccCchhHhhhccccEEEEecCCCcccc
Q 040122          208 LVAN-QIQHLFDEKVAFPQLGNLRLSGL------------------HKVQHLWKENDESNKAFANLERLEISECSKLQKL  268 (388)
Q Consensus       208 ~l~~-~~~~~~~~~~~~~~L~~L~l~~~------------------~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~  268 (388)
                      ++++ .....  ..+.+++|+.|+++++                  ..+..++.      ...++|+.|++++|... ..
T Consensus       171 ~l~~n~l~~~--~~~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~------~~~~~L~~L~l~~n~l~-~~  241 (390)
T 3o6n_A          171 QLSSNRLTHV--DLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRG------PVNVELTILKLQHNNLT-DT  241 (390)
T ss_dssp             ECCSSCCSBC--CGGGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEEC------CCCSSCCEEECCSSCCC-CC
T ss_pred             ECCCCcCCcc--ccccccccceeecccccccccCCCCcceEEECCCCeeeeccc------cccccccEEECCCCCCc-cc
Confidence            7776 22221  1333455555554432                  12333322      22356777777776433 22


Q ss_pred             cCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcc
Q 040122          269 VPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLT  348 (388)
Q Consensus       269 ~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  348 (388)
                       ..+..+++|++|+++++ .+...... ....+++|++|++++|. ++.++.        ....+++|++|+++++ .++
T Consensus       242 -~~l~~l~~L~~L~Ls~n-~l~~~~~~-~~~~l~~L~~L~L~~n~-l~~~~~--------~~~~l~~L~~L~L~~n-~l~  308 (390)
T 3o6n_A          242 -AWLLNYPGLVEVDLSYN-ELEKIMYH-PFVKMQRLERLYISNNR-LVALNL--------YGQPIPTLKVLDLSHN-HLL  308 (390)
T ss_dssp             -GGGGGCTTCSEEECCSS-CCCEEESG-GGTTCSSCCEEECCSSC-CCEEEC--------SSSCCTTCCEEECCSS-CCC
T ss_pred             -HHHcCCCCccEEECCCC-cCCCcChh-HccccccCCEEECCCCc-CcccCc--------ccCCCCCCCEEECCCC-cce
Confidence             35667788888888876 45554333 23567888888888764 333322        1234688888888887 466


Q ss_pred             eecCCCccccCCCcceEEeccCCCcccccCCCCCCCCCC
Q 040122          349 SFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       349 ~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                      .++.....  +++|++|++.+|+ ++.+|  +..+++|+
T Consensus       309 ~~~~~~~~--l~~L~~L~L~~N~-i~~~~--~~~~~~L~  342 (390)
T 3o6n_A          309 HVERNQPQ--FDRLENLYLDHNS-IVTLK--LSTHHTLK  342 (390)
T ss_dssp             CCGGGHHH--HTTCSEEECCSSC-CCCCC--CCTTCCCS
T ss_pred             ecCccccc--cCcCCEEECCCCc-cceeC--chhhccCC
Confidence            66654433  7889999998876 55665  44555554

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

Probab=99.83  E-value=1.9e-19  Score=177.85  Aligned_cols=149  Identities=18%  Similarity=0.110  Sum_probs=84.6

Q ss_pred             ccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCccccc-CCccccCCCCEEeeccCcCcccccchhhh
Q 040122          220 KVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLV-PPSWHLENLEALKVSKCHELINVLTLSAS  298 (388)
Q Consensus       220 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~-~~~~~~~~L~~L~l~~c~~l~~~~~~~~~  298 (388)
                      +..+++|+.|+++++ .+..++.. +   ..+++|++|++++|......+ ..+..+++|++|++++|. +...... ..
T Consensus       369 ~~~~~~L~~L~l~~n-~l~~~~~~-~---~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~-~~  441 (570)
T 2z63_A          369 DFGTTSLKYLDLSFN-GVITMSSN-F---LGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH-TRVAFNG-IF  441 (570)
T ss_dssp             HHTCSCCCEEECCSC-SEEEEEEE-E---ETCTTCCEEECTTSEEESCTTSCTTTTCTTCCEEECTTSC-CEECCTT-TT
T ss_pred             ccccCccCEEECCCC-cccccccc-c---cccCCCCEEEccCCccccccchhhhhcCCCCCEEeCcCCc-ccccchh-hh
Confidence            334455555555553 23333322 1   445566666666654333222 245566777777777663 3332222 23


Q ss_pred             cCccccceeeEccccccc-hhhcccccccCCccccccccceEecccCCCccee-cCCCccccCCCcceEEeccCCCcccc
Q 040122          299 KNLVNLGRMMIADCKMIE-QIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSF-CLGNYALEFPSLKQVVVRQCPKMKIF  376 (388)
Q Consensus       299 ~~l~~L~~L~l~~~~~~~-~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~-~~~~~~~~~~~L~~L~l~~c~~l~~l  376 (388)
                      ..+++|++|++++|.... .++.        ....+++|++|++++|. ++.+ +.....  +++|++|++++|. ++.+
T Consensus       442 ~~l~~L~~L~l~~n~l~~~~~p~--------~~~~l~~L~~L~l~~n~-l~~~~~~~~~~--l~~L~~L~l~~n~-l~~~  509 (570)
T 2z63_A          442 NGLSSLEVLKMAGNSFQENFLPD--------IFTELRNLTFLDLSQCQ-LEQLSPTAFNS--LSSLQVLNMASNQ-LKSV  509 (570)
T ss_dssp             TTCTTCCEEECTTCEEGGGEECS--------CCTTCTTCCEEECTTSC-CCEECTTTTTT--CTTCCEEECCSSC-CSCC
T ss_pred             hcCCcCcEEECcCCcCccccchh--------hhhcccCCCEEECCCCc-cccCChhhhhc--ccCCCEEeCCCCc-CCCC
Confidence            567777777777775331 2221        22456889999998874 4444 433332  7899999999875 5555


Q ss_pred             c-CCCCCCCCCC
Q 040122          377 S-QGLLDTPMLN  387 (388)
Q Consensus       377 p-~~~~~~~~L~  387 (388)
                      | ..+.++++|+
T Consensus       510 ~~~~~~~l~~L~  521 (570)
T 2z63_A          510 PDGIFDRLTSLQ  521 (570)
T ss_dssp             CTTTTTTCTTCC
T ss_pred             CHHHhhcccCCc
Confidence            4 4567777775

>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=99.83  E-value=2e-19  Score=173.37  Aligned_cols=280  Identities=17%  Similarity=0.209  Sum_probs=146.5

Q ss_pred             ccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccc
Q 040122           46 KIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEE  125 (388)
Q Consensus        46 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~  125 (388)
                      +..+++|++|+++++. +...+. .    ..+++|++|++++| .+...++   +.++++|++|++++| .+..++..  
T Consensus        64 ~~~l~~L~~L~Ls~n~-l~~~~~-~----~~l~~L~~L~l~~n-~l~~~~~---~~~l~~L~~L~L~~n-~l~~~~~~--  130 (466)
T 1o6v_A           64 VEYLNNLTQINFSNNQ-LTDITP-L----KNLTKLVDILMNNN-QIADITP---LANLTNLTGLTLFNN-QITDIDPL--  130 (466)
T ss_dssp             GGGCTTCCEEECCSSC-CCCCGG-G----TTCTTCCEEECCSS-CCCCCGG---GTTCTTCCEEECCSS-CCCCCGGG--
T ss_pred             hhhhcCCCEEECCCCc-cCCchh-h----hccccCCEEECCCC-ccccChh---hcCCCCCCEEECCCC-CCCCChHH--
Confidence            5568999999999876 664443 2    57899999999988 5666444   789999999999996 45554432  


Q ss_pred             ccccccccCCcCccccEeecccCcccccccC-----------------CCCccccCCCcceEeEecCCCcccccCCccee
Q 040122          126 LSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN-----------------FTGNIIELPKLEYLIIENCPDMETFTSNSTFV  188 (388)
Q Consensus       126 ~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~-----------------~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~  188 (388)
                               ..+++|++|+++++. +..+..                 ....+..+++|++|++++|. ++..+      
T Consensus       131 ---------~~l~~L~~L~l~~n~-l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~------  193 (466)
T 1o6v_A          131 ---------KNLTNLNRLELSSNT-ISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNK-VSDIS------  193 (466)
T ss_dssp             ---------TTCTTCSEEEEEEEE-ECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSC-CCCCG------
T ss_pred             ---------cCCCCCCEEECCCCc-cCCChhhccCCcccEeecCCcccCchhhccCCCCCEEECcCCc-CCCCh------
Confidence                     557777777777653 222210                 00113345555555555542 33221      


Q ss_pred             eecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceeccc-----------------CchhHhh
Q 040122          189 LHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKE-----------------NDESNKA  250 (388)
Q Consensus       189 ~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~-----------------~~~~~~~  250 (388)
                              .+..+++|+.|++++ ....... ++.+++|+.|+++++ .++.++.-                 ..+....
T Consensus       194 --------~l~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n-~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~  263 (466)
T 1o6v_A          194 --------VLAKLTNLESLIATNNQISDITP-LGILTNLDELSLNGN-QLKDIGTLASLTNLTDLDLANNQISNLAPLSG  263 (466)
T ss_dssp             --------GGGGCTTCSEEECCSSCCCCCGG-GGGCTTCCEEECCSS-CCCCCGGGGGCTTCSEEECCSSCCCCCGGGTT
T ss_pred             --------hhccCCCCCEEEecCCccccccc-ccccCCCCEEECCCC-CcccchhhhcCCCCCEEECCCCccccchhhhc
Confidence                    134445555555544 1111111 333444444444443 12222100                 0000133


Q ss_pred             hccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCcc
Q 040122          251 FANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDC  330 (388)
Q Consensus       251 ~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~  330 (388)
                      +++|++|++++|... .++. +..+++|+.|+++++ .+..++.   ...+++|+.|++++|.... +..         .
T Consensus       264 l~~L~~L~l~~n~l~-~~~~-~~~l~~L~~L~L~~n-~l~~~~~---~~~l~~L~~L~L~~n~l~~-~~~---------~  327 (466)
T 1o6v_A          264 LTKLTELKLGANQIS-NISP-LAGLTALTNLELNEN-QLEDISP---ISNLKNLTYLTLYFNNISD-ISP---------V  327 (466)
T ss_dssp             CTTCSEEECCSSCCC-CCGG-GTTCTTCSEEECCSS-CCSCCGG---GGGCTTCSEEECCSSCCSC-CGG---------G
T ss_pred             CCCCCEEECCCCccC-cccc-ccCCCccCeEEcCCC-cccCchh---hcCCCCCCEEECcCCcCCC-chh---------h
Confidence            444445544444222 2221 444555555555554 2333322   2445566666666553221 111         1


Q ss_pred             ccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCCCCCCCCCC
Q 040122          331 NVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       331 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                      ..+++|++|+++++ .++.++ ..  ..+++|++|++.+|+.....|  +..+++|+
T Consensus       328 ~~l~~L~~L~l~~n-~l~~~~-~l--~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~  378 (466)
T 1o6v_A          328 SSLTKLQRLFFYNN-KVSDVS-SL--ANLTNINWLSAGHNQISDLTP--LANLTRIT  378 (466)
T ss_dssp             GGCTTCCEEECCSS-CCCCCG-GG--TTCTTCCEEECCSSCCCBCGG--GTTCTTCC
T ss_pred             ccCccCCEeECCCC-ccCCch-hh--ccCCCCCEEeCCCCccCccch--hhcCCCCC
Confidence            34577777777776 344442 11  236788888888776443333  56666664

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

Probab=99.83  E-value=3.4e-19  Score=171.05  Aligned_cols=306  Identities=11%  Similarity=0.053  Sum_probs=179.3

Q ss_pred             ccCcceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhh
Q 040122           22 KEEGELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLR  101 (388)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~  101 (388)
                      .++++.++..++.+    ..+  .+..+++|++|+++++. +...+      .+.+++|++|++++| .++.+ +   ++
T Consensus        63 l~~L~~L~Ls~n~l----~~~--~~~~l~~L~~L~Ls~N~-l~~~~------~~~l~~L~~L~L~~N-~l~~l-~---~~  124 (457)
T 3bz5_A           63 LTGLTKLICTSNNI----TTL--DLSQNTNLTYLACDSNK-LTNLD------VTPLTKLTYLNCDTN-KLTKL-D---VS  124 (457)
T ss_dssp             CTTCSEEECCSSCC----SCC--CCTTCTTCSEEECCSSC-CSCCC------CTTCTTCCEEECCSS-CCSCC-C---CT
T ss_pred             cCCCCEEEccCCcC----CeE--ccccCCCCCEEECcCCC-Cceee------cCCCCcCCEEECCCC-cCCee-c---CC
Confidence            34455565655322    112  26677888888888775 55432      245888888888887 56663 3   67


Q ss_pred             cCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccc
Q 040122          102 CLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       102 ~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                      ++++|++|++++|. +..++            +..+++|++|+++++..++.+    . +..+++|++|+++++ .++.+
T Consensus       125 ~l~~L~~L~l~~N~-l~~l~------------l~~l~~L~~L~l~~n~~~~~~----~-~~~l~~L~~L~ls~n-~l~~l  185 (457)
T 3bz5_A          125 QNPLLTYLNCARNT-LTEID------------VSHNTQLTELDCHLNKKITKL----D-VTPQTQLTTLDCSFN-KITEL  185 (457)
T ss_dssp             TCTTCCEEECTTSC-CSCCC------------CTTCTTCCEEECTTCSCCCCC----C-CTTCTTCCEEECCSS-CCCCC
T ss_pred             CCCcCCEEECCCCc-cceec------------cccCCcCCEEECCCCCccccc----c-cccCCcCCEEECCCC-cccee
Confidence            88888888888853 33331            245677777777766555444    1 445667777777665 44444


Q ss_pred             cCCcce-eeec--cc---CCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhc--
Q 040122          182 TSNSTF-VLHM--TA---DNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFA--  252 (388)
Q Consensus       182 ~~~~~~-~~~l--~~---~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~--  252 (388)
                      +..... +..+  ..   ....++.+++|+.|++++ ....++  ++.+++|+.|+++++ .++.++.      ..++  
T Consensus       186 ~l~~l~~L~~L~l~~N~l~~~~l~~l~~L~~L~Ls~N~l~~ip--~~~l~~L~~L~l~~N-~l~~~~~------~~l~~L  256 (457)
T 3bz5_A          186 DVSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEID--VTPLTQLTYFDCSVN-PLTELDV------STLSKL  256 (457)
T ss_dssp             CCTTCTTCCEEECCSSCCSCCCCTTCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSS-CCSCCCC------TTCTTC
T ss_pred             ccccCCCCCEEECcCCcCCeeccccCCCCCEEECcCCcccccC--ccccCCCCEEEeeCC-cCCCcCH------HHCCCC
Confidence            422211 1111  11   111477899999999998 444444  778999999999985 5666553      3344  


Q ss_pred             --------cccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhccccc
Q 040122          253 --------NLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVG  324 (388)
Q Consensus       253 --------~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~  324 (388)
                              +|+.|++++|.....+|  ...+++|+.|++++|..+..++.     ..++|+.|++++|+.++.+......
T Consensus       257 ~~L~l~~n~L~~L~l~~n~~~~~~~--~~~l~~L~~L~Ls~n~~l~~l~~-----~~~~L~~L~l~~~~~L~~L~L~~N~  329 (457)
T 3bz5_A          257 TTLHCIQTDLLEIDLTHNTQLIYFQ--AEGCRKIKELDVTHNTQLYLLDC-----QAAGITELDLSQNPKLVYLYLNNTE  329 (457)
T ss_dssp             CEEECTTCCCSCCCCTTCTTCCEEE--CTTCTTCCCCCCTTCTTCCEEEC-----TTCCCSCCCCTTCTTCCEEECTTCC
T ss_pred             CEEeccCCCCCEEECCCCccCCccc--ccccccCCEEECCCCcccceecc-----CCCcceEechhhcccCCEEECCCCc
Confidence                    45556666666666665  46789999999999976655432     2233444444444433333222222


Q ss_pred             ccCCccccccccceEecccCCCcceec------CCCcc----ccCCCcceEEeccCCCcccccCCCC
Q 040122          325 EEAKDCNVFKELEYLGLDCLPSLTSFC------LGNYA----LEFPSLKQVVVRQCPKMKIFSQGLL  381 (388)
Q Consensus       325 ~~~~~~~~~~~L~~L~l~~~~~l~~~~------~~~~~----~~~~~L~~L~l~~c~~l~~lp~~~~  381 (388)
                      +..++...+++|+.|+++++ .++.++      .....    -.+..|+.++++...--..+|..+.
T Consensus       330 l~~l~l~~l~~L~~L~l~~N-~l~~l~~L~~L~l~~n~l~g~~~~~~l~~l~l~~N~l~g~ip~~~~  395 (457)
T 3bz5_A          330 LTELDVSHNTKLKSLSCVNA-HIQDFSSVGKIPALNNNFEAEGQTITMPKETLTNNSLTIAVSPDLL  395 (457)
T ss_dssp             CSCCCCTTCTTCSEEECCSS-CCCBCTTGGGSSGGGTSEEEEEEEEECCCBCCBTTBEEEECCTTCB
T ss_pred             ccccccccCCcCcEEECCCC-CCCCccccccccccCCcEEecceeeecCccccccCcEEEEcChhHh
Confidence            22233466789999999875 233321      11100    0134556666666544446665543

>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=99.83  E-value=1.7e-19  Score=165.73  Aligned_cols=223  Identities=15%  Similarity=0.181  Sum_probs=110.6

Q ss_pred             cCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccc
Q 040122          102 CLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       102 ~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                      ..+++++|+++++ .+..+|..          +..+++|++|+++++. +..+  +.. ++.+++|++|++++| .++.+
T Consensus        79 ~~~~l~~L~L~~n-~l~~lp~~----------l~~l~~L~~L~L~~n~-l~~l--p~~-~~~l~~L~~L~Ls~n-~l~~l  142 (328)
T 4fcg_A           79 TQPGRVALELRSV-PLPQFPDQ----------AFRLSHLQHMTIDAAG-LMEL--PDT-MQQFAGLETLTLARN-PLRAL  142 (328)
T ss_dssp             TSTTCCEEEEESS-CCSSCCSC----------GGGGTTCSEEEEESSC-CCCC--CSC-GGGGTTCSEEEEESC-CCCCC
T ss_pred             cccceeEEEccCC-CchhcChh----------hhhCCCCCEEECCCCC-ccch--hHH-HhccCCCCEEECCCC-ccccC
Confidence            4577888888884 45555543          2447788888887764 3444  333 667888888888886 45544


Q ss_pred             cCCcceeeecccCCCccccccCCceEEEec--ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEE
Q 040122          182 TSNSTFVLHMTADNKEPQKLKSEENLLVAN--QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEI  259 (388)
Q Consensus       182 ~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~--~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i  259 (388)
                      +..             ++.+++|+.|++++  ....++..++.      ..+.          .   ....+++|++|++
T Consensus       143 p~~-------------l~~l~~L~~L~L~~n~~~~~~p~~~~~------~~~~----------~---~~~~l~~L~~L~L  190 (328)
T 4fcg_A          143 PAS-------------IASLNRLRELSIRACPELTELPEPLAS------TDAS----------G---EHQGLVNLQSLRL  190 (328)
T ss_dssp             CGG-------------GGGCTTCCEEEEEEETTCCCCCSCSEE------EC-C----------C---CEEESTTCCEEEE
T ss_pred             cHH-------------HhcCcCCCEEECCCCCCccccChhHhh------ccch----------h---hhccCCCCCEEEC
Confidence            432             56666666666665  22333332221      0000          0   0012344444444


Q ss_pred             ecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceE
Q 040122          260 SECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYL  339 (388)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L  339 (388)
                      ++|. +..+|..+..+++|++|+++++ .+..++..  ...+++|++|++++|...+.++.        ....+++|++|
T Consensus       191 ~~n~-l~~lp~~l~~l~~L~~L~L~~N-~l~~l~~~--l~~l~~L~~L~Ls~n~~~~~~p~--------~~~~l~~L~~L  258 (328)
T 4fcg_A          191 EWTG-IRSLPASIANLQNLKSLKIRNS-PLSALGPA--IHHLPKLEELDLRGCTALRNYPP--------IFGGRAPLKRL  258 (328)
T ss_dssp             EEEC-CCCCCGGGGGCTTCCEEEEESS-CCCCCCGG--GGGCTTCCEEECTTCTTCCBCCC--------CTTCCCCCCEE
T ss_pred             cCCC-cCcchHhhcCCCCCCEEEccCC-CCCcCchh--hccCCCCCEEECcCCcchhhhHH--------HhcCCCCCCEE
Confidence            4442 2244444444455555555443 23332221  23444555555555444333322        11233455555


Q ss_pred             ecccCCCcceecCCCccccCCCcceEEeccCCCcccccCCCCCCCCC
Q 040122          340 GLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPML  386 (388)
Q Consensus       340 ~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L  386 (388)
                      ++++|+..+.++.....  +++|++|++++|+.++.+|.++.++++|
T Consensus       259 ~L~~n~~~~~~p~~~~~--l~~L~~L~L~~n~~~~~iP~~l~~L~~L  303 (328)
T 4fcg_A          259 ILKDCSNLLTLPLDIHR--LTQLEKLDLRGCVNLSRLPSLIAQLPAN  303 (328)
T ss_dssp             ECTTCTTCCBCCTTGGG--CTTCCEEECTTCTTCCCCCGGGGGSCTT
T ss_pred             ECCCCCchhhcchhhhc--CCCCCEEeCCCCCchhhccHHHhhccCc
Confidence            55555444444443322  4555555555555555555555555444

>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=99.83  E-value=3.8e-19  Score=176.74  Aligned_cols=280  Identities=15%  Similarity=0.156  Sum_probs=180.4

Q ss_pred             cCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccc
Q 040122           47 IGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEEL  126 (388)
Q Consensus        47 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~  126 (388)
                      ..+++|++|+++++. +..++...   ...+++|++|++++| .+...++. .++++++|++|++++| .+..++...  
T Consensus        72 ~~l~~L~~L~L~~n~-l~~~~~~~---~~~l~~L~~L~L~~n-~l~~~~~~-~~~~l~~L~~L~L~~n-~l~~l~~~~--  142 (597)
T 3oja_B           72 DSFRQVELLNLNDLQ-IEEIDTYA---FAYAHTIQKLYMGFN-AIRYLPPH-VFQNVPLLTVLVLERN-DLSSLPRGI--  142 (597)
T ss_dssp             HHCCCCSEEECTTSC-CCEECTTT---TTTCTTCCEEECCSS-CCCCCCTT-TTTTCTTCCEEECCSS-CCCCCCTTT--
T ss_pred             ccCCCCcEEECCCCC-CCCCChHH---hcCCCCCCEEECCCC-cCCCCCHH-HHcCCCCCCEEEeeCC-CCCCCCHHH--
Confidence            457889999999876 66544322   256889999999988 57765544 3788999999999986 455554421  


Q ss_pred             cccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcce-eeecccCC---Ccccccc
Q 040122          127 SAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTF-VLHMTADN---KEPQKLK  202 (388)
Q Consensus       127 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~-~~~l~~~~---~~l~~l~  202 (388)
                             +..+++|++|+++++. +..+  +...++.+++|++|+++++ .++..+....+ +..+...+   ..+...+
T Consensus       143 -------~~~l~~L~~L~Ls~N~-l~~~--~~~~~~~l~~L~~L~L~~N-~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~  211 (597)
T 3oja_B          143 -------FHNTPKLTTLSMSNNN-LERI--EDDTFQATTSLQNLQLSSN-RLTHVDLSLIPSLFHANVSYNLLSTLAIPI  211 (597)
T ss_dssp             -------TTTCTTCCEEECCSSC-CCBC--CTTTTTTCTTCCEEECTTS-CCSBCCGGGCTTCSEEECCSSCCSEEECCT
T ss_pred             -------hccCCCCCEEEeeCCc-CCCC--ChhhhhcCCcCcEEECcCC-CCCCcChhhhhhhhhhhcccCccccccCCc
Confidence                   3568899999998874 4444  2333678899999999887 45554322110 00111100   1233344


Q ss_pred             CCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEE
Q 040122          203 SEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEAL  281 (388)
Q Consensus       203 ~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L  281 (388)
                      +|+.|++++ ....++..  .+++|+.|+++++ .++..+     ....+++|+.|++++|......|..+..+++|++|
T Consensus       212 ~L~~L~ls~n~l~~~~~~--~~~~L~~L~L~~n-~l~~~~-----~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L  283 (597)
T 3oja_B          212 AVEELDASHNSINVVRGP--VNVELTILKLQHN-NLTDTA-----WLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERL  283 (597)
T ss_dssp             TCSEEECCSSCCCEEECS--CCSCCCEEECCSS-CCCCCG-----GGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEE
T ss_pred             hhheeeccCCcccccccc--cCCCCCEEECCCC-CCCCCh-----hhccCCCCCEEECCCCccCCCCHHHhcCccCCCEE
Confidence            566666655 22222221  2357788888775 344432     22677888888888887666666677788888888


Q ss_pred             eeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCC
Q 040122          282 KVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPS  361 (388)
Q Consensus       282 ~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~  361 (388)
                      +++++ .+..++..  ...+++|+.|++++|.. ..++.        ....+++|++|+++++. +..++.+.    +++
T Consensus       284 ~Ls~N-~l~~l~~~--~~~l~~L~~L~Ls~N~l-~~i~~--------~~~~l~~L~~L~L~~N~-l~~~~~~~----~~~  346 (597)
T 3oja_B          284 YISNN-RLVALNLY--GQPIPTLKVLDLSHNHL-LHVER--------NQPQFDRLENLYLDHNS-IVTLKLST----HHT  346 (597)
T ss_dssp             ECTTS-CCCEEECS--SSCCTTCCEEECCSSCC-CCCGG--------GHHHHTTCSEEECCSSC-CCCCCCCT----TCC
T ss_pred             ECCCC-CCCCCCcc--cccCCCCcEEECCCCCC-CccCc--------ccccCCCCCEEECCCCC-CCCcChhh----cCC
Confidence            88886 55555332  25678888888888753 34433        22456888888888864 55555433    788


Q ss_pred             cceEEeccCC
Q 040122          362 LKQVVVRQCP  371 (388)
Q Consensus       362 L~~L~l~~c~  371 (388)
                      |++|++++|+
T Consensus       347 L~~L~l~~N~  356 (597)
T 3oja_B          347 LKNLTLSHND  356 (597)
T ss_dssp             CSEEECCSSC
T ss_pred             CCEEEeeCCC
Confidence            8888888876

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.82  E-value=6.8e-19  Score=162.11  Aligned_cols=279  Identities=13%  Similarity=0.093  Sum_probs=155.5

Q ss_pred             CcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccc
Q 040122           51 DINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKE  130 (388)
Q Consensus        51 ~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  130 (388)
                      +++.++++++. +..++..      ..+++++|++++| .++.+++.. +.++++|++|++++|. +..++...      
T Consensus        34 ~l~~l~~~~~~-l~~ip~~------~~~~l~~L~l~~n-~i~~~~~~~-~~~l~~L~~L~L~~n~-l~~~~~~~------   97 (332)
T 2ft3_A           34 HLRVVQCSDLG-LKAVPKE------ISPDTTLLDLQNN-DISELRKDD-FKGLQHLYALVLVNNK-ISKIHEKA------   97 (332)
T ss_dssp             ETTEEECCSSC-CSSCCSC------CCTTCCEEECCSS-CCCEECTTT-TTTCTTCCEEECCSSC-CCEECGGG------
T ss_pred             cCCEEECCCCC-ccccCCC------CCCCCeEEECCCC-cCCccCHhH-hhCCCCCcEEECCCCc-cCccCHhH------
Confidence            56777766554 4433322      2467777777776 455544433 6777777777777753 44432210      


Q ss_pred             cccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEe
Q 040122          131 EHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVA  210 (388)
Q Consensus       131 ~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~  210 (388)
                         +..+++|++|+++++ .++.+  +..   ..++|++|++.++ .++.++...            +..+++|+.|+++
T Consensus        98 ---~~~l~~L~~L~L~~n-~l~~l--~~~---~~~~L~~L~l~~n-~i~~~~~~~------------~~~l~~L~~L~l~  155 (332)
T 2ft3_A           98 ---FSPLRKLQKLYISKN-HLVEI--PPN---LPSSLVELRIHDN-RIRKVPKGV------------FSGLRNMNCIEMG  155 (332)
T ss_dssp             ---STTCTTCCEEECCSS-CCCSC--CSS---CCTTCCEEECCSS-CCCCCCSGG------------GSSCSSCCEEECC
T ss_pred             ---hhCcCCCCEEECCCC-cCCcc--Ccc---ccccCCEEECCCC-ccCccCHhH------------hCCCccCCEEECC
Confidence               355777777777765 34444  222   1267777777775 455554432            5667777777777


Q ss_pred             c-cc---ccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          211 N-QI---QHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       211 ~-~~---~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                      + ..   ...+..+..+ +|+.|+++++ .++.++..      ..++|++|+++++......+..+..+++|++|+++++
T Consensus       156 ~n~l~~~~~~~~~~~~l-~L~~L~l~~n-~l~~l~~~------~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N  227 (332)
T 2ft3_A          156 GNPLENSGFEPGAFDGL-KLNYLRISEA-KLTGIPKD------LPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHN  227 (332)
T ss_dssp             SCCCBGGGSCTTSSCSC-CCSCCBCCSS-BCSSCCSS------SCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSS
T ss_pred             CCccccCCCCcccccCC-ccCEEECcCC-CCCccCcc------ccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCC
Confidence            6 21   1223333444 6777777764 35555432      2256777777776544443455666777777777765


Q ss_pred             cCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCcc-----ccCCC
Q 040122          287 HELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYA-----LEFPS  361 (388)
Q Consensus       287 ~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~-----~~~~~  361 (388)
                       .+..++... ...+++|++|++++|. +..++.        ....+++|++|+++++ .++.++.....     ...++
T Consensus       228 -~l~~~~~~~-~~~l~~L~~L~L~~N~-l~~lp~--------~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~~~~~~~  295 (332)
T 2ft3_A          228 -QIRMIENGS-LSFLPTLRELHLDNNK-LSRVPA--------GLPDLKLLQVVYLHTN-NITKVGVNDFCPVGFGVKRAY  295 (332)
T ss_dssp             -CCCCCCTTG-GGGCTTCCEEECCSSC-CCBCCT--------TGGGCTTCCEEECCSS-CCCBCCTTSSSCSSCCSSSCC
T ss_pred             -cCCcCChhH-hhCCCCCCEEECCCCc-CeecCh--------hhhcCccCCEEECCCC-CCCccChhHcccccccccccc
Confidence             454443322 2466777777777663 333332        1244567777777765 35554432211     01456


Q ss_pred             cceEEeccCCCc--ccccCCCCCCCCCC
Q 040122          362 LKQVVVRQCPKM--KIFSQGLLDTPMLN  387 (388)
Q Consensus       362 L~~L~l~~c~~l--~~lp~~~~~~~~L~  387 (388)
                      |+.+++.++|..  ...|..+..+++|+
T Consensus       296 l~~L~l~~N~~~~~~~~~~~~~~l~~L~  323 (332)
T 2ft3_A          296 YNGISLFNNPVPYWEVQPATFRCVTDRL  323 (332)
T ss_dssp             BSEEECCSSSSCGGGSCGGGGTTBCCST
T ss_pred             ccceEeecCcccccccCcccccccchhh
Confidence            777777777643  23344445555544

>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=99.82  E-value=1e-18  Score=172.47  Aligned_cols=133  Identities=14%  Similarity=0.133  Sum_probs=76.4

Q ss_pred             hhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccc-hhhhcCccccceeeEccccccchhhccc-cccc-
Q 040122          250 AFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLT-LSASKNLVNLGRMMIADCKMIEQIIQLQ-VGEE-  326 (388)
Q Consensus       250 ~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~-~~~~-  326 (388)
                      .+++|++|++++|.....++..+..+++|++|+++++ .++.++. ......+++|++|++++|.....++... .+.. 
T Consensus       351 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~  429 (562)
T 3a79_B          351 SPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRN-GLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAES  429 (562)
T ss_dssp             SCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSS-CCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTT
T ss_pred             CCCCceEEECCCCccccchhhhhcccCCCCEEECCCC-CcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCccc
Confidence            4456667777666555545556666666666666664 3443321 1123455666666666654322122100 0000 


Q ss_pred             ------------CCccccc-cccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCC-CCCCCCCC
Q 040122          327 ------------AKDCNVF-KELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQG-LLDTPMLN  387 (388)
Q Consensus       327 ------------~~~~~~~-~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~-~~~~~~L~  387 (388)
                                  ......+ ++|++|+++++ .++.++.+..  .+++|++|++.+|. ++.+|.+ +..+++|+
T Consensus       430 L~~L~l~~n~l~~~~~~~l~~~L~~L~L~~N-~l~~ip~~~~--~l~~L~~L~L~~N~-l~~l~~~~~~~l~~L~  500 (562)
T 3a79_B          430 ILVLNLSSNMLTGSVFRCLPPKVKVLDLHNN-RIMSIPKDVT--HLQALQELNVASNQ-LKSVPDGVFDRLTSLQ  500 (562)
T ss_dssp             CCEEECCSSCCCGGGGSSCCTTCSEEECCSS-CCCCCCTTTT--SSCCCSEEECCSSC-CCCCCTTSTTTCTTCC
T ss_pred             CCEEECCCCCCCcchhhhhcCcCCEEECCCC-cCcccChhhc--CCCCCCEEECCCCC-CCCCCHHHHhcCCCCC
Confidence                        0000122 57888888876 5777776664  37899999998864 6788877 77777775

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

Probab=99.81  E-value=6.6e-19  Score=173.98  Aligned_cols=176  Identities=14%  Similarity=0.076  Sum_probs=90.8

Q ss_pred             cccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccC
Q 040122          198 PQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLE  276 (388)
Q Consensus       198 l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~  276 (388)
                      +..+++|+.|++++ ....++..+..+ +|++|++.++. +..++.      ..+++|++|++.++......+.  ..++
T Consensus       278 ~~~l~~L~~L~l~~~~l~~l~~~~~~~-~L~~L~l~~n~-~~~l~~------~~l~~L~~L~l~~n~~~~~~~~--~~~~  347 (570)
T 2z63_A          278 FNCLTNVSSFSLVSVTIERVKDFSYNF-GWQHLELVNCK-FGQFPT------LKLKSLKRLTFTSNKGGNAFSE--VDLP  347 (570)
T ss_dssp             TGGGTTCSEEEEESCEECSCCBCCSCC-CCSEEEEESCB-CSSCCB------CBCSSCCEEEEESCBSCCBCCC--CBCT
T ss_pred             hcCcCcccEEEecCccchhhhhhhccC-CccEEeeccCc-ccccCc------ccccccCEEeCcCCcccccccc--ccCC
Confidence            44556677777666 333455545555 66666666642 333332      3345666666666543333222  4556


Q ss_pred             CCCEEeeccCcCcccccc-hhhhcCccccceeeEccccccchhhcc-------------cccc----cCCccccccccce
Q 040122          277 NLEALKVSKCHELINVLT-LSASKNLVNLGRMMIADCKMIEQIIQL-------------QVGE----EAKDCNVFKELEY  338 (388)
Q Consensus       277 ~L~~L~l~~c~~l~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~-------------~~~~----~~~~~~~~~~L~~  338 (388)
                      +|++|+++++ .+..... ......+++|++|++++|... .++..             ...+    .......+++|++
T Consensus       348 ~L~~L~l~~n-~l~~~~~~~~~~~~~~~L~~L~l~~n~l~-~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~  425 (570)
T 2z63_A          348 SLEFLDLSRN-GLSFKGCCSQSDFGTTSLKYLDLSFNGVI-TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIY  425 (570)
T ss_dssp             TCCEEECCSS-CCBEEEEEEHHHHTCSCCCEEECCSCSEE-EEEEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTCCE
T ss_pred             CCCEEeCcCC-ccCccccccccccccCccCEEECCCCccc-cccccccccCCCCEEEccCCccccccchhhhhcCCCCCE
Confidence            6666666654 2222210 111234455555555544311 11100             0000    0001234577888


Q ss_pred             EecccCCCcceecCCCccccCCCcceEEeccCCCc-ccccCCCCCCCCCC
Q 040122          339 LGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKM-KIFSQGLLDTPMLN  387 (388)
Q Consensus       339 L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l-~~lp~~~~~~~~L~  387 (388)
                      |+++++......+....  .+++|++|++.+|... ..+|..+..+++|+
T Consensus       426 L~l~~n~l~~~~~~~~~--~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~  473 (570)
T 2z63_A          426 LDISHTHTRVAFNGIFN--GLSSLEVLKMAGNSFQENFLPDIFTELRNLT  473 (570)
T ss_dssp             EECTTSCCEECCTTTTT--TCTTCCEEECTTCEEGGGEECSCCTTCTTCC
T ss_pred             EeCcCCcccccchhhhh--cCCcCcEEECcCCcCccccchhhhhcccCCC
Confidence            88877743333333332  2788999999888754 36888888888776

>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=99.81  E-value=6.1e-19  Score=175.24  Aligned_cols=281  Identities=15%  Similarity=0.137  Sum_probs=183.2

Q ss_pred             CCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccc
Q 040122           48 GFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELS  127 (388)
Q Consensus        48 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~  127 (388)
                      .+.+++.++++++. +..++...   ...+++|++|++++| .+..+++.. ++.+++|++|++++|. +..+++..   
T Consensus        49 ~l~~l~~l~l~~~~-l~~lp~~~---~~~l~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~L~~n~-l~~~~~~~---  118 (597)
T 3oja_B           49 TLNNQKIVTFKNST-MRKLPAAL---LDSFRQVELLNLNDL-QIEEIDTYA-FAYAHTIQKLYMGFNA-IRYLPPHV---  118 (597)
T ss_dssp             GGCCCSEEEESSCE-ESEECTHH---HHHCCCCSEEECTTS-CCCEECTTT-TTTCTTCCEEECCSSC-CCCCCTTT---
T ss_pred             cCCCceEEEeeCCC-CCCcCHHH---HccCCCCcEEECCCC-CCCCCChHH-hcCCCCCCEEECCCCc-CCCCCHHH---
Confidence            45788999998775 55554332   145899999999998 677755544 8899999999999964 55543321   


Q ss_pred             ccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceE
Q 040122          128 AKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENL  207 (388)
Q Consensus       128 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L  207 (388)
                            +..+++|++|+++++ .+..+  +...++.+++|++|++++| .++..++..            ++.+++|+.|
T Consensus       119 ------~~~l~~L~~L~L~~n-~l~~l--~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~------------~~~l~~L~~L  176 (597)
T 3oja_B          119 ------FQNVPLLTVLVLERN-DLSSL--PRGIFHNTPKLTTLSMSNN-NLERIEDDT------------FQATTSLQNL  176 (597)
T ss_dssp             ------TTTCTTCCEEECCSS-CCCCC--CTTTTTTCTTCCEEECCSS-CCCBCCTTT------------TTTCTTCCEE
T ss_pred             ------HcCCCCCCEEEeeCC-CCCCC--CHHHhccCCCCCEEEeeCC-cCCCCChhh------------hhcCCcCcEE
Confidence                  467899999999987 45665  3343568999999999997 566666543            6677777777


Q ss_pred             EEec-ccccccccccCCCCcceEEecCC------------------CCcceecccCchhHhhhccccEEEEecCCCcccc
Q 040122          208 LVAN-QIQHLFDEKVAFPQLGNLRLSGL------------------HKVQHLWKENDESNKAFANLERLEISECSKLQKL  268 (388)
Q Consensus       208 ~l~~-~~~~~~~~~~~~~~L~~L~l~~~------------------~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~  268 (388)
                      ++++ ....+  ..+.+++|+.|+++++                  ..+..++.      ...++|+.|++++|....  
T Consensus       177 ~L~~N~l~~~--~~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~------~~~~~L~~L~L~~n~l~~--  246 (597)
T 3oja_B          177 QLSSNRLTHV--DLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRG------PVNVELTILKLQHNNLTD--  246 (597)
T ss_dssp             ECTTSCCSBC--CGGGCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEEC------SCCSCCCEEECCSSCCCC--
T ss_pred             ECcCCCCCCc--ChhhhhhhhhhhcccCccccccCCchhheeeccCCccccccc------ccCCCCCEEECCCCCCCC--
Confidence            7776 22222  1334555555555442                  12333322      223567777777764332  


Q ss_pred             cCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcc
Q 040122          269 VPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLT  348 (388)
Q Consensus       269 ~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  348 (388)
                      +..+..+++|+.|+++++ .+....... ...+++|+.|++++|. +..++.        ....+++|+.|+++++ .+.
T Consensus       247 ~~~l~~l~~L~~L~Ls~N-~l~~~~~~~-~~~l~~L~~L~Ls~N~-l~~l~~--------~~~~l~~L~~L~Ls~N-~l~  314 (597)
T 3oja_B          247 TAWLLNYPGLVEVDLSYN-ELEKIMYHP-FVKMQRLERLYISNNR-LVALNL--------YGQPIPTLKVLDLSHN-HLL  314 (597)
T ss_dssp             CGGGGGCTTCSEEECCSS-CCCEEESGG-GTTCSSCCEEECTTSC-CCEEEC--------SSSCCTTCCEEECCSS-CCC
T ss_pred             ChhhccCCCCCEEECCCC-ccCCCCHHH-hcCccCCCEEECCCCC-CCCCCc--------ccccCCCCcEEECCCC-CCC
Confidence            245677788888888876 455543332 3577888888888764 333332        1234688888888886 455


Q ss_pred             eecCCCccccCCCcceEEeccCCCcccccCCCCCCCCCC
Q 040122          349 SFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       349 ~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                      .++.....  +++|++|++++|+ ++.+|  +..+++|+
T Consensus       315 ~i~~~~~~--l~~L~~L~L~~N~-l~~~~--~~~~~~L~  348 (597)
T 3oja_B          315 HVERNQPQ--FDRLENLYLDHNS-IVTLK--LSTHHTLK  348 (597)
T ss_dssp             CCGGGHHH--HTTCSEEECCSSC-CCCCC--CCTTCCCS
T ss_pred             ccCccccc--CCCCCEEECCCCC-CCCcC--hhhcCCCC
Confidence            66655433  7889999998876 45554  44455554

>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=99.81  E-value=1.2e-19  Score=178.65  Aligned_cols=118  Identities=16%  Similarity=0.214  Sum_probs=78.1

Q ss_pred             hhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEecccccccee--c
Q 040122           44 DEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEV--L  121 (388)
Q Consensus        44 ~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i--~  121 (388)
                      ..+..+++|++|+++++. +.......   ...+++|++|++++| .+...++. .++++++|++|++++|. +..+  +
T Consensus        44 ~~~~~l~~L~~L~Ls~n~-i~~~~~~~---~~~l~~L~~L~Ls~n-~l~~~~~~-~~~~l~~L~~L~Ls~n~-l~~~~~~  116 (549)
T 2z81_A           44 GDLRACANLQVLILKSSR-INTIEGDA---FYSLGSLEHLDLSDN-HLSSLSSS-WFGPLSSLKYLNLMGNP-YQTLGVT  116 (549)
T ss_dssp             STTSSCTTCCEEECTTSC-CCEECTTT---TTTCTTCCEEECTTS-CCCSCCHH-HHTTCTTCCEEECTTCC-CSSSCSS
T ss_pred             hhhhcCCcccEEECCCCC-cCccChhh---ccccccCCEEECCCC-ccCccCHH-HhccCCCCcEEECCCCc-ccccchh
Confidence            356677888888888775 55444322   146788888888887 56664443 37788888888888863 3322  1


Q ss_pred             ccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccc
Q 040122          122 HLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                      ..          +..+++|++|+++++..++.+  +...+..+++|++|++.++ .++..
T Consensus       117 ~~----------~~~l~~L~~L~L~~n~~~~~~--~~~~~~~l~~L~~L~L~~n-~l~~~  163 (549)
T 2z81_A          117 SL----------FPNLTNLQTLRIGNVETFSEI--RRIDFAGLTSLNELEIKAL-SLRNY  163 (549)
T ss_dssp             CS----------CTTCTTCCEEEEEESSSCCEE--CTTTTTTCCEEEEEEEEET-TCCEE
T ss_pred             hh----------hhccCCccEEECCCCcccccc--CHhhhhcccccCeeeccCC-ccccc
Confidence            11          356788888888877655655  3233667888888888886 45443

>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=99.81  E-value=2.9e-19  Score=175.79  Aligned_cols=163  Identities=20%  Similarity=0.177  Sum_probs=93.2

Q ss_pred             cccCCceEEEec-cc-ccc---cccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccc
Q 040122          200 KLKSEENLLVAN-QI-QHL---FDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWH  274 (388)
Q Consensus       200 ~l~~L~~L~l~~-~~-~~~---~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~  274 (388)
                      .+++|+.|++++ .. +..   ...++.+++|+.|+++++ .++.++... .....+++|++|++++| .+..+|..+..
T Consensus       332 ~l~~L~~L~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~-~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~  408 (549)
T 2z81_A          332 HLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQN-HLRSMQKTG-EILLTLKNLTSLDISRN-TFHPMPDSCQW  408 (549)
T ss_dssp             HCTTCCEEECCSSCCCHHHHHHHTCTTSSTTCCEEECTTS-CCCCHHHHH-HHGGGCTTCCEEECTTC-CCCCCCSCCCC
T ss_pred             cCccccEEEccCCccccccccchhhhhccccCcEEEccCC-cccccccch-hhhhcCCCCCEEECCCC-CCccCChhhcc
Confidence            466677777766 11 112   223456677777777764 344432100 01256677888888777 34566766777


Q ss_pred             cCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCC
Q 040122          275 LENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGN  354 (388)
Q Consensus       275 ~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  354 (388)
                      +++|++|+++++ .++.++..    ..++|+.|++++|. ++.++           ..+++|++|+++++ .++.++...
T Consensus       409 ~~~L~~L~Ls~N-~l~~l~~~----~~~~L~~L~Ls~N~-l~~~~-----------~~l~~L~~L~Ls~N-~l~~ip~~~  470 (549)
T 2z81_A          409 PEKMRFLNLSST-GIRVVKTC----IPQTLEVLDVSNNN-LDSFS-----------LFLPRLQELYISRN-KLKTLPDAS  470 (549)
T ss_dssp             CTTCCEEECTTS-CCSCCCTT----SCTTCSEEECCSSC-CSCCC-----------CCCTTCCEEECCSS-CCSSCCCGG
T ss_pred             cccccEEECCCC-Ccccccch----hcCCceEEECCCCC-hhhhc-----------ccCChhcEEECCCC-ccCcCCCcc
Confidence            777888888776 34443221    12456666666663 22221           24577777777776 455665432


Q ss_pred             ccccCCCcceEEeccCCCccccc-CCCCCCCCCC
Q 040122          355 YALEFPSLKQVVVRQCPKMKIFS-QGLLDTPMLN  387 (388)
Q Consensus       355 ~~~~~~~L~~L~l~~c~~l~~lp-~~~~~~~~L~  387 (388)
                         .+++|++|++++|. ++.+| ..+.++++|+
T Consensus       471 ---~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~  500 (549)
T 2z81_A          471 ---LFPVLLVMKISRNQ-LKSVPDGIFDRLTSLQ  500 (549)
T ss_dssp             ---GCTTCCEEECCSSC-CCCCCTTGGGGCTTCC
T ss_pred             ---cCccCCEEecCCCc-cCCcCHHHHhcCcccC
Confidence               26778888887764 44443 3456666654

>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=99.81  E-value=1.1e-18  Score=170.63  Aligned_cols=123  Identities=15%  Similarity=0.178  Sum_probs=72.3

Q ss_pred             ccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccc--hhhcccccccCCc
Q 040122          252 ANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIE--QIIQLQVGEEAKD  329 (388)
Q Consensus       252 ~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~--~~~~~~~~~~~~~  329 (388)
                      .+|+.|++++|.... .+ ....+++|++|+++++ .+...... ...++++|++|++++|....  .++.        .
T Consensus       302 ~~L~~L~l~~n~l~~-~~-~~~~l~~L~~L~Ls~n-~l~~~~~~-~~~~l~~L~~L~L~~N~l~~l~~~~~--------~  369 (520)
T 2z7x_B          302 MNIKNFTVSGTRMVH-ML-CPSKISPFLHLDFSNN-LLTDTVFE-NCGHLTELETLILQMNQLKELSKIAE--------M  369 (520)
T ss_dssp             CCCSEEEEESSCCCC-CC-CCSSCCCCCEEECCSS-CCCTTTTT-TCCCCSSCCEEECCSSCCCBHHHHHH--------H
T ss_pred             CceeEEEcCCCcccc-cc-chhhCCcccEEEeECC-ccChhhhh-hhccCCCCCEEEccCCccCccccchH--------H
Confidence            458888888875332 22 1257899999999997 45553222 33789999999999986432  2221        1


Q ss_pred             cccccccceEecccCCCcceecCCCc-c-------------------ccC-CCcceEEeccCCCcccccCCCCCCCCCC
Q 040122          330 CNVFKELEYLGLDCLPSLTSFCLGNY-A-------------------LEF-PSLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       330 ~~~~~~L~~L~l~~~~~l~~~~~~~~-~-------------------~~~-~~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                      ...+++|++|+++++..-..++.+.. .                   ..+ ++|++|++++| +++.+|.++.++++|+
T Consensus       370 ~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N-~l~~ip~~~~~l~~L~  447 (520)
T 2z7x_B          370 TTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSN-KIKSIPKQVVKLEALQ  447 (520)
T ss_dssp             HTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEEECCSSCCCGGGGGSCCTTCCEEECCSS-CCCCCCGGGGGCTTCC
T ss_pred             HhhCCCCCEEECCCCcCCcccccchhccCccCCEEECcCCCCCcchhhhhcccCCEEECCCC-cccccchhhhcCCCCC
Confidence            13346666666665432221332210 0                   011 46777777765 3557777666666665

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.81  E-value=4.2e-18  Score=175.81  Aligned_cols=105  Identities=16%  Similarity=0.077  Sum_probs=52.1

Q ss_pred             cCCceEEEec-c-cccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCC
Q 040122          202 KSEENLLVAN-Q-IQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLE  279 (388)
Q Consensus       202 ~~L~~L~l~~-~-~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~  279 (388)
                      ++|+.|++++ . ....+..++.+++|+.|+++++ .+..+....+   ..+++|++|++++|......+..+..+++|+
T Consensus       266 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n-~i~~~~~~~~---~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~  341 (844)
T 3j0a_A          266 SSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYN-KINKIADEAF---YGLDNLQVLNLSYNLLGELYSSNFYGLPKVA  341 (844)
T ss_dssp             SCCCEEECTTCCCCEECSCCSSSCCCCCEEEEESC-CCCEECTTTT---TTCSSCCEEEEESCCCSCCCSCSCSSCTTCC
T ss_pred             CCccEEECCCCcccccChhhhhcCCCCCEEECCCC-cCCCCChHHh---cCCCCCCEEECCCCCCCccCHHHhcCCCCCC
Confidence            4566666655 1 1222334455566666666653 3444433322   4455666666666543333344555556666


Q ss_pred             EEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          280 ALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       280 ~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      +|+++++ .+..++... ...+++|+.|++++|
T Consensus       342 ~L~L~~N-~i~~~~~~~-~~~l~~L~~L~Ls~N  372 (844)
T 3j0a_A          342 YIDLQKN-HIAIIQDQT-FKFLEKLQTLDLRDN  372 (844)
T ss_dssp             EEECCSC-CCCCCCSSC-SCSCCCCCEEEEETC
T ss_pred             EEECCCC-CCCccChhh-hcCCCCCCEEECCCC
Confidence            6666554 343333221 234555555555554

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.81  E-value=4.2e-18  Score=175.76  Aligned_cols=292  Identities=14%  Similarity=0.063  Sum_probs=162.5

Q ss_pred             hhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccc
Q 040122           44 DEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHL  123 (388)
Q Consensus        44 ~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~  123 (388)
                      ..+..+++|++|+++++..+..+....   ...+++|++|++++| .+....|.. ++++++|++|++++|.....++..
T Consensus        42 ~~~~~l~~L~~LdLs~n~~~~~i~~~~---f~~L~~L~~L~Ls~N-~l~~~~p~~-~~~l~~L~~L~Ls~n~l~~~~~~~  116 (844)
T 3j0a_A           42 SSFPFLEQLQLLELGSQYTPLTIDKEA---FRNLPNLRILDLGSS-KIYFLHPDA-FQGLFHLFELRLYFCGLSDAVLKD  116 (844)
T ss_dssp             SSCSSCCSCSEEEECTTCCCCEECTTT---TSSCTTCCEEECTTC-CCCEECTTS-SCSCSSCCCEECTTCCCSSCCSTT
T ss_pred             hHCcccccCeEEeCCCCCCccccCHHH---hcCCCCCCEEECCCC-cCcccCHhH-ccCCcccCEeeCcCCCCCcccccC
Confidence            345556666666666654333332211   145666666666666 444433333 566666666666665332222221


Q ss_pred             ccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccc--
Q 040122          124 EELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKL--  201 (388)
Q Consensus       124 ~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l--  201 (388)
                      ..        +..+++|++|+++++. +.....+ ..++.+++|++|++.++ .++......            +..+  
T Consensus       117 ~~--------~~~L~~L~~L~Ls~N~-l~~~~~~-~~~~~L~~L~~L~Ls~N-~i~~~~~~~------------l~~l~~  173 (844)
T 3j0a_A          117 GY--------FRNLKALTRLDLSKNQ-IRSLYLH-PSFGKLNSLKSIDFSSN-QIFLVCEHE------------LEPLQG  173 (844)
T ss_dssp             CC--------CSSCSSCCEEEEESCC-CCCCCCC-GGGGTCSSCCEEEEESS-CCCCCCSGG------------GHHHHH
T ss_pred             cc--------ccccCCCCEEECCCCc-ccccccc-hhHhhCCCCCEEECCCC-cCCeeCHHH------------cccccC
Confidence            11        2456666666666653 2332111 12556666666666664 333332221            4444  


Q ss_pred             cCCceEEEec--ccccccccccCCCC------cceEEecCCCCcceeccc------------------------------
Q 040122          202 KSEENLLVAN--QIQHLFDEKVAFPQ------LGNLRLSGLHKVQHLWKE------------------------------  243 (388)
Q Consensus       202 ~~L~~L~l~~--~~~~~~~~~~~~~~------L~~L~l~~~~~l~~~~~~------------------------------  243 (388)
                      ++|+.|+++.  .....+..++.+++      |+.|+++++.--...+..                              
T Consensus       174 ~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~  253 (844)
T 3j0a_A          174 KTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIK  253 (844)
T ss_dssp             CSSCCCEECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSST
T ss_pred             CccceEECCCCccccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccC
Confidence            6777777776  22223333333333      888888875211100000                              


Q ss_pred             -----CchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchh
Q 040122          244 -----NDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQI  318 (388)
Q Consensus       244 -----~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~  318 (388)
                           .+. .-..++|+.|+++++......+..+..+++|+.|+++++ .+...... ....+++|++|++++|.. ..+
T Consensus       254 ~~~~~~f~-~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n-~i~~~~~~-~~~~l~~L~~L~Ls~N~l-~~~  329 (844)
T 3j0a_A          254 DPDQNTFA-GLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYN-KINKIADE-AFYGLDNLQVLNLSYNLL-GEL  329 (844)
T ss_dssp             TGGGTTTT-TTTTSCCCEEECTTCCCCEECSCCSSSCCCCCEEEEESC-CCCEECTT-TTTTCSSCCEEEEESCCC-SCC
T ss_pred             CCChhhhh-ccccCCccEEECCCCcccccChhhhhcCCCCCEEECCCC-cCCCCChH-HhcCCCCCCEEECCCCCC-Ccc
Confidence                 000 001367888888887655555667788889999999886 45554333 236788999999988753 222


Q ss_pred             hcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCccccc
Q 040122          319 IQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFS  377 (388)
Q Consensus       319 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp  377 (388)
                      ..       .....+++|++|+++++ .++.++.... ..+++|++|++++|. ++.++
T Consensus       330 ~~-------~~~~~l~~L~~L~L~~N-~i~~~~~~~~-~~l~~L~~L~Ls~N~-l~~i~  378 (844)
T 3j0a_A          330 YS-------SNFYGLPKVAYIDLQKN-HIAIIQDQTF-KFLEKLQTLDLRDNA-LTTIH  378 (844)
T ss_dssp             CS-------CSCSSCTTCCEEECCSC-CCCCCCSSCS-CSCCCCCEEEEETCC-SCCCS
T ss_pred             CH-------HHhcCCCCCCEEECCCC-CCCccChhhh-cCCCCCCEEECCCCC-CCccc
Confidence            11       12245688999999887 4555554321 227899999999875 45444

>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=99.80  E-value=2.1e-18  Score=170.27  Aligned_cols=112  Identities=18%  Similarity=0.161  Sum_probs=66.7

Q ss_pred             HHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEecccccccee
Q 040122           41 KCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEV  120 (388)
Q Consensus        41 ~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i  120 (388)
                      .+|..+  +++|++|+++++. +..++...   ...+++|++|++++| .++.+.+.. +.++++|++|++++| .+..+
T Consensus        45 ~ip~~~--~~~L~~L~Ls~N~-i~~~~~~~---~~~l~~L~~L~Ls~N-~l~~~~~~~-~~~l~~L~~L~Ls~N-~l~~l  115 (562)
T 3a79_B           45 HVPKDL--PPRTKALSLSQNS-ISELRMPD---ISFLSELRVLRLSHN-RIRSLDFHV-FLFNQDLEYLDVSHN-RLQNI  115 (562)
T ss_dssp             SCCTTS--CTTCCEEECCSSC-CCCCCGGG---TTTCTTCCEEECCSC-CCCEECTTT-TTTCTTCCEEECTTS-CCCEE
T ss_pred             cCCCCC--CCCcCEEECCCCC-ccccChhh---hccCCCccEEECCCC-CCCcCCHHH-hCCCCCCCEEECCCC-cCCcc
Confidence            344443  2677777777665 55433222   145777777777777 566644433 677777778877774 35555


Q ss_pred             cccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecC
Q 040122          121 LHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c  175 (388)
                      |..            .+++|++|+++++. +..+..+.. ++.+++|++|+++++
T Consensus       116 p~~------------~l~~L~~L~Ls~N~-l~~l~~p~~-~~~l~~L~~L~L~~n  156 (562)
T 3a79_B          116 SCC------------PMASLRHLDLSFND-FDVLPVCKE-FGNLTKLTFLGLSAA  156 (562)
T ss_dssp             CSC------------CCTTCSEEECCSSC-CSBCCCCGG-GGGCTTCCEEEEECS
T ss_pred             Ccc------------ccccCCEEECCCCC-ccccCchHh-hcccCcccEEecCCC
Confidence            432            36777777776653 444322222 556677777777664

>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=99.80  E-value=1.9e-18  Score=174.44  Aligned_cols=114  Identities=13%  Similarity=0.037  Sum_probs=54.4

Q ss_pred             ccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcc-cccccCCcccc
Q 040122          254 LERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQL-QVGEEAKDCNV  332 (388)
Q Consensus       254 L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~-~~~~~~~~~~~  332 (388)
                      |++|++++|......+..+..+++|++|+++++ .+...... ....+++|+.|+++++.....+... -..+.......
T Consensus       250 L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~-~~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~~  327 (680)
T 1ziw_A          250 LTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYN-NIQHLFSH-SLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQW  327 (680)
T ss_dssp             CCEEECTTSCCCEECTTTTTTCTTCCEEECCSC-CBSEECTT-TTTTCTTCCEEECTTCBCCC------CCEECTTTTTT
T ss_pred             CCEEECCCCCcCccCcccccCcccccEeeCCCC-ccCccChh-hhcCCCCccEEeccchhhhcccccccccccChhhccc
Confidence            666666665443333444555666666666654 33333222 2245566666666554221111000 00001112234


Q ss_pred             ccccceEecccCCCcceecCCCccccCCCcceEEeccCC
Q 040122          333 FKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCP  371 (388)
Q Consensus       333 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~  371 (388)
                      +++|++|+++++. +..+..... ..+++|++|++++|.
T Consensus       328 l~~L~~L~l~~n~-l~~~~~~~~-~~l~~L~~L~Ls~n~  364 (680)
T 1ziw_A          328 LKCLEHLNMEDND-IPGIKSNMF-TGLINLKYLSLSNSF  364 (680)
T ss_dssp             CTTCCEEECCSCC-BCCCCTTTT-TTCTTCCEEECTTCB
T ss_pred             CCCCCEEECCCCc-cCCCChhHh-ccccCCcEEECCCCc
Confidence            5677777777653 333332211 126788888887765

>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=99.80  E-value=4.5e-18  Score=156.44  Aligned_cols=220  Identities=18%  Similarity=0.204  Sum_probs=108.7

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      ++|++|+++++. +..++...   ...+++|++|++++| .++...+.. ++++++|++|++++| .+..++.       
T Consensus        52 ~~l~~L~L~~n~-i~~~~~~~---~~~l~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~Ls~n-~l~~l~~-------  117 (330)
T 1xku_A           52 PDTALLDLQNNK-ITEIKDGD---FKNLKNLHTLILINN-KISKISPGA-FAPLVKLERLYLSKN-QLKELPE-------  117 (330)
T ss_dssp             TTCCEEECCSSC-CCCBCTTT---TTTCTTCCEEECCSS-CCCCBCTTT-TTTCTTCCEEECCSS-CCSBCCS-------
T ss_pred             CCCeEEECCCCc-CCEeChhh---hccCCCCCEEECCCC-cCCeeCHHH-hcCCCCCCEEECCCC-cCCccCh-------
Confidence            456666666554 44333211   134566666666665 444433332 556666666666664 2333322       


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccc--ccCCcceeeecccCCCccccccCCceE
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMET--FTSNSTFVLHMTADNKEPQKLKSEENL  207 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~--~~~~~~~~~~l~~~~~~l~~l~~L~~L  207 (388)
                           ..+++|++|+++++. +..+  +...+..+++|++|++.++ .+..  ....            .+..+++|+.|
T Consensus       118 -----~~~~~L~~L~l~~n~-l~~~--~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~------------~~~~l~~L~~L  176 (330)
T 1xku_A          118 -----KMPKTLQELRVHENE-ITKV--RKSVFNGLNQMIVVELGTN-PLKSSGIENG------------AFQGMKKLSYI  176 (330)
T ss_dssp             -----SCCTTCCEEECCSSC-CCBB--CHHHHTTCTTCCEEECCSS-CCCGGGBCTT------------GGGGCTTCCEE
T ss_pred             -----hhcccccEEECCCCc-cccc--CHhHhcCCccccEEECCCC-cCCccCcChh------------hccCCCCcCEE
Confidence                 113566666666542 3333  1122445666666666665 2322  1111            14556666666


Q ss_pred             EEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          208 LVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       208 ~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                      ++++ ....++...  +++|++|+++++ .++.+....+   ..+++|++|++++|......+..+..+++|++|+++++
T Consensus       177 ~l~~n~l~~l~~~~--~~~L~~L~l~~n-~l~~~~~~~~---~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N  250 (330)
T 1xku_A          177 RIADTNITTIPQGL--PPSLTELHLDGN-KITKVDAASL---KGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNN  250 (330)
T ss_dssp             ECCSSCCCSCCSSC--CTTCSEEECTTS-CCCEECTGGG---TTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSS
T ss_pred             ECCCCccccCCccc--cccCCEEECCCC-cCCccCHHHh---cCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCC
Confidence            6665 233333322  256666666654 3444432221   44556666666665433333334555666666666665


Q ss_pred             cCcccccchhhhcCccccceeeEcccc
Q 040122          287 HELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       287 ~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                       .+..++.  ....+++|++|++++|.
T Consensus       251 -~l~~lp~--~l~~l~~L~~L~l~~N~  274 (330)
T 1xku_A          251 -KLVKVPG--GLADHKYIQVVYLHNNN  274 (330)
T ss_dssp             -CCSSCCT--TTTTCSSCCEEECCSSC
T ss_pred             -cCccCCh--hhccCCCcCEEECCCCc
Confidence             3443322  12455666666666553

>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=99.80  E-value=5.4e-18  Score=155.90  Aligned_cols=279  Identities=13%  Similarity=0.083  Sum_probs=198.1

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEecccccccee-cccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEV-LHLEELSA  128 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i-~~~~~~~~  128 (388)
                      .+++.++++++. +..++..      ..+++++|++++| .++.+++.. ++++++|++|++++|. +..+ +..     
T Consensus        31 c~l~~l~~~~~~-l~~lp~~------~~~~l~~L~L~~n-~i~~~~~~~-~~~l~~L~~L~L~~n~-l~~~~~~~-----   95 (330)
T 1xku_A           31 CHLRVVQCSDLG-LEKVPKD------LPPDTALLDLQNN-KITEIKDGD-FKNLKNLHTLILINNK-ISKISPGA-----   95 (330)
T ss_dssp             EETTEEECTTSC-CCSCCCS------CCTTCCEEECCSS-CCCCBCTTT-TTTCTTCCEEECCSSC-CCCBCTTT-----
T ss_pred             CCCeEEEecCCC-ccccCcc------CCCCCeEEECCCC-cCCEeChhh-hccCCCCCEEECCCCc-CCeeCHHH-----
Confidence            368888888665 5543322      3579999999998 677755533 8999999999999964 4444 322     


Q ss_pred             cccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEE
Q 040122          129 KEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLL  208 (388)
Q Consensus       129 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~  208 (388)
                           +..+++|++|+++++. ++.+  +..   ..++|++|+++++ .++..+...            +..+++|+.|+
T Consensus        96 -----~~~l~~L~~L~Ls~n~-l~~l--~~~---~~~~L~~L~l~~n-~l~~~~~~~------------~~~l~~L~~L~  151 (330)
T 1xku_A           96 -----FAPLVKLERLYLSKNQ-LKEL--PEK---MPKTLQELRVHEN-EITKVRKSV------------FNGLNQMIVVE  151 (330)
T ss_dssp             -----TTTCTTCCEEECCSSC-CSBC--CSS---CCTTCCEEECCSS-CCCBBCHHH------------HTTCTTCCEEE
T ss_pred             -----hcCCCCCCEEECCCCc-CCcc--Chh---hcccccEEECCCC-cccccCHhH------------hcCCccccEEE
Confidence                 4678999999999874 5555  333   3489999999997 566555432            67899999999


Q ss_pred             Eecc----cccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeec
Q 040122          209 VANQ----IQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVS  284 (388)
Q Consensus       209 l~~~----~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~  284 (388)
                      ++++    ....+..+..+++|+.|+++++ .++.++..      ..++|++|++++|......+..+..+++|++|+++
T Consensus       152 l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n-~l~~l~~~------~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls  224 (330)
T 1xku_A          152 LGTNPLKSSGIENGAFQGMKKLSYIRIADT-NITTIPQG------LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLS  224 (330)
T ss_dssp             CCSSCCCGGGBCTTGGGGCTTCCEEECCSS-CCCSCCSS------CCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECC
T ss_pred             CCCCcCCccCcChhhccCCCCcCEEECCCC-ccccCCcc------ccccCCEEECCCCcCCccCHHHhcCCCCCCEEECC
Confidence            9982    2244566778999999999985 56666643      23789999999987555446678889999999999


Q ss_pred             cCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCcc-----ccC
Q 040122          285 KCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYA-----LEF  359 (388)
Q Consensus       285 ~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~-----~~~  359 (388)
                      ++ .+...+.. ....+++|++|++++|. +..++.        ....+++|++|+++++ .++.++.....     ...
T Consensus       225 ~n-~l~~~~~~-~~~~l~~L~~L~L~~N~-l~~lp~--------~l~~l~~L~~L~l~~N-~i~~~~~~~f~~~~~~~~~  292 (330)
T 1xku_A          225 FN-SISAVDNG-SLANTPHLRELHLNNNK-LVKVPG--------GLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKK  292 (330)
T ss_dssp             SS-CCCEECTT-TGGGSTTCCEEECCSSC-CSSCCT--------TTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTS
T ss_pred             CC-cCceeChh-hccCCCCCCEEECCCCc-CccCCh--------hhccCCCcCEEECCCC-cCCccChhhcCCccccccc
Confidence            87 46665443 23678999999999985 444443        2245789999999987 46666543311     124


Q ss_pred             CCcceEEeccCCCcc--cccCCCCCCCCC
Q 040122          360 PSLKQVVVRQCPKMK--IFSQGLLDTPML  386 (388)
Q Consensus       360 ~~L~~L~l~~c~~l~--~lp~~~~~~~~L  386 (388)
                      ++++.+++.++|...  .-|.....++++
T Consensus       293 ~~l~~l~l~~N~~~~~~i~~~~f~~~~~l  321 (330)
T 1xku_A          293 ASYSGVSLFSNPVQYWEIQPSTFRCVYVR  321 (330)
T ss_dssp             CCCSEEECCSSSSCGGGSCGGGGTTCCCG
T ss_pred             ccccceEeecCcccccccCccccccccce
Confidence            789999999988532  223444444443

>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=99.80  E-value=3.4e-18  Score=172.59  Aligned_cols=52  Identities=10%  Similarity=-0.027  Sum_probs=29.1

Q ss_pred             cccceEecccCCCcceecCCCccccCCCcceEEeccCCCccccc-CCCCCCCCCC
Q 040122          334 KELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFS-QGLLDTPMLN  387 (388)
Q Consensus       334 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp-~~~~~~~~L~  387 (388)
                      ++|+.|+++++. ++.+..... ..+++|++|++.+|.....+| ..+.++++|+
T Consensus       381 ~~L~~L~L~~n~-l~~~~~~~~-~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~  433 (680)
T 1ziw_A          381 SPLHILNLTKNK-ISKIESDAF-SWLGHLEVLDLGLNEIGQELTGQEWRGLENIF  433 (680)
T ss_dssp             SCCCEEECTTSC-CCEECTTTT-TTCTTCCEEECCSSCCEEECCSGGGTTCTTCC
T ss_pred             CcCceEECCCCC-CCeEChhhh-hCCCCCCEEeCCCCcCccccCcccccCccccc
Confidence            356666666653 333322211 136788888888877555555 3455555554

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.79  E-value=4.9e-18  Score=156.34  Aligned_cols=292  Identities=15%  Similarity=0.087  Sum_probs=196.4

Q ss_pred             cceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCC
Q 040122           25 GELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLN  104 (388)
Q Consensus        25 ~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~  104 (388)
                      ++.+++.+    ..+..+|..+  +++|++|+++++. +..+....   ...+++|++|++++| .++...+.. +++++
T Consensus        35 l~~l~~~~----~~l~~ip~~~--~~~l~~L~l~~n~-i~~~~~~~---~~~l~~L~~L~L~~n-~l~~~~~~~-~~~l~  102 (332)
T 2ft3_A           35 LRVVQCSD----LGLKAVPKEI--SPDTTLLDLQNND-ISELRKDD---FKGLQHLYALVLVNN-KISKIHEKA-FSPLR  102 (332)
T ss_dssp             TTEEECCS----SCCSSCCSCC--CTTCCEEECCSSC-CCEECTTT---TTTCTTCCEEECCSS-CCCEECGGG-STTCT
T ss_pred             CCEEECCC----CCccccCCCC--CCCCeEEECCCCc-CCccCHhH---hhCCCCCcEEECCCC-ccCccCHhH-hhCcC
Confidence            45555555    2333455554  4789999999876 66554322   257899999999998 677755544 88999


Q ss_pred             CCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccc--cc
Q 040122          105 NLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMET--FT  182 (388)
Q Consensus       105 ~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~--~~  182 (388)
                      +|++|++++| .+..++..            .+++|++|+++++. +..+  +...+..+++|++|++.++ .++.  ..
T Consensus       103 ~L~~L~L~~n-~l~~l~~~------------~~~~L~~L~l~~n~-i~~~--~~~~~~~l~~L~~L~l~~n-~l~~~~~~  165 (332)
T 2ft3_A          103 KLQKLYISKN-HLVEIPPN------------LPSSLVELRIHDNR-IRKV--PKGVFSGLRNMNCIEMGGN-PLENSGFE  165 (332)
T ss_dssp             TCCEEECCSS-CCCSCCSS------------CCTTCCEEECCSSC-CCCC--CSGGGSSCSSCCEEECCSC-CCBGGGSC
T ss_pred             CCCEEECCCC-cCCccCcc------------ccccCCEEECCCCc-cCcc--CHhHhCCCccCCEEECCCC-ccccCCCC
Confidence            9999999996 45555432            24899999999874 5555  3333678999999999997 4543  22


Q ss_pred             CCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEec
Q 040122          183 SNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISE  261 (388)
Q Consensus       183 ~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~  261 (388)
                      ...            +..+ +|+.|++++ ....++...  +++|++|+++++ .++.++...+   ..+++|++|++++
T Consensus       166 ~~~------------~~~l-~L~~L~l~~n~l~~l~~~~--~~~L~~L~l~~n-~i~~~~~~~l---~~l~~L~~L~L~~  226 (332)
T 2ft3_A          166 PGA------------FDGL-KLNYLRISEAKLTGIPKDL--PETLNELHLDHN-KIQAIELEDL---LRYSKLYRLGLGH  226 (332)
T ss_dssp             TTS------------SCSC-CCSCCBCCSSBCSSCCSSS--CSSCSCCBCCSS-CCCCCCTTSS---TTCTTCSCCBCCS
T ss_pred             ccc------------ccCC-ccCEEECcCCCCCccCccc--cCCCCEEECCCC-cCCccCHHHh---cCCCCCCEEECCC
Confidence            221            5555 899999988 444454443  379999999985 5666554333   6788999999999


Q ss_pred             CCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCc-cccccccceEe
Q 040122          262 CSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKD-CNVFKELEYLG  340 (388)
Q Consensus       262 ~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~-~~~~~~L~~L~  340 (388)
                      |......+..+..+++|++|+++++ .+..++..  ...+++|++|++++|. ++.++..  .+.... ...++.|+.|+
T Consensus       227 N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~lp~~--l~~l~~L~~L~l~~N~-l~~~~~~--~~~~~~~~~~~~~l~~L~  300 (332)
T 2ft3_A          227 NQIRMIENGSLSFLPTLRELHLDNN-KLSRVPAG--LPDLKLLQVVYLHTNN-ITKVGVN--DFCPVGFGVKRAYYNGIS  300 (332)
T ss_dssp             SCCCCCCTTGGGGCTTCCEEECCSS-CCCBCCTT--GGGCTTCCEEECCSSC-CCBCCTT--SSSCSSCCSSSCCBSEEE
T ss_pred             CcCCcCChhHhhCCCCCCEEECCCC-cCeecChh--hhcCccCCEEECCCCC-CCccChh--HccccccccccccccceE
Confidence            8655444456788999999999987 56665543  3678999999999875 4444321  111100 12257899999


Q ss_pred             cccCCCcc-eecCCCccccCCCcceEEeccCC
Q 040122          341 LDCLPSLT-SFCLGNYALEFPSLKQVVVRQCP  371 (388)
Q Consensus       341 l~~~~~l~-~~~~~~~~~~~~~L~~L~l~~c~  371 (388)
                      +.+++... .+.... ...+++|+.+++.+|.
T Consensus       301 l~~N~~~~~~~~~~~-~~~l~~L~~l~l~~n~  331 (332)
T 2ft3_A          301 LFNNPVPYWEVQPAT-FRCVTDRLAIQFGNYK  331 (332)
T ss_dssp             CCSSSSCGGGSCGGG-GTTBCCSTTEEC----
T ss_pred             eecCcccccccCccc-ccccchhhhhhccccc
Confidence            99986431 222222 1237899999998875

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

Probab=99.78  E-value=1.1e-18  Score=159.20  Aligned_cols=253  Identities=12%  Similarity=0.042  Sum_probs=133.8

Q ss_pred             CCccEEEecCCCCCcc--cCChhhhhcCCCCcEEEeccccccc-eecccccccccccccCCcCccccEeecccCcccccc
Q 040122           78 NNLAELVVDDSTNMSS--AIPANLLRCLNNLEWLAVRNCDSLE-EVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~--~~~~~~~~~l~~L~~L~l~~~~~l~-~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      .+++.|+++++ .+..  ..|.. +.++++|++|++++++.+. .+|..          +..+++|++|+++++.....+
T Consensus        50 ~~l~~L~L~~~-~l~~~~~~~~~-l~~l~~L~~L~L~~~n~l~~~~p~~----------l~~l~~L~~L~Ls~n~l~~~~  117 (313)
T 1ogq_A           50 YRVNNLDLSGL-NLPKPYPIPSS-LANLPYLNFLYIGGINNLVGPIPPA----------IAKLTQLHYLYITHTNVSGAI  117 (313)
T ss_dssp             CCEEEEEEECC-CCSSCEECCGG-GGGCTTCSEEEEEEETTEESCCCGG----------GGGCTTCSEEEEEEECCEEEC
T ss_pred             ceEEEEECCCC-CccCCcccChh-HhCCCCCCeeeCCCCCcccccCChh----------HhcCCCCCEEECcCCeeCCcC
Confidence            34555555555 3332  12222 5555556666665422222 23222          234555555655554321122


Q ss_pred             cCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cc-ccccccccCCC-CcceEEe
Q 040122          155 CNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QI-QHLFDEKVAFP-QLGNLRL  231 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~-~~~~~~~~~~~-~L~~L~l  231 (388)
                        +. .+..+++|++|+++++ .++...+.            .+..+++|+.|++++ .. +.++..++.++ +|+.|++
T Consensus       118 --p~-~~~~l~~L~~L~Ls~N-~l~~~~p~------------~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L  181 (313)
T 1ogq_A          118 --PD-FLSQIKTLVTLDFSYN-ALSGTLPP------------SISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTI  181 (313)
T ss_dssp             --CG-GGGGCTTCCEEECCSS-EEESCCCG------------GGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEEC
T ss_pred             --CH-HHhCCCCCCEEeCCCC-ccCCcCCh------------HHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEEC
Confidence              11 1445556666666554 33321111            145556666666655 22 24445555565 6777777


Q ss_pred             cCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcc
Q 040122          232 SGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIAD  311 (388)
Q Consensus       232 ~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~  311 (388)
                      +++ .++...+..+   ..++ |++|++++|......+..+..+++|+.|+++++. +......  ...+++|++|++++
T Consensus       182 ~~N-~l~~~~~~~~---~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~--~~~l~~L~~L~Ls~  253 (313)
T 1ogq_A          182 SRN-RLTGKIPPTF---ANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNS-LAFDLGK--VGLSKNLNGLDLRN  253 (313)
T ss_dssp             CSS-EEEEECCGGG---GGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSE-ECCBGGG--CCCCTTCCEEECCS
T ss_pred             cCC-eeeccCChHH---hCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCc-eeeecCc--ccccCCCCEEECcC
Confidence            764 3342222211   3334 7777777776555556666777788888887763 3322221  25567788888877


Q ss_pred             ccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCccccc
Q 040122          312 CKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFS  377 (388)
Q Consensus       312 ~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp  377 (388)
                      |.....++.        ....+++|++|+++++.--..++.. .  .+++|+.+++.+++.+...|
T Consensus       254 N~l~~~~p~--------~l~~l~~L~~L~Ls~N~l~~~ip~~-~--~l~~L~~l~l~~N~~lc~~p  308 (313)
T 1ogq_A          254 NRIYGTLPQ--------GLTQLKFLHSLNVSFNNLCGEIPQG-G--NLQRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             SCCEECCCG--------GGGGCTTCCEEECCSSEEEEECCCS-T--TGGGSCGGGTCSSSEEESTT
T ss_pred             CcccCcCCh--------HHhcCcCCCEEECcCCcccccCCCC-c--cccccChHHhcCCCCccCCC
Confidence            754433333        2245677888888776433355543 2  26788888888877666554

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

Probab=99.77  E-value=5.1e-18  Score=154.87  Aligned_cols=250  Identities=14%  Similarity=0.104  Sum_probs=179.9

Q ss_pred             CCcceEEecCccccc---eeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccc
Q 040122           50 LDINRLQLSHFPRLQ---EIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEEL  126 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~---~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~  126 (388)
                      .+++.|+++++. +.   .++...    ..+++|++|+++++..+....|.. ++++++|++|++++|.....+|..   
T Consensus        50 ~~l~~L~L~~~~-l~~~~~~~~~l----~~l~~L~~L~L~~~n~l~~~~p~~-l~~l~~L~~L~Ls~n~l~~~~p~~---  120 (313)
T 1ogq_A           50 YRVNNLDLSGLN-LPKPYPIPSSL----ANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPDF---  120 (313)
T ss_dssp             CCEEEEEEECCC-CSSCEECCGGG----GGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCGG---
T ss_pred             ceEEEEECCCCC-ccCCcccChhH----hCCCCCCeeeCCCCCcccccCChh-HhcCCCCCEEECcCCeeCCcCCHH---
Confidence            579999999876 54   233333    679999999999633666545554 899999999999997544455543   


Q ss_pred             cccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcc-cccCCcceeeecccCCCcccccc-CC
Q 040122          127 SAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDME-TFTSNSTFVLHMTADNKEPQKLK-SE  204 (388)
Q Consensus       127 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~-~~~~~~~~~~~l~~~~~~l~~l~-~L  204 (388)
                             +..+++|++|+++++.....+  + ..+..+++|++|++.++ .++ .++..             +..++ +|
T Consensus       121 -------~~~l~~L~~L~Ls~N~l~~~~--p-~~~~~l~~L~~L~L~~N-~l~~~~p~~-------------l~~l~~~L  176 (313)
T 1ogq_A          121 -------LSQIKTLVTLDFSYNALSGTL--P-PSISSLPNLVGITFDGN-RISGAIPDS-------------YGSFSKLF  176 (313)
T ss_dssp             -------GGGCTTCCEEECCSSEEESCC--C-GGGGGCTTCCEEECCSS-CCEEECCGG-------------GGCCCTTC
T ss_pred             -------HhCCCCCCEEeCCCCccCCcC--C-hHHhcCCCCCeEECcCC-cccCcCCHH-------------HhhhhhcC
Confidence                   466899999999987533233  2 23778999999999997 455 44433             67777 99


Q ss_pred             ceEEEec--ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEe
Q 040122          205 ENLLVAN--QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALK  282 (388)
Q Consensus       205 ~~L~l~~--~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~  282 (388)
                      +.|++++  ..+..+..++.++ |+.|+++++ .++......+   ..+++|+.|++++|......+ .+..+++|++|+
T Consensus       177 ~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N-~l~~~~~~~~---~~l~~L~~L~L~~N~l~~~~~-~~~~l~~L~~L~  250 (313)
T 1ogq_A          177 TSMTISRNRLTGKIPPTFANLN-LAFVDLSRN-MLEGDASVLF---GSDKNTQKIHLAKNSLAFDLG-KVGLSKNLNGLD  250 (313)
T ss_dssp             CEEECCSSEEEEECCGGGGGCC-CSEEECCSS-EEEECCGGGC---CTTSCCSEEECCSSEECCBGG-GCCCCTTCCEEE
T ss_pred             cEEECcCCeeeccCChHHhCCc-ccEEECcCC-cccCcCCHHH---hcCCCCCEEECCCCceeeecC-cccccCCCCEEE
Confidence            9999998  2335666666666 999999985 4554433322   678999999999986544444 477789999999


Q ss_pred             eccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcce
Q 040122          283 VSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTS  349 (388)
Q Consensus       283 l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~  349 (388)
                      ++++ .+...... ....+++|++|++++|...+.++..         ..+++|+.+++.+++.+..
T Consensus       251 Ls~N-~l~~~~p~-~l~~l~~L~~L~Ls~N~l~~~ip~~---------~~l~~L~~l~l~~N~~lc~  306 (313)
T 1ogq_A          251 LRNN-RIYGTLPQ-GLTQLKFLHSLNVSFNNLCGEIPQG---------GNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             CCSS-CCEECCCG-GGGGCTTCCEEECCSSEEEEECCCS---------TTGGGSCGGGTCSSSEEES
T ss_pred             CcCC-cccCcCCh-HHhcCcCCCEEECcCCcccccCCCC---------ccccccChHHhcCCCCccC
Confidence            9987 45533222 3467899999999999765555441         4578899999998875543

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

Probab=99.77  E-value=1.8e-17  Score=158.58  Aligned_cols=235  Identities=15%  Similarity=0.139  Sum_probs=176.2

Q ss_pred             HHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccc
Q 040122           39 IQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLE  118 (388)
Q Consensus        39 ~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~  118 (388)
                      +..+|..+  .++++.|+++++. +..+....   ...+++|++|++++| .+..+.+.. +.++++|++|++++| .+.
T Consensus        55 l~~iP~~~--~~~l~~L~L~~n~-i~~~~~~~---~~~l~~L~~L~Ls~n-~i~~i~~~~-~~~l~~L~~L~L~~n-~l~  125 (440)
T 3zyj_A           55 LREVPDGI--STNTRLLNLHENQ-IQIIKVNS---FKHLRHLEILQLSRN-HIRTIEIGA-FNGLANLNTLELFDN-RLT  125 (440)
T ss_dssp             CSSCCSCC--CTTCSEEECCSCC-CCEECTTT---TSSCSSCCEEECCSS-CCCEECGGG-GTTCSSCCEEECCSS-CCS
T ss_pred             cCcCCCCC--CCCCcEEEccCCc-CCeeCHHH---hhCCCCCCEEECCCC-cCCccChhh-ccCCccCCEEECCCC-cCC
Confidence            44455554  3789999999876 66554333   256899999999998 677655433 889999999999996 455


Q ss_pred             eecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCcc
Q 040122          119 EVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEP  198 (388)
Q Consensus       119 ~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l  198 (388)
                      .++...         +..+++|++|+++++. ++.+  +...+..+++|++|++.+|..+..++...            +
T Consensus       126 ~~~~~~---------~~~l~~L~~L~L~~N~-i~~~--~~~~~~~l~~L~~L~l~~~~~l~~i~~~~------------~  181 (440)
T 3zyj_A          126 TIPNGA---------FVYLSKLKELWLRNNP-IESI--PSYAFNRIPSLRRLDLGELKRLSYISEGA------------F  181 (440)
T ss_dssp             SCCTTT---------SCSCSSCCEEECCSCC-CCEE--CTTTTTTCTTCCEEECCCCTTCCEECTTT------------T
T ss_pred             eeCHhH---------hhccccCceeeCCCCc-cccc--CHHHhhhCcccCEeCCCCCCCcceeCcch------------h
Confidence            554321         4668999999998864 5555  33336789999999999988888777653            7


Q ss_pred             ccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCC
Q 040122          199 QKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLEN  277 (388)
Q Consensus       199 ~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~  277 (388)
                      .++++|+.|++++ ....+ +.+..+++|+.|+++++ .++.+....+   ..+++|++|+++++......+..+..+++
T Consensus       182 ~~l~~L~~L~L~~n~l~~~-~~~~~l~~L~~L~Ls~N-~l~~~~~~~~---~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  256 (440)
T 3zyj_A          182 EGLSNLRYLNLAMCNLREI-PNLTPLIKLDELDLSGN-HLSAIRPGSF---QGLMHLQKLWMIQSQIQVIERNAFDNLQS  256 (440)
T ss_dssp             TTCSSCCEEECTTSCCSSC-CCCTTCSSCCEEECTTS-CCCEECTTTT---TTCTTCCEEECTTCCCCEECTTSSTTCTT
T ss_pred             hcccccCeecCCCCcCccc-cccCCCcccCEEECCCC-ccCccChhhh---ccCccCCEEECCCCceeEEChhhhcCCCC
Confidence            8899999999998 33344 35778899999999986 6777755543   67889999999998665555667788899


Q ss_pred             CCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          278 LEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       278 L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      |+.|+++++ .++.++.. ....+++|+.|++++|+
T Consensus       257 L~~L~L~~N-~l~~~~~~-~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          257 LVEINLAHN-NLTLLPHD-LFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             CCEEECTTS-CCCCCCTT-TTSSCTTCCEEECCSSC
T ss_pred             CCEEECCCC-CCCccChh-HhccccCCCEEEcCCCC
Confidence            999999986 67766544 33678999999998875

>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=99.77  E-value=1.4e-17  Score=159.88  Aligned_cols=235  Identities=14%  Similarity=0.100  Sum_probs=174.8

Q ss_pred             HHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccc
Q 040122           39 IQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLE  118 (388)
Q Consensus        39 ~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~  118 (388)
                      +..+|..+  .+++++|+++++. +..+....   ...+++|++|++++| .+..+++.. +.++++|++|++++| .+.
T Consensus        66 l~~iP~~~--~~~l~~L~L~~n~-i~~~~~~~---~~~l~~L~~L~Ls~n-~i~~~~~~~-~~~l~~L~~L~L~~n-~l~  136 (452)
T 3zyi_A           66 LSEVPQGI--PSNTRYLNLMENN-IQMIQADT---FRHLHHLEVLQLGRN-SIRQIEVGA-FNGLASLNTLELFDN-WLT  136 (452)
T ss_dssp             CSSCCSCC--CTTCSEEECCSSC-CCEECTTT---TTTCTTCCEEECCSS-CCCEECTTT-TTTCTTCCEEECCSS-CCS
T ss_pred             cCccCCCC--CCCccEEECcCCc-CceECHHH---cCCCCCCCEEECCCC-ccCCcChhh-ccCcccCCEEECCCC-cCC
Confidence            33455443  3689999999876 66543332   256899999999998 677755444 888999999999996 455


Q ss_pred             eecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCcc
Q 040122          119 EVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEP  198 (388)
Q Consensus       119 ~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l  198 (388)
                      .++...         +..+++|++|+++++. ++.+  +...+..+++|++|++.+|..+..++...            +
T Consensus       137 ~~~~~~---------~~~l~~L~~L~L~~N~-l~~~--~~~~~~~l~~L~~L~l~~~~~l~~i~~~~------------~  192 (452)
T 3zyi_A          137 VIPSGA---------FEYLSKLRELWLRNNP-IESI--PSYAFNRVPSLMRLDLGELKKLEYISEGA------------F  192 (452)
T ss_dssp             BCCTTT---------SSSCTTCCEEECCSCC-CCEE--CTTTTTTCTTCCEEECCCCTTCCEECTTT------------T
T ss_pred             ccChhh---------hcccCCCCEEECCCCC-ccee--CHhHHhcCCcccEEeCCCCCCccccChhh------------c
Confidence            554321         3568999999998874 5555  33336789999999999988888877653            7


Q ss_pred             ccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCC
Q 040122          199 QKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLEN  277 (388)
Q Consensus       199 ~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~  277 (388)
                      ..+++|+.|++++ ....+ +.+..+++|+.|+++++ .++.+....+   ..+++|+.|++++|......+..+..+++
T Consensus       193 ~~l~~L~~L~L~~n~l~~~-~~~~~l~~L~~L~Ls~N-~l~~~~~~~~---~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  267 (452)
T 3zyi_A          193 EGLFNLKYLNLGMCNIKDM-PNLTPLVGLEELEMSGN-HFPEIRPGSF---HGLSSLKKLWVMNSQVSLIERNAFDGLAS  267 (452)
T ss_dssp             TTCTTCCEEECTTSCCSSC-CCCTTCTTCCEEECTTS-CCSEECGGGG---TTCTTCCEEECTTSCCCEECTTTTTTCTT
T ss_pred             cCCCCCCEEECCCCccccc-ccccccccccEEECcCC-cCcccCcccc---cCccCCCEEEeCCCcCceECHHHhcCCCC
Confidence            7899999999998 33333 45778899999999985 5666654433   67889999999998766555667788899


Q ss_pred             CCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          278 LEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       278 L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      |+.|+++++ .++.++.. ....+++|+.|++++|+
T Consensus       268 L~~L~L~~N-~l~~~~~~-~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          268 LVELNLAHN-NLSSLPHD-LFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             CCEEECCSS-CCSCCCTT-SSTTCTTCCEEECCSSC
T ss_pred             CCEEECCCC-cCCccChH-HhccccCCCEEEccCCC
Confidence            999999987 67666543 33678999999998875

>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=99.76  E-value=1.9e-17  Score=148.94  Aligned_cols=205  Identities=18%  Similarity=0.163  Sum_probs=117.1

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .++|++|+++++ .++.+++.. +.++++|++|++++| .+..+....         +..+++|++|+++++..++.+  
T Consensus        31 ~~~l~~L~l~~n-~i~~~~~~~-~~~~~~L~~L~l~~n-~l~~~~~~~---------~~~l~~L~~L~l~~n~~l~~~--   96 (285)
T 1ozn_A           31 PAASQRIFLHGN-RISHVPAAS-FRACRNLTILWLHSN-VLARIDAAA---------FTGLALLEQLDLSDNAQLRSV--   96 (285)
T ss_dssp             CTTCSEEECTTS-CCCEECTTT-TTTCTTCCEEECCSS-CCCEECTTT---------TTTCTTCCEEECCSCTTCCCC--
T ss_pred             CCCceEEEeeCC-cCCccCHHH-cccCCCCCEEECCCC-ccceeCHhh---------cCCccCCCEEeCCCCCCcccc--
Confidence            345555555555 344433222 455555666666553 233331110         234555566666555434443  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cccccc-ccccCCCCcceEEecCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLF-DEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~-~~~~~~~~L~~L~l~~~  234 (388)
                      +...+..+++|++|++.++ .++..+...            +..+++|+.|++++ ....++ ..++.+++|+.|+++++
T Consensus        97 ~~~~~~~l~~L~~L~l~~n-~l~~~~~~~------------~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  163 (285)
T 1ozn_A           97 DPATFHGLGRLHTLHLDRC-GLQELGPGL------------FRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGN  163 (285)
T ss_dssp             CTTTTTTCTTCCEEECTTS-CCCCCCTTT------------TTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CHHHhcCCcCCCEEECCCC-cCCEECHhH------------hhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCC
Confidence            1222445566666666654 344333221            45556666666655 222222 22456778888888774


Q ss_pred             CCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccc
Q 040122          235 HKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKM  314 (388)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~  314 (388)
                       .++.++...+   ..+++|++|++++|......+..+..+++|+.|+++++ .++.++.. ....+++|++|++++|+.
T Consensus       164 -~l~~~~~~~~---~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~-~~~~l~~L~~L~l~~N~~  237 (285)
T 1ozn_A          164 -RISSVPERAF---RGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN-NLSALPTE-ALAPLRALQYLRLNDNPW  237 (285)
T ss_dssp             -CCCEECTTTT---TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCSCCCHH-HHTTCTTCCEEECCSSCE
T ss_pred             -cccccCHHHh---cCccccCEEECCCCcccccCHhHccCcccccEeeCCCC-cCCcCCHH-HcccCcccCEEeccCCCc
Confidence             5666655432   56778888888887655555677778888999998886 56665433 336788899999888764

>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=99.73  E-value=8.5e-17  Score=149.33  Aligned_cols=278  Identities=15%  Similarity=0.106  Sum_probs=178.5

Q ss_pred             cCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccc
Q 040122           47 IGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEEL  126 (388)
Q Consensus        47 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~  126 (388)
                      ..++.....+.++.. ++.++...      .++|++|++++| .++.+++.. +.++++|++|++++| .+..++...  
T Consensus        28 ~~C~~~~~c~~~~~~-l~~iP~~~------~~~L~~L~l~~n-~i~~~~~~~-~~~l~~L~~L~L~~n-~l~~~~~~~--   95 (353)
T 2z80_A           28 LSCDRNGICKGSSGS-LNSIPSGL------TEAVKSLDLSNN-RITYISNSD-LQRCVNLQALVLTSN-GINTIEEDS--   95 (353)
T ss_dssp             CEECTTSEEECCSTT-CSSCCTTC------CTTCCEEECTTS-CCCEECTTT-TTTCTTCCEEECTTS-CCCEECTTT--
T ss_pred             CCCCCCeEeeCCCCC-cccccccc------cccCcEEECCCC-cCcccCHHH-hccCCCCCEEECCCC-ccCccCHhh--
Confidence            344555556665443 55444333      468888988887 566655433 788888999999886 455543211  


Q ss_pred             cccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCce
Q 040122          127 SAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEEN  206 (388)
Q Consensus       127 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~  206 (388)
                             +..+++|++|+++++ .++.+  +...+..+++|++|+++++ .++.++....           +..+++|+.
T Consensus        96 -------~~~l~~L~~L~Ls~n-~l~~~--~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~-----------~~~l~~L~~  153 (353)
T 2z80_A           96 -------FSSLGSLEHLDLSYN-YLSNL--SSSWFKPLSSLTFLNLLGN-PYKTLGETSL-----------FSHLTKLQI  153 (353)
T ss_dssp             -------TTTCTTCCEEECCSS-CCSSC--CHHHHTTCTTCSEEECTTC-CCSSSCSSCS-----------CTTCTTCCE
T ss_pred             -------cCCCCCCCEEECCCC-cCCcC--CHhHhCCCccCCEEECCCC-CCcccCchhh-----------hccCCCCcE
Confidence                   356788888888876 34554  2222567888999998886 5666655222           677888888


Q ss_pred             EEEecc--cccc-cccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCC-ccccCCCCEEe
Q 040122          207 LLVANQ--IQHL-FDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPP-SWHLENLEALK  282 (388)
Q Consensus       207 L~l~~~--~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~-~~~~~~L~~L~  282 (388)
                      |+++++  ...+ +..++.+++|++|+++++ .++......+   ..+++|++|+++++.. ..++.. +..+++|++|+
T Consensus       154 L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~l---~~l~~L~~L~l~~n~l-~~~~~~~~~~~~~L~~L~  228 (353)
T 2z80_A          154 LRVGNMDTFTKIQRKDFAGLTFLEELEIDAS-DLQSYEPKSL---KSIQNVSHLILHMKQH-ILLLEIFVDVTSSVECLE  228 (353)
T ss_dssp             EEEEESSSCCEECTTTTTTCCEEEEEEEEET-TCCEECTTTT---TTCSEEEEEEEECSCS-TTHHHHHHHHTTTEEEEE
T ss_pred             EECCCCccccccCHHHccCCCCCCEEECCCC-CcCccCHHHH---hccccCCeecCCCCcc-ccchhhhhhhcccccEEE
Confidence            888873  3333 345677889999999885 4555543332   6778999999998763 444432 23578999999


Q ss_pred             eccCcCcccccchh--hhcCccccceeeEccccccc----hhhcccccccCCccccccccceEecccCCCcceecCCCcc
Q 040122          283 VSKCHELINVLTLS--ASKNLVNLGRMMIADCKMIE----QIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYA  356 (388)
Q Consensus       283 l~~c~~l~~~~~~~--~~~~l~~L~~L~l~~~~~~~----~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  356 (388)
                      ++++ .++......  .......++.+++.++....    .++.        ....+++|++|+++++ .++.++.+.. 
T Consensus       229 L~~n-~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~--------~l~~l~~L~~L~Ls~N-~l~~i~~~~~-  297 (353)
T 2z80_A          229 LRDT-DLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMK--------LLNQISGLLELEFSRN-QLKSVPDGIF-  297 (353)
T ss_dssp             EESC-BCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHH--------HHHTCTTCCEEECCSS-CCCCCCTTTT-
T ss_pred             CCCC-ccccccccccccccccchhhccccccccccCcchhhhHH--------HHhcccCCCEEECCCC-CCCccCHHHH-
Confidence            9886 444433221  12345667777777654221    1211        1245689999999987 5777776541 


Q ss_pred             ccCCCcceEEeccCCCcc
Q 040122          357 LEFPSLKQVVVRQCPKMK  374 (388)
Q Consensus       357 ~~~~~L~~L~l~~c~~l~  374 (388)
                      ..+++|++|++.+|+-..
T Consensus       298 ~~l~~L~~L~L~~N~~~~  315 (353)
T 2z80_A          298 DRLTSLQKIWLHTNPWDC  315 (353)
T ss_dssp             TTCTTCCEEECCSSCBCC
T ss_pred             hcCCCCCEEEeeCCCccC
Confidence            127999999999887443

>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=99.73  E-value=5.8e-17  Score=147.34  Aligned_cols=245  Identities=18%  Similarity=0.147  Sum_probs=142.4

Q ss_pred             cceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccC--Chhhhhc
Q 040122           25 GELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAI--PANLLRC  102 (388)
Q Consensus        25 ~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~--~~~~~~~  102 (388)
                      |..+++.+    ..++.+|..+  +++|++|+++++. +..++...   ...+++|++|++++| .++...  +.. +..
T Consensus         9 ~~~l~c~~----~~l~~ip~~~--~~~l~~L~L~~n~-l~~i~~~~---~~~l~~L~~L~L~~n-~l~~~~~~~~~-~~~   76 (306)
T 2z66_A            9 GTEIRCNS----KGLTSVPTGI--PSSATRLELESNK-LQSLPHGV---FDKLTQLTKLSLSSN-GLSFKGCCSQS-DFG   76 (306)
T ss_dssp             TTEEECCS----SCCSSCCSCC--CTTCCEEECCSSC-CCCCCTTT---TTTCTTCSEEECCSS-CCCEEEEEEHH-HHS
T ss_pred             CCEEEcCC----CCcccCCCCC--CCCCCEEECCCCc-cCccCHhH---hhccccCCEEECCCC-ccCcccCcccc-ccc
Confidence            34444444    2333444433  3678888888765 55444322   145788888888877 444321  222 567


Q ss_pred             CCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccccc
Q 040122          103 LNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFT  182 (388)
Q Consensus       103 l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~  182 (388)
                      +++|++|++++| .+..++..          +..+++|++|+++++. +..+... ..+..+++|++|+++++ .+....
T Consensus        77 ~~~L~~L~Ls~n-~i~~l~~~----------~~~l~~L~~L~l~~n~-l~~~~~~-~~~~~l~~L~~L~l~~n-~l~~~~  142 (306)
T 2z66_A           77 TTSLKYLDLSFN-GVITMSSN----------FLGLEQLEHLDFQHSN-LKQMSEF-SVFLSLRNLIYLDISHT-HTRVAF  142 (306)
T ss_dssp             CSCCCEEECCSC-SEEEEEEE----------EETCTTCCEEECTTSE-EESSTTT-TTTTTCTTCCEEECTTS-CCEECS
T ss_pred             ccccCEEECCCC-ccccChhh----------cCCCCCCCEEECCCCc-ccccccc-hhhhhccCCCEEECCCC-cCCccc
Confidence            888888888885 34444432          2457888888887753 3444211 22567888888888886 444443


Q ss_pred             CCcceeeecccCCCccccccCCceEEEec-ccc--cccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEE
Q 040122          183 SNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQ--HLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEI  259 (388)
Q Consensus       183 ~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~--~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i  259 (388)
                      ...            +..+++|+.|++++ ...  ..+..+..+++|+.|+++++ .++.+....+   ..+++|++|++
T Consensus       143 ~~~------------~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~---~~l~~L~~L~L  206 (306)
T 2z66_A          143 NGI------------FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAF---NSLSSLQVLNM  206 (306)
T ss_dssp             TTT------------TTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS-CCCEECTTTT---TTCTTCCEEEC
T ss_pred             hhh------------cccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCC-CcCCcCHHHh---cCCCCCCEEEC
Confidence            332            56677777777776 222  34555666777777777764 4555533322   45666777777


Q ss_pred             ecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCc-cccceeeEcccc
Q 040122          260 SECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNL-VNLGRMMIADCK  313 (388)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l-~~L~~L~l~~~~  313 (388)
                      ++|......+..+..+++|++|+++++ .+.......+ ..+ ++|++|++++|+
T Consensus       207 ~~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~-~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          207 SHNNFFSLDTFPYKCLNSLQVLDYSLN-HIMTSKKQEL-QHFPSSLAFLNLTQND  259 (306)
T ss_dssp             TTSCCSBCCSGGGTTCTTCCEEECTTS-CCCBCSSSSC-CCCCTTCCEEECTTCC
T ss_pred             CCCccCccChhhccCcccCCEeECCCC-CCcccCHHHH-HhhhccCCEEEccCCC
Confidence            766433322224555667777777665 3433322222 333 366677766654

>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=99.72  E-value=2e-16  Score=156.52  Aligned_cols=139  Identities=19%  Similarity=0.083  Sum_probs=81.4

Q ss_pred             ccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCC
Q 040122          201 LKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLE  279 (388)
Q Consensus       201 l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~  279 (388)
                      +++|+.|++++ ....++   ..+++|+.|+++++ .++.++       ..+++|+.|++++|. +..++.   .+++|+
T Consensus       160 ~~~L~~L~L~~N~l~~l~---~~~~~L~~L~Ls~N-~l~~l~-------~~~~~L~~L~L~~N~-l~~l~~---~~~~L~  224 (622)
T 3g06_A          160 PSELCKLWAYNNQLTSLP---MLPSGLQELSVSDN-QLASLP-------TLPSELYKLWAYNNR-LTSLPA---LPSGLK  224 (622)
T ss_dssp             CTTCCEEECCSSCCSCCC---CCCTTCCEEECCSS-CCSCCC-------CCCTTCCEEECCSSC-CSSCCC---CCTTCC
T ss_pred             cCCCCEEECCCCCCCCCc---ccCCCCcEEECCCC-CCCCCC-------CccchhhEEECcCCc-ccccCC---CCCCCC
Confidence            34566666665 222333   33567777777764 455544       224667777777653 334443   246777


Q ss_pred             EEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccC
Q 040122          280 ALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEF  359 (388)
Q Consensus       280 ~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~  359 (388)
                      +|+++++ .++.++     ..+++|+.|++++|. ++.++.           .+++|++|+++++ .++.++.....  +
T Consensus       225 ~L~Ls~N-~L~~lp-----~~l~~L~~L~Ls~N~-L~~lp~-----------~~~~L~~L~Ls~N-~L~~lp~~l~~--l  283 (622)
T 3g06_A          225 ELIVSGN-RLTSLP-----VLPSELKELMVSGNR-LTSLPM-----------LPSGLLSLSVYRN-QLTRLPESLIH--L  283 (622)
T ss_dssp             EEECCSS-CCSCCC-----CCCTTCCEEECCSSC-CSCCCC-----------CCTTCCEEECCSS-CCCSCCGGGGG--S
T ss_pred             EEEccCC-ccCcCC-----CCCCcCcEEECCCCC-CCcCCc-----------ccccCcEEeCCCC-CCCcCCHHHhh--c
Confidence            7777765 455543     345677777777763 333322           3467778888776 46666654433  6


Q ss_pred             CCcceEEeccCCCccc
Q 040122          360 PSLKQVVVRQCPKMKI  375 (388)
Q Consensus       360 ~~L~~L~l~~c~~l~~  375 (388)
                      ++|+.|++.+|+--..
T Consensus       284 ~~L~~L~L~~N~l~~~  299 (622)
T 3g06_A          284 SSETTVNLEGNPLSER  299 (622)
T ss_dssp             CTTCEEECCSCCCCHH
T ss_pred             cccCEEEecCCCCCCc
Confidence            7888888877764433

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

Probab=99.72  E-value=3.6e-16  Score=149.46  Aligned_cols=225  Identities=17%  Similarity=0.168  Sum_probs=161.6

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .++++.|++++| .++.+++.. +.++++|++|++++| .+..++...         +..+++|++|+++++ .++.+  
T Consensus        63 ~~~l~~L~L~~n-~i~~~~~~~-~~~l~~L~~L~Ls~n-~i~~i~~~~---------~~~l~~L~~L~L~~n-~l~~~--  127 (440)
T 3zyj_A           63 STNTRLLNLHEN-QIQIIKVNS-FKHLRHLEILQLSRN-HIRTIEIGA---------FNGLANLNTLELFDN-RLTTI--  127 (440)
T ss_dssp             CTTCSEEECCSC-CCCEECTTT-TSSCSSCCEEECCSS-CCCEECGGG---------GTTCSSCCEEECCSS-CCSSC--
T ss_pred             CCCCcEEEccCC-cCCeeCHHH-hhCCCCCCEEECCCC-cCCccChhh---------ccCCccCCEEECCCC-cCCee--
Confidence            578999999988 677755444 889999999999996 455553211         466899999999886 45665  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec--ccccccc-cccCCCCcceEEecC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN--QIQHLFD-EKVAFPQLGNLRLSG  233 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~--~~~~~~~-~~~~~~~L~~L~l~~  233 (388)
                      +...+..+++|++|+++++ .++.++...            +..+++|+.|++++  ....++. .+..+++|+.|++++
T Consensus       128 ~~~~~~~l~~L~~L~L~~N-~i~~~~~~~------------~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~  194 (440)
T 3zyj_A          128 PNGAFVYLSKLKELWLRNN-PIESIPSYA------------FNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAM  194 (440)
T ss_dssp             CTTTSCSCSSCCEEECCSC-CCCEECTTT------------TTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTT
T ss_pred             CHhHhhccccCceeeCCCC-cccccCHHH------------hhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCC
Confidence            3333678899999999997 577666543            67889999999987  2333332 466788999999988


Q ss_pred             CCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          234 LHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      + .++.++..     ..+++|++|++++|......+..+..+++|+.|+++++ .+..+.... ..++++|+.|++++|.
T Consensus       195 n-~l~~~~~~-----~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~L~~N~  266 (440)
T 3zyj_A          195 C-NLREIPNL-----TPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS-QIQVIERNA-FDNLQSLVEINLAHNN  266 (440)
T ss_dssp             S-CCSSCCCC-----TTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTC-CCCEECTTS-STTCTTCCEEECTTSC
T ss_pred             C-cCcccccc-----CCCcccCEEECCCCccCccChhhhccCccCCEEECCCC-ceeEEChhh-hcCCCCCCEEECCCCC
Confidence            5 56666532     67788999999998655555677888899999999886 566654432 3678899999998874


Q ss_pred             ccchhhcccccccCCccccccccceEecccCC
Q 040122          314 MIEQIIQLQVGEEAKDCNVFKELEYLGLDCLP  345 (388)
Q Consensus       314 ~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  345 (388)
                       ++.++.   .    ....+++|+.|++.+++
T Consensus       267 -l~~~~~---~----~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          267 -LTLLPH---D----LFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             -CCCCCT---T----TTSSCTTCCEEECCSSC
T ss_pred             -CCccCh---h----HhccccCCCEEEcCCCC
Confidence             333332   0    12346788888887654

>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=99.72  E-value=3.4e-16  Score=150.00  Aligned_cols=80  Identities=21%  Similarity=0.237  Sum_probs=50.4

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCC
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF  157 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  157 (388)
                      ++|++|++++| .++.++ .  ++++++|++|++++| .+..+|.             ..++|++|+++++ .++.+  +
T Consensus       131 ~~L~~L~L~~n-~l~~lp-~--~~~l~~L~~L~l~~N-~l~~lp~-------------~~~~L~~L~L~~n-~l~~l--~  189 (454)
T 1jl5_A          131 PLLEYLGVSNN-QLEKLP-E--LQNSSFLKIIDVDNN-SLKKLPD-------------LPPSLEFIAAGNN-QLEEL--P  189 (454)
T ss_dssp             TTCCEEECCSS-CCSSCC-C--CTTCTTCCEEECCSS-CCSCCCC-------------CCTTCCEEECCSS-CCSSC--C
T ss_pred             CCCCEEECcCC-CCCCCc-c--cCCCCCCCEEECCCC-cCcccCC-------------CcccccEEECcCC-cCCcC--c
Confidence            57777887777 555543 2  677788888888775 3444432             2457777777765 34444  2


Q ss_pred             CCccccCCCcceEeEecCCCcccc
Q 040122          158 TGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       158 ~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                        .++.+++|++|++.+| .++.+
T Consensus       190 --~~~~l~~L~~L~l~~N-~l~~l  210 (454)
T 1jl5_A          190 --ELQNLPFLTAIYADNN-SLKKL  210 (454)
T ss_dssp             --CCTTCTTCCEEECCSS-CCSSC
T ss_pred             --cccCCCCCCEEECCCC-cCCcC
Confidence              2567777777777776 44443

>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=99.72  E-value=1.9e-16  Score=143.91  Aligned_cols=228  Identities=18%  Similarity=0.138  Sum_probs=157.2

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .++|++|++++| .++.++ ...+.++++|++|++++|. +..+.....       ....+++|++|+++++. +..+  
T Consensus        27 ~~~l~~L~L~~n-~l~~i~-~~~~~~l~~L~~L~L~~n~-l~~~~~~~~-------~~~~~~~L~~L~Ls~n~-i~~l--   93 (306)
T 2z66_A           27 PSSATRLELESN-KLQSLP-HGVFDKLTQLTKLSLSSNG-LSFKGCCSQ-------SDFGTTSLKYLDLSFNG-VITM--   93 (306)
T ss_dssp             CTTCCEEECCSS-CCCCCC-TTTTTTCTTCSEEECCSSC-CCEEEEEEH-------HHHSCSCCCEEECCSCS-EEEE--
T ss_pred             CCCCCEEECCCC-ccCccC-HhHhhccccCCEEECCCCc-cCcccCccc-------ccccccccCEEECCCCc-cccC--
Confidence            579999999998 677644 4447899999999999963 433311000       02348999999999874 4454  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cc-ccccccccCCCCcceEEecCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QI-QHLFDEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~-~~~~~~~~~~~~L~~L~l~~~  234 (388)
                      +.. +..+++|++|++.++ .++..+....           +..+++|+.|++++ .. ...+..+..+++|+.|+++++
T Consensus        94 ~~~-~~~l~~L~~L~l~~n-~l~~~~~~~~-----------~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  160 (306)
T 2z66_A           94 SSN-FLGLEQLEHLDFQHS-NLKQMSEFSV-----------FLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGN  160 (306)
T ss_dssp             EEE-EETCTTCCEEECTTS-EEESSTTTTT-----------TTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTC
T ss_pred             hhh-cCCCCCCCEEECCCC-cccccccchh-----------hhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCC
Confidence            223 668999999999996 5666654222           77889999999987 22 233445667889999999886


Q ss_pred             CCcce--ecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          235 HKVQH--LWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       235 ~~l~~--~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      . +..  .+...    ..+++|++|++++|......+..+..+++|++|+++++ .+..++... ...+++|++|++++|
T Consensus       161 ~-l~~~~~~~~~----~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~-~~~l~~L~~L~L~~N  233 (306)
T 2z66_A          161 S-FQENFLPDIF----TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHN-NFFSLDTFP-YKCLNSLQVLDYSLN  233 (306)
T ss_dssp             E-EGGGEECSCC----TTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS-CCSBCCSGG-GTTCTTCCEEECTTS
T ss_pred             c-cccccchhHH----hhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCC-ccCccChhh-ccCcccCCEeECCCC
Confidence            3 432  33222    67788999999988655554667788889999999886 455554432 367888999999888


Q ss_pred             cccchhhcccccccCCccccc-cccceEecccCC
Q 040122          313 KMIEQIIQLQVGEEAKDCNVF-KELEYLGLDCLP  345 (388)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~~~~-~~L~~L~l~~~~  345 (388)
                      ......+.        ....+ ++|++|++++++
T Consensus       234 ~l~~~~~~--------~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          234 HIMTSKKQ--------ELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             CCCBCSSS--------SCCCCCTTCCEEECTTCC
T ss_pred             CCcccCHH--------HHHhhhccCCEEEccCCC
Confidence            54333222        12334 478888888764

>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=99.72  E-value=4.5e-16  Score=149.34  Aligned_cols=225  Identities=19%  Similarity=0.147  Sum_probs=151.6

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .+++++|++++| +++.+.+.. +.++++|++|++++| .+..++...         +..+++|++|+++++. +..+  
T Consensus        74 ~~~l~~L~L~~n-~i~~~~~~~-~~~l~~L~~L~Ls~n-~i~~~~~~~---------~~~l~~L~~L~L~~n~-l~~~--  138 (452)
T 3zyi_A           74 PSNTRYLNLMEN-NIQMIQADT-FRHLHHLEVLQLGRN-SIRQIEVGA---------FNGLASLNTLELFDNW-LTVI--  138 (452)
T ss_dssp             CTTCSEEECCSS-CCCEECTTT-TTTCTTCCEEECCSS-CCCEECTTT---------TTTCTTCCEEECCSSC-CSBC--
T ss_pred             CCCccEEECcCC-cCceECHHH-cCCCCCCCEEECCCC-ccCCcChhh---------ccCcccCCEEECCCCc-CCcc--
Confidence            578889999888 666655444 788899999999885 455543211         4568889999998763 5555  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec--ccccccc-cccCCCCcceEEecC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN--QIQHLFD-EKVAFPQLGNLRLSG  233 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~--~~~~~~~-~~~~~~~L~~L~l~~  233 (388)
                      +...+..+++|++|+++++ .++.++...            +..+++|+.|++++  ....++. .+..+++|+.|++++
T Consensus       139 ~~~~~~~l~~L~~L~L~~N-~l~~~~~~~------------~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~  205 (452)
T 3zyi_A          139 PSGAFEYLSKLRELWLRNN-PIESIPSYA------------FNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGM  205 (452)
T ss_dssp             CTTTSSSCTTCCEEECCSC-CCCEECTTT------------TTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTT
T ss_pred             ChhhhcccCCCCEEECCCC-CcceeCHhH------------HhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCC
Confidence            3333567888999999886 566666543            67788888888876  2333332 356678888888887


Q ss_pred             CCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          234 LHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      + .++.++..     ..+++|++|++++|......+..+..+++|++|+++++ .+..+.... ...+++|+.|++++|.
T Consensus       206 n-~l~~~~~~-----~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~L~~N~  277 (452)
T 3zyi_A          206 C-NIKDMPNL-----TPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNA-FDGLASLVELNLAHNN  277 (452)
T ss_dssp             S-CCSSCCCC-----TTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTS-CCCEECTTT-TTTCTTCCEEECCSSC
T ss_pred             C-cccccccc-----cccccccEEECcCCcCcccCcccccCccCCCEEEeCCC-cCceECHHH-hcCCCCCCEEECCCCc
Confidence            5 45555421     66778888888887655555666777888888888876 455543332 3567888888888774


Q ss_pred             ccchhhcccccccCCccccccccceEecccCC
Q 040122          314 MIEQIIQLQVGEEAKDCNVFKELEYLGLDCLP  345 (388)
Q Consensus       314 ~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  345 (388)
                       +..++.   .    ....+++|+.|++.+++
T Consensus       278 -l~~~~~---~----~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          278 -LSSLPH---D----LFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             -CSCCCT---T----SSTTCTTCCEEECCSSC
T ss_pred             -CCccCh---H----HhccccCCCEEEccCCC
Confidence             333322   0    11345778888887653

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

Probab=99.72  E-value=1.3e-17  Score=152.45  Aligned_cols=266  Identities=15%  Similarity=0.159  Sum_probs=180.5

Q ss_pred             cCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccc
Q 040122           47 IGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEEL  126 (388)
Q Consensus        47 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~  126 (388)
                      ..+++|++|+++++. +.......   ...+++|++|++++| .+...++   +..+++|++|++++| .+..+      
T Consensus        31 ~~~~~L~~L~L~~n~-l~~~~~~~---~~~l~~L~~L~Ls~n-~l~~~~~---~~~l~~L~~L~Ls~n-~l~~l------   95 (317)
T 3o53_A           31 QSAWNVKELDLSGNP-LSQISAAD---LAPFTKLELLNLSSN-VLYETLD---LESLSTLRTLDLNNN-YVQEL------   95 (317)
T ss_dssp             TTGGGCSEEECTTSC-CCCCCHHH---HTTCTTCCEEECTTS-CCEEEEE---ETTCTTCCEEECCSS-EEEEE------
T ss_pred             ccCCCCCEEECcCCc-cCcCCHHH---hhCCCcCCEEECCCC-cCCcchh---hhhcCCCCEEECcCC-ccccc------
Confidence            456789999999875 66443222   156899999999998 5666454   789999999999996 45554      


Q ss_pred             cccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCce
Q 040122          127 SAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEEN  206 (388)
Q Consensus       127 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~  206 (388)
                              ...++|++|+++++. +..+.     ...+++|++|++.++ .++..+...            +..+++|+.
T Consensus        96 --------~~~~~L~~L~l~~n~-l~~~~-----~~~~~~L~~L~l~~N-~l~~~~~~~------------~~~l~~L~~  148 (317)
T 3o53_A           96 --------LVGPSIETLHAANNN-ISRVS-----CSRGQGKKNIYLANN-KITMLRDLD------------EGCRSRVQY  148 (317)
T ss_dssp             --------EECTTCCEEECCSSC-CSEEE-----ECCCSSCEEEECCSS-CCCSGGGBC------------TGGGSSEEE
T ss_pred             --------cCCCCcCEEECCCCc-cCCcC-----ccccCCCCEEECCCC-CCCCccchh------------hhccCCCCE
Confidence                    235899999998864 45541     235788999999997 566655432            677899999


Q ss_pred             EEEec-ccccc-cccc-cCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEee
Q 040122          207 LLVAN-QIQHL-FDEK-VAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKV  283 (388)
Q Consensus       207 L~l~~-~~~~~-~~~~-~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l  283 (388)
                      |++++ ..... +..+ ..+++|+.|+++++ .++.++..     ..+++|++|++++|. +..++..+..+++|+.|++
T Consensus       149 L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~-----~~l~~L~~L~Ls~N~-l~~l~~~~~~l~~L~~L~L  221 (317)
T 3o53_A          149 LDLKLNEIDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQ-----VVFAKLKTLDLSSNK-LAFMGPEFQSAAGVTWISL  221 (317)
T ss_dssp             EECTTSCCCEEEGGGGGGGTTTCCEEECTTS-CCCEEECC-----CCCTTCCEEECCSSC-CCEECGGGGGGTTCSEEEC
T ss_pred             EECCCCCCCcccHHHHhhccCcCCEEECCCC-cCcccccc-----cccccCCEEECCCCc-CCcchhhhcccCcccEEEC
Confidence            99988 32222 2333 35789999999885 46666433     347889999999874 4556666888899999999


Q ss_pred             ccCcCcccccchhhhcCccccceeeEcccccc-chhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCc
Q 040122          284 SKCHELINVLTLSASKNLVNLGRMMIADCKMI-EQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSL  362 (388)
Q Consensus       284 ~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~-~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L  362 (388)
                      +++ .++.++..  ...+++|+.|++++|+.. ..++.        ....++.|+.|++.+++.++........  .+.+
T Consensus       222 ~~N-~l~~l~~~--~~~l~~L~~L~l~~N~~~~~~~~~--------~~~~~~~L~~l~l~~~~~l~~~~~~~~~--~~~~  288 (317)
T 3o53_A          222 RNN-KLVLIEKA--LRFSQNLEHFDLRGNGFHCGTLRD--------FFSKNQRVQTVAKQTVKKLTGQNEEECT--VPTL  288 (317)
T ss_dssp             TTS-CCCEECTT--CCCCTTCCEEECTTCCCBHHHHHH--------HHHTCHHHHHHHHHHHHHHHSSSSCCCS--STTC
T ss_pred             cCC-cccchhhH--hhcCCCCCEEEccCCCccCcCHHH--------HHhccccceEEECCCchhccCCchhccC--CCce
Confidence            986 56665432  367889999999988654 22222        1234577888888766655544333311  2343


Q ss_pred             ceEEeccCCCcc
Q 040122          363 KQVVVRQCPKMK  374 (388)
Q Consensus       363 ~~L~l~~c~~l~  374 (388)
                      ....-.+|..+.
T Consensus       289 ~~~~~~cc~~l~  300 (317)
T 3o53_A          289 GHYGAYCCEDLP  300 (317)
T ss_dssp             EEETTEEEBCCT
T ss_pred             ecccceeeccCC
Confidence            343344565543

>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=99.72  E-value=2.9e-16  Score=150.48  Aligned_cols=75  Identities=20%  Similarity=0.136  Sum_probs=39.1

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      ++|++|+++++. +..++ ..    ..+++|++|++++| .++.++.     ..++|++|++++| .+..++.       
T Consensus       131 ~~L~~L~L~~n~-l~~lp-~~----~~l~~L~~L~l~~N-~l~~lp~-----~~~~L~~L~L~~n-~l~~l~~-------  190 (454)
T 1jl5_A          131 PLLEYLGVSNNQ-LEKLP-EL----QNSSFLKIIDVDNN-SLKKLPD-----LPPSLEFIAAGNN-QLEELPE-------  190 (454)
T ss_dssp             TTCCEEECCSSC-CSSCC-CC----TTCTTCCEEECCSS-CCSCCCC-----CCTTCCEEECCSS-CCSSCCC-------
T ss_pred             CCCCEEECcCCC-CCCCc-cc----CCCCCCCEEECCCC-cCcccCC-----CcccccEEECcCC-cCCcCcc-------
Confidence            467777776654 44333 12    45666666666666 4444222     1246666666664 3333332       


Q ss_pred             ccccCCcCccccEeecccC
Q 040122          130 EEHIGPLFPRLLSLKLIDL  148 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~  148 (388)
                          +..+++|++|+++++
T Consensus       191 ----~~~l~~L~~L~l~~N  205 (454)
T 1jl5_A          191 ----LQNLPFLTAIYADNN  205 (454)
T ss_dssp             ----CTTCTTCCEEECCSS
T ss_pred             ----ccCCCCCCEEECCCC
Confidence                234555555555554

>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=99.72  E-value=4.1e-16  Score=155.70  Aligned_cols=124  Identities=23%  Similarity=0.150  Sum_probs=62.3

Q ss_pred             hhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCC
Q 040122          249 KAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAK  328 (388)
Q Consensus       249 ~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~  328 (388)
                      ..+++++.++++.+......+..+..+++|+.|+++++......... ....+++|++|++++|. ++.++.       .
T Consensus       442 ~~l~~l~~l~ls~n~l~~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~~-~~~~l~~L~~L~Ls~N~-L~~l~~-------~  512 (635)
T 4g8a_A          442 LSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD-IFTELRNLTFLDLSQCQ-LEQLSP-------T  512 (635)
T ss_dssp             TTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECS-CCTTCTTCCEEECTTSC-CCEECT-------T
T ss_pred             ccccccccccccccccccccccccccchhhhhhhhhhcccccccCch-hhhhccccCEEECCCCc-cCCcCh-------H
Confidence            33445555555554443333444555666666666665433332221 22456667777776663 232211       0


Q ss_pred             ccccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCCCCCC
Q 040122          329 DCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDT  383 (388)
Q Consensus       329 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~  383 (388)
                      ....+++|++|+++++ +++.++.... ..+++|++|+++++.-.+..|..+.++
T Consensus       513 ~f~~l~~L~~L~Ls~N-~l~~l~~~~~-~~l~~L~~L~Ls~N~l~~~~~~~l~~l  565 (635)
T 4g8a_A          513 AFNSLSSLQVLNMSHN-NFFSLDTFPY-KCLNSLQVLDYSLNHIMTSKKQELQHF  565 (635)
T ss_dssp             TTTTCTTCCEEECTTS-CCCBCCCGGG-TTCTTCCEEECTTSCCCBCCSSCTTCC
T ss_pred             HHcCCCCCCEEECCCC-cCCCCChhHH-hCCCCCCEEECCCCcCCCCCHHHHHhh
Confidence            1234566677777664 3544443221 125667777776655444444455444

>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=99.71  E-value=4.3e-17  Score=151.32  Aligned_cols=265  Identities=14%  Similarity=0.104  Sum_probs=182.4

Q ss_pred             hhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccc
Q 040122           37 STIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDS  116 (388)
Q Consensus        37 ~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~  116 (388)
                      ..+..+|..+.  ++|++|+++++. +..++...   ...+++|++|++++| .++..++.. +.++++|++|++++| .
T Consensus        41 ~~l~~iP~~~~--~~L~~L~l~~n~-i~~~~~~~---~~~l~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~Ls~n-~  111 (353)
T 2z80_A           41 GSLNSIPSGLT--EAVKSLDLSNNR-ITYISNSD---LQRCVNLQALVLTSN-GINTIEEDS-FSSLGSLEHLDLSYN-Y  111 (353)
T ss_dssp             TTCSSCCTTCC--TTCCEEECTTSC-CCEECTTT---TTTCTTCCEEECTTS-CCCEECTTT-TTTCTTCCEEECCSS-C
T ss_pred             CCccccccccc--ccCcEEECCCCc-CcccCHHH---hccCCCCCEEECCCC-ccCccCHhh-cCCCCCCCEEECCCC-c
Confidence            34455666543  689999999876 76555422   256899999999998 677755543 889999999999996 4


Q ss_pred             cceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCC
Q 040122          117 LEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNK  196 (388)
Q Consensus       117 l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~  196 (388)
                      +..++...         +..+++|++|+++++ .++.+... ..+..+++|++|++.+|..+...+...           
T Consensus       112 l~~~~~~~---------~~~l~~L~~L~L~~n-~l~~l~~~-~~~~~l~~L~~L~l~~n~~~~~~~~~~-----------  169 (353)
T 2z80_A          112 LSNLSSSW---------FKPLSSLTFLNLLGN-PYKTLGET-SLFSHLTKLQILRVGNMDTFTKIQRKD-----------  169 (353)
T ss_dssp             CSSCCHHH---------HTTCTTCSEEECTTC-CCSSSCSS-CSCTTCTTCCEEEEEESSSCCEECTTT-----------
T ss_pred             CCcCCHhH---------hCCCccCCEEECCCC-CCcccCch-hhhccCCCCcEEECCCCccccccCHHH-----------
Confidence            45543311         356899999999987 35555221 236789999999999987677776543           


Q ss_pred             ccccccCCceEEEec-cc-ccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCC---
Q 040122          197 EPQKLKSEENLLVAN-QI-QHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPP---  271 (388)
Q Consensus       197 ~l~~l~~L~~L~l~~-~~-~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~---  271 (388)
                       ++.+++|+.|++++ .. ...+..++.+++|++|+++++. ++.++..   ....+++|++|++++|......+..   
T Consensus       170 -~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~-l~~~~~~---~~~~~~~L~~L~L~~n~l~~~~~~~l~~  244 (353)
T 2z80_A          170 -FAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQ-HILLLEI---FVDVTSSVECLELRDTDLDTFHFSELST  244 (353)
T ss_dssp             -TTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSC-STTHHHH---HHHHTTTEEEEEEESCBCTTCCCC----
T ss_pred             -ccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCc-cccchhh---hhhhcccccEEECCCCcccccccccccc
Confidence             78899999999998 33 3346677889999999999854 5554422   1256789999999998644322221   


Q ss_pred             ccccCCCCEEeeccCcCcccccc---hhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCC
Q 040122          272 SWHLENLEALKVSKCHELINVLT---LSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPS  346 (388)
Q Consensus       272 ~~~~~~L~~L~l~~c~~l~~~~~---~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  346 (388)
                      ......++.+++.++ .+.+...   ......+++|++|++++|. ++.++.   ++    ...+++|++|++++++-
T Consensus       245 ~~~~~~l~~l~L~~~-~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~-l~~i~~---~~----~~~l~~L~~L~L~~N~~  313 (353)
T 2z80_A          245 GETNSLIKKFTFRNV-KITDESLFQVMKLLNQISGLLELEFSRNQ-LKSVPD---GI----FDRLTSLQKIWLHTNPW  313 (353)
T ss_dssp             --CCCCCCEEEEESC-BCCHHHHHHHHHHHHTCTTCCEEECCSSC-CCCCCT---TT----TTTCTTCCEEECCSSCB
T ss_pred             ccccchhhccccccc-cccCcchhhhHHHHhcccCCCEEECCCCC-CCccCH---HH----HhcCCCCCEEEeeCCCc
Confidence            234567888888775 3333211   1234678899999999884 444443   11    14568999999998753

>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=99.71  E-value=3.6e-18  Score=169.56  Aligned_cols=90  Identities=13%  Similarity=0.077  Sum_probs=47.5

Q ss_pred             cccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecC
Q 040122          273 WHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCL  352 (388)
Q Consensus       273 ~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  352 (388)
                      ..+++|+.|++++  .+.+.....+...+++|++|++++|........      . -...+++|++|++++|+. +....
T Consensus       429 ~~~~~L~~L~L~~--~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~------~-l~~~~~~L~~L~L~~n~~-~~~~~  498 (594)
T 2p1m_B          429 EHCKDLRRLSLSG--LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMH------H-VLSGCDSLRKLEIRDCPF-GDKAL  498 (594)
T ss_dssp             HHCTTCCEEECCS--SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHH------H-HHHHCTTCCEEEEESCSC-CHHHH
T ss_pred             hhCCCccEEeecC--cccHHHHHHHHHhchhccEeeccCCCCcHHHHH------H-HHhcCCCcCEEECcCCCC-cHHHH
Confidence            3455666666644  333333233333456677777766642111110      0 013368888888888864 32211


Q ss_pred             CCccccCCCcceEEeccCCC
Q 040122          353 GNYALEFPSLKQVVVRQCPK  372 (388)
Q Consensus       353 ~~~~~~~~~L~~L~l~~c~~  372 (388)
                      ......+++|++|++++|+.
T Consensus       499 ~~~~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          499 LANASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             HHTGGGGGGSSEEEEESSCC
T ss_pred             HHHHHhCCCCCEEeeeCCCC
Confidence            11112368888888888875

>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=99.70  E-value=1.1e-15  Score=151.34  Aligned_cols=247  Identities=18%  Similarity=0.133  Sum_probs=187.0

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      .+++.|+++++. +..++...      .++|++|++++| .++.+++     .+++|++|++++|. +..+|.       
T Consensus        40 ~~l~~L~ls~n~-L~~lp~~l------~~~L~~L~L~~N-~l~~lp~-----~l~~L~~L~Ls~N~-l~~lp~-------   98 (622)
T 3g06_A           40 NGNAVLNVGESG-LTTLPDCL------PAHITTLVIPDN-NLTSLPA-----LPPELRTLEVSGNQ-LTSLPV-------   98 (622)
T ss_dssp             HCCCEEECCSSC-CSCCCSCC------CTTCSEEEECSC-CCSCCCC-----CCTTCCEEEECSCC-CSCCCC-------
T ss_pred             CCCcEEEecCCC-cCccChhh------CCCCcEEEecCC-CCCCCCC-----cCCCCCEEEcCCCc-CCcCCC-------
Confidence            569999999776 66555433      489999999999 6776443     57899999999964 666543       


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEE
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLV  209 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l  209 (388)
                            .+++|++|+++++ .+..+  +.    .+++|+.|++.++ .++.++..                +++|+.|++
T Consensus        99 ------~l~~L~~L~Ls~N-~l~~l--~~----~l~~L~~L~L~~N-~l~~lp~~----------------l~~L~~L~L  148 (622)
T 3g06_A           99 ------LPPGLLELSIFSN-PLTHL--PA----LPSGLCKLWIFGN-QLTSLPVL----------------PPGLQELSV  148 (622)
T ss_dssp             ------CCTTCCEEEECSC-CCCCC--CC----CCTTCCEEECCSS-CCSCCCCC----------------CTTCCEEEC
T ss_pred             ------CCCCCCEEECcCC-cCCCC--CC----CCCCcCEEECCCC-CCCcCCCC----------------CCCCCEEEC
Confidence                  4899999999886 45665  11    5789999999997 57766542                589999999


Q ss_pred             ec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcC
Q 040122          210 AN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHE  288 (388)
Q Consensus       210 ~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~  288 (388)
                      ++ ....++.   .+++|+.|+++++ .++.++       ..+++|+.|++++|. +..++.   .+++|+.|+++++ .
T Consensus       149 s~N~l~~l~~---~~~~L~~L~L~~N-~l~~l~-------~~~~~L~~L~Ls~N~-l~~l~~---~~~~L~~L~L~~N-~  212 (622)
T 3g06_A          149 SDNQLASLPA---LPSELCKLWAYNN-QLTSLP-------MLPSGLQELSVSDNQ-LASLPT---LPSELYKLWAYNN-R  212 (622)
T ss_dssp             CSSCCSCCCC---CCTTCCEEECCSS-CCSCCC-------CCCTTCCEEECCSSC-CSCCCC---CCTTCCEEECCSS-C
T ss_pred             cCCcCCCcCC---ccCCCCEEECCCC-CCCCCc-------ccCCCCcEEECCCCC-CCCCCC---ccchhhEEECcCC-c
Confidence            98 3333333   3578999999985 577766       446899999999975 445554   3579999999986 5


Q ss_pred             cccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEec
Q 040122          289 LINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVR  368 (388)
Q Consensus       289 l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~  368 (388)
                      ++.++     ..+++|+.|++++|. ++.++           ..+++|+.|+++++ .++.++.     .+++|+.|+++
T Consensus       213 l~~l~-----~~~~~L~~L~Ls~N~-L~~lp-----------~~l~~L~~L~Ls~N-~L~~lp~-----~~~~L~~L~Ls  269 (622)
T 3g06_A          213 LTSLP-----ALPSGLKELIVSGNR-LTSLP-----------VLPSELKELMVSGN-RLTSLPM-----LPSGLLSLSVY  269 (622)
T ss_dssp             CSSCC-----CCCTTCCEEECCSSC-CSCCC-----------CCCTTCCEEECCSS-CCSCCCC-----CCTTCCEEECC
T ss_pred             ccccC-----CCCCCCCEEEccCCc-cCcCC-----------CCCCcCcEEECCCC-CCCcCCc-----ccccCcEEeCC
Confidence            65543     235889999999884 44443           24589999999997 6777766     26899999999


Q ss_pred             cCCCcccccCCCCCCCCCC
Q 040122          369 QCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       369 ~c~~l~~lp~~~~~~~~L~  387 (388)
                      +| +++.+|..+.++++|+
T Consensus       270 ~N-~L~~lp~~l~~l~~L~  287 (622)
T 3g06_A          270 RN-QLTRLPESLIHLSSET  287 (622)
T ss_dssp             SS-CCCSCCGGGGGSCTTC
T ss_pred             CC-CCCcCCHHHhhccccC
Confidence            97 5779999898888886

>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=99.70  E-value=2.1e-18  Score=171.21  Aligned_cols=158  Identities=19%  Similarity=0.261  Sum_probs=94.1

Q ss_pred             cCCCCccceeeecccCccee-----eecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEE
Q 040122            9 LSIPKPCKVQVTEKEEGELH-----HWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAEL   83 (388)
Q Consensus         9 ~~~~~l~~l~~~~~~~~~~~-----~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L   83 (388)
                      ..|++|+++.+........+     .|.+ .....+..+.   ..+++|++|+++++. +....... +. ..+++|++|
T Consensus        63 ~~~~~L~~L~L~~~~~~~~~~l~~~~~~~-~~~~~l~~l~---~~~~~L~~L~L~~~~-~~~~~~~~-l~-~~~~~L~~L  135 (594)
T 2p1m_B           63 RRFPKVRSVELKGKPHFADFNLVPDGWGG-YVYPWIEAMS---SSYTWLEEIRLKRMV-VTDDCLEL-IA-KSFKNFKVL  135 (594)
T ss_dssp             HHCTTCCEEEEECSCGGGGGTCSCTTSCC-BCHHHHHHHH---HHCTTCCEEEEESCB-CCHHHHHH-HH-HHCTTCCEE
T ss_pred             hhCCCceEEeccCCCchhhcccccccccc-hhhHHHHHHH---HhCCCCCeEEeeCcE-EcHHHHHH-HH-HhCCCCcEE
Confidence            35789999998875544333     2434 3333444443   346889999999886 55322222 11 258999999


Q ss_pred             EecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCc-ccccccCCCCccc
Q 040122           84 VVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLP-KLKRFCNFTGNII  162 (388)
Q Consensus        84 ~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-~l~~~~~~~~~~~  162 (388)
                      ++.+|..++.........++++|++|++++|. +..... ..+    ......+++|+.|+++++. .+..-. ......
T Consensus       136 ~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-i~~~~~-~~l----~~~~~~~~~L~~L~l~~~~~~~~~~~-l~~l~~  208 (594)
T 2p1m_B          136 VLSSCEGFSTDGLAAIAATCRNLKELDLRESD-VDDVSG-HWL----SHFPDTYTSLVSLNISCLASEVSFSA-LERLVT  208 (594)
T ss_dssp             EEESCEEEEHHHHHHHHHHCTTCCEEECTTCE-EECCCG-GGG----GGSCTTCCCCCEEECTTCCSCCCHHH-HHHHHH
T ss_pred             eCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCc-cCCcch-HHH----HHHhhcCCcCcEEEecccCCcCCHHH-HHHHHH
Confidence            99999655542222335689999999999975 332110 000    0113467899999998775 111110 001023


Q ss_pred             cCCCcceEeEecCCCccc
Q 040122          163 ELPKLEYLIIENCPDMET  180 (388)
Q Consensus       163 ~l~~L~~L~l~~c~~l~~  180 (388)
                      .+++|++|++.+|..+..
T Consensus       209 ~~~~L~~L~L~~~~~~~~  226 (594)
T 2p1m_B          209 RCPNLKSLKLNRAVPLEK  226 (594)
T ss_dssp             HCTTCCEEECCTTSCHHH
T ss_pred             hCCCCcEEecCCCCcHHH
Confidence            578889998888754443

>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=99.69  E-value=1.6e-17  Score=164.86  Aligned_cols=86  Identities=12%  Similarity=0.066  Sum_probs=49.2

Q ss_pred             ccCcceeeecCCCC---ch-hHHHHhhhccCCCCcceEEecCccccceecccc-ccCccccCCccEEEecCCCCCcccCC
Q 040122           22 KEEGELHHWEGNNL---NS-TIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQ-ALPVRFFNNLAELVVDDSTNMSSAIP   96 (388)
Q Consensus        22 ~~~~~~~~~~~~~~---~~-~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~   96 (388)
                      .+++++++..++..   .. .+..++   ..+++|++|+++++. +....... +.....+++|++|++.+| .+...+ 
T Consensus       163 ~~~L~~L~L~~~~~~~~~~~~l~~~~---~~~~~L~~L~L~~n~-~~~~~~~~l~~~~~~~~~L~~L~L~~~-~~~~l~-  236 (592)
T 3ogk_B          163 CRKIKTLLMEESSFSEKDGKWLHELA---QHNTSLEVLNFYMTE-FAKISPKDLETIARNCRSLVSVKVGDF-EILELV-  236 (592)
T ss_dssp             CTTCSEEECTTCEEECCCSHHHHHHH---HHCCCCCEEECTTCC-CSSCCHHHHHHHHHHCTTCCEEECSSC-BGGGGH-
T ss_pred             CCCCCEEECccccccCcchhHHHHHH---hcCCCccEEEeeccC-CCccCHHHHHHHHhhCCCCcEEeccCc-cHHHHH-
Confidence            35556665555311   11 133443   346889999998665 32111000 001145789999999887 444433 


Q ss_pred             hhhhhcCCCCcEEEeccc
Q 040122           97 ANLLRCLNNLEWLAVRNC  114 (388)
Q Consensus        97 ~~~~~~l~~L~~L~l~~~  114 (388)
                       ..+.++++|++|++++.
T Consensus       237 -~~~~~~~~L~~L~l~~~  253 (592)
T 3ogk_B          237 -GFFKAAANLEEFCGGSL  253 (592)
T ss_dssp             -HHHHHCTTCCEEEECBC
T ss_pred             -HHHhhhhHHHhhccccc
Confidence             33788888999988753

>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=99.69  E-value=3.6e-18  Score=169.55  Aligned_cols=338  Identities=11%  Similarity=0.053  Sum_probs=174.6

Q ss_pred             CCCCccceeeecccCccee-----eecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCC-ccEE
Q 040122           10 SIPKPCKVQVTEKEEGELH-----HWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNN-LAEL   83 (388)
Q Consensus        10 ~~~~l~~l~~~~~~~~~~~-----~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~-L~~L   83 (388)
                      .+++|+++.++.......+     .|.+ .....+..+.   ..+++|++|+++++. +....... +. ..+++ |++|
T Consensus        71 ~~~~L~~L~L~~~~~~~~~~~~~~~~~~-~~~~~l~~l~---~~~~~L~~L~L~~~~-i~~~~~~~-l~-~~~~~~L~~L  143 (592)
T 3ogk_B           71 RFPNLRSLKLKGKPRAAMFNLIPENWGG-YVTPWVTEIS---NNLRQLKSVHFRRMI-VSDLDLDR-LA-KARADDLETL  143 (592)
T ss_dssp             HCTTCSEEEEECSCGGGGGTCSCTTSCC-BCHHHHHHHH---HHCTTCCEEEEESCB-CCHHHHHH-HH-HHHGGGCCEE
T ss_pred             hCCCCeEEEecCCcchhhcccccccccc-cchHHHHHHH---hhCCCCCeEEeeccE-ecHHHHHH-HH-HhccccCcEE
Confidence            5788999998765443322     3333 2223333332   357889999999874 54221111 10 12444 9999


Q ss_pred             EecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCccccccc--CCCCcc
Q 040122           84 VVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFC--NFTGNI  161 (388)
Q Consensus        84 ~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~--~~~~~~  161 (388)
                      ++.+|.............++++|++|++++|.. ..... .++    ......+++|++|+++++.. ..+.  ......
T Consensus       144 ~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~-~~~~~-~~l----~~~~~~~~~L~~L~L~~n~~-~~~~~~~l~~~~  216 (592)
T 3ogk_B          144 KLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSF-SEKDG-KWL----HELAQHNTSLEVLNFYMTEF-AKISPKDLETIA  216 (592)
T ss_dssp             EEESCEEEEHHHHHHHHHHCTTCSEEECTTCEE-ECCCS-HHH----HHHHHHCCCCCEEECTTCCC-SSCCHHHHHHHH
T ss_pred             ECcCCCCcCHHHHHHHHhhCCCCCEEECccccc-cCcch-hHH----HHHHhcCCCccEEEeeccCC-CccCHHHHHHHH
Confidence            998886433211112345788999999988742 11100 000    00024577788887765532 2110  000113


Q ss_pred             ccCCCcceEeEecCCCcccccCCcceeeeccc--------------CCCccccccCCceEEEec-ccccccccccCCCCc
Q 040122          162 IELPKLEYLIIENCPDMETFTSNSTFVLHMTA--------------DNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQL  226 (388)
Q Consensus       162 ~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~--------------~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L  226 (388)
                      ..+++|++|++.+| .+..++.......+|++              ....+..+++|+.++++. ....++.....+++|
T Consensus       217 ~~~~~L~~L~L~~~-~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L  295 (592)
T 3ogk_B          217 RNCRSLVSVKVGDF-EILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQI  295 (592)
T ss_dssp             HHCTTCCEEECSSC-BGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGGGGGGGGC
T ss_pred             hhCCCCcEEeccCc-cHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHHHhhcCCC
Confidence            46777777777776 33333211000000000              001245556666666655 233344445556677


Q ss_pred             ceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeecc----------CcCcccccchh
Q 040122          227 GNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSK----------CHELINVLTLS  296 (388)
Q Consensus       227 ~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~----------c~~l~~~~~~~  296 (388)
                      ++|++++|. ++.....  .....+++|++|++.++..-..++.....+++|++|++++          |..+++.....
T Consensus       296 ~~L~Ls~~~-l~~~~~~--~~~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~  372 (592)
T 3ogk_B          296 RKLDLLYAL-LETEDHC--TLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIA  372 (592)
T ss_dssp             CEEEETTCC-CCHHHHH--HHHTTCTTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHH
T ss_pred             cEEecCCCc-CCHHHHH--HHHHhCcCCCEEeccCccCHHHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHH
Confidence            777777765 3321110  1125567777777774322222232334567788888874          66666554444


Q ss_pred             hhcCccccceeeEccccccchhhcccccccCCccccccccceEeccc---CCCcceecCCC----ccccCCCcceEEecc
Q 040122          297 ASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDC---LPSLTSFCLGN----YALEFPSLKQVVVRQ  369 (388)
Q Consensus       297 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~---~~~l~~~~~~~----~~~~~~~L~~L~l~~  369 (388)
                      +...+++|++|++. |..+.....     ..+ ...+++|++|++.+   ++.++..+...    ....+++|++|+++.
T Consensus       373 l~~~~~~L~~L~l~-~~~l~~~~~-----~~l-~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~  445 (592)
T 3ogk_B          373 LAQGCQELEYMAVY-VSDITNESL-----ESI-GTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYL  445 (592)
T ss_dssp             HHHHCTTCSEEEEE-ESCCCHHHH-----HHH-HHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEEC
T ss_pred             HHhhCccCeEEEee-cCCccHHHH-----HHH-HhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEec
Confidence            44567888888883 333332211     000 02367888888874   45565543210    012378999999987


Q ss_pred             CCC
Q 040122          370 CPK  372 (388)
Q Consensus       370 c~~  372 (388)
                      |..
T Consensus       446 ~~~  448 (592)
T 3ogk_B          446 RQG  448 (592)
T ss_dssp             CGG
T ss_pred             CCC
Confidence            763

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

Probab=99.68  E-value=7.5e-17  Score=147.42  Aligned_cols=245  Identities=16%  Similarity=0.110  Sum_probs=173.5

Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      ..+++|++|++++| .++..++.. +.++++|++|++++|. +..+++           +..+++|++|+++++. ++.+
T Consensus        31 ~~~~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~Ls~n~-l~~~~~-----------~~~l~~L~~L~Ls~n~-l~~l   95 (317)
T 3o53_A           31 QSAWNVKELDLSGN-PLSQISAAD-LAPFTKLELLNLSSNV-LYETLD-----------LESLSTLRTLDLNNNY-VQEL   95 (317)
T ss_dssp             TTGGGCSEEECTTS-CCCCCCHHH-HTTCTTCCEEECTTSC-CEEEEE-----------ETTCTTCCEEECCSSE-EEEE
T ss_pred             ccCCCCCEEECcCC-ccCcCCHHH-hhCCCcCCEEECCCCc-CCcchh-----------hhhcCCCCEEECcCCc-cccc
Confidence            34689999999998 677755443 8999999999999964 444433           2668999999999874 4554


Q ss_pred             cCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccc-cccccCCCCcceEEec
Q 040122          155 CNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHL-FDEKVAFPQLGNLRLS  232 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~-~~~~~~~~~L~~L~l~  232 (388)
                             ...++|++|++.++ .++..+.               ..+++|+.|++++ ....+ +..++.+++|+.|+++
T Consensus        96 -------~~~~~L~~L~l~~n-~l~~~~~---------------~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls  152 (317)
T 3o53_A           96 -------LVGPSIETLHAANN-NISRVSC---------------SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLK  152 (317)
T ss_dssp             -------EECTTCCEEECCSS-CCSEEEE---------------CCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECT
T ss_pred             -------cCCCCcCEEECCCC-ccCCcCc---------------cccCCCCEEECCCCCCCCccchhhhccCCCCEEECC
Confidence                   24589999999997 5666653               3478899999998 33333 3456678999999999


Q ss_pred             CCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          233 GLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       233 ~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      ++ .++.+....+.  ..+++|++|++++|. +..++. ...+++|++|+++++ .++.++..  ...+++|++|++++|
T Consensus       153 ~N-~l~~~~~~~~~--~~l~~L~~L~L~~N~-l~~~~~-~~~l~~L~~L~Ls~N-~l~~l~~~--~~~l~~L~~L~L~~N  224 (317)
T 3o53_A          153 LN-EIDTVNFAELA--ASSDTLEHLNLQYNF-IYDVKG-QVVFAKLKTLDLSSN-KLAFMGPE--FQSAAGVTWISLRNN  224 (317)
T ss_dssp             TS-CCCEEEGGGGG--GGTTTCCEEECTTSC-CCEEEC-CCCCTTCCEEECCSS-CCCEECGG--GGGGTTCSEEECTTS
T ss_pred             CC-CCCcccHHHHh--hccCcCCEEECCCCc-Cccccc-ccccccCCEEECCCC-cCCcchhh--hcccCcccEEECcCC
Confidence            85 56665433221  467899999999985 444443 345889999999986 56666443  367899999999988


Q ss_pred             cccchhhcccccccCCccccccccceEecccCCCc-ceecCCCccccCCCcceEEeccCCCcccc
Q 040122          313 KMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSL-TSFCLGNYALEFPSLKQVVVRQCPKMKIF  376 (388)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l-~~~~~~~~~~~~~~L~~L~l~~c~~l~~l  376 (388)
                      . ++.++.        ....+++|+.|++++++.. ..++....  .+++|+.+++.+++.++..
T Consensus       225 ~-l~~l~~--------~~~~l~~L~~L~l~~N~~~~~~~~~~~~--~~~~L~~l~l~~~~~l~~~  278 (317)
T 3o53_A          225 K-LVLIEK--------ALRFSQNLEHFDLRGNGFHCGTLRDFFS--KNQRVQTVAKQTVKKLTGQ  278 (317)
T ss_dssp             C-CCEECT--------TCCCCTTCCEEECTTCCCBHHHHHHHHH--TCHHHHHHHHHHHHHHHSS
T ss_pred             c-ccchhh--------HhhcCCCCCEEEccCCCccCcCHHHHHh--ccccceEEECCCchhccCC
Confidence            4 444433        2245689999999987643 23333222  3688888888876655543

>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=99.67  E-value=1.7e-15  Score=136.13  Aligned_cols=211  Identities=18%  Similarity=0.139  Sum_probs=155.9

Q ss_pred             HHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccce
Q 040122           40 QKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEE  119 (388)
Q Consensus        40 ~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~  119 (388)
                      ..+|..+  .++|++|+++++. +..++...   ...+++|++|++++| .++.+.+.. +.++++|++|++++|..+..
T Consensus        24 ~~ip~~~--~~~l~~L~l~~n~-i~~~~~~~---~~~~~~L~~L~l~~n-~l~~~~~~~-~~~l~~L~~L~l~~n~~l~~   95 (285)
T 1ozn_A           24 QAVPVGI--PAASQRIFLHGNR-ISHVPAAS---FRACRNLTILWLHSN-VLARIDAAA-FTGLALLEQLDLSDNAQLRS   95 (285)
T ss_dssp             SSCCTTC--CTTCSEEECTTSC-CCEECTTT---TTTCTTCCEEECCSS-CCCEECTTT-TTTCTTCCEEECCSCTTCCC
T ss_pred             ccCCcCC--CCCceEEEeeCCc-CCccCHHH---cccCCCCCEEECCCC-ccceeCHhh-cCCccCCCEEeCCCCCCccc
Confidence            3444443  4789999999876 66554332   256899999999998 677754444 88999999999999865666


Q ss_pred             ecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccc
Q 040122          120 VLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQ  199 (388)
Q Consensus       120 i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~  199 (388)
                      ++...         +..+++|++|+++++. +..+  +...+..+++|++|++.++ .++.++...            ++
T Consensus        96 ~~~~~---------~~~l~~L~~L~l~~n~-l~~~--~~~~~~~l~~L~~L~l~~n-~l~~~~~~~------------~~  150 (285)
T 1ozn_A           96 VDPAT---------FHGLGRLHTLHLDRCG-LQEL--GPGLFRGLAALQYLYLQDN-ALQALPDDT------------FR  150 (285)
T ss_dssp             CCTTT---------TTTCTTCCEEECTTSC-CCCC--CTTTTTTCTTCCEEECCSS-CCCCCCTTT------------TT
T ss_pred             cCHHH---------hcCCcCCCEEECCCCc-CCEE--CHhHhhCCcCCCEEECCCC-cccccCHhH------------hc
Confidence            53221         4668999999999874 4444  2233668999999999997 566666543            67


Q ss_pred             cccCCceEEEec-ccccccc-cccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCC
Q 040122          200 KLKSEENLLVAN-QIQHLFD-EKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLEN  277 (388)
Q Consensus       200 ~l~~L~~L~l~~-~~~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~  277 (388)
                      .+++|+.|++++ ....++. .+..+++|+.|+++++ .++.+....+   ..+++|+.|++++|......+..+..+++
T Consensus       151 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~---~~l~~L~~L~l~~n~l~~~~~~~~~~l~~  226 (285)
T 1ozn_A          151 DLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQN-RVAHVHPHAF---RDLGRLMTLYLFANNLSALPTEALAPLRA  226 (285)
T ss_dssp             TCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTT---TTCTTCCEEECCSSCCSCCCHHHHTTCTT
T ss_pred             cCCCccEEECCCCcccccCHHHhcCccccCEEECCCC-cccccCHhHc---cCcccccEeeCCCCcCCcCCHHHcccCcc
Confidence            899999999998 4444444 4678899999999996 4666644333   67899999999998544433334778899


Q ss_pred             CCEEeeccCc
Q 040122          278 LEALKVSKCH  287 (388)
Q Consensus       278 L~~L~l~~c~  287 (388)
                      |++|++++++
T Consensus       227 L~~L~l~~N~  236 (285)
T 1ozn_A          227 LQYLRLNDNP  236 (285)
T ss_dssp             CCEEECCSSC
T ss_pred             cCEEeccCCC
Confidence            9999999875

>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=99.66  E-value=3.3e-15  Score=130.67  Aligned_cols=33  Identities=18%  Similarity=0.191  Sum_probs=15.2

Q ss_pred             cccceEecccCCCcceecCCCccccCCCcceEEeccCC
Q 040122          334 KELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCP  371 (388)
Q Consensus       334 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~  371 (388)
                      ++|+.|+++++ .++.++...    +++|+.|++.+++
T Consensus       205 ~~L~~L~l~~N-~l~~l~~~~----~~~L~~L~l~~~~  237 (239)
T 2xwt_C          205 SGPSLLDVSQT-SVTALPSKG----LEHLKELIARNTW  237 (239)
T ss_dssp             BCCSEEECTTC-CCCCCCCTT----CTTCSEEECTTC-
T ss_pred             cCCcEEECCCC-ccccCChhH----hccCceeeccCcc
Confidence            44455555442 344444332    4555555555554

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

Probab=99.65  E-value=7e-16  Score=149.20  Aligned_cols=131  Identities=11%  Similarity=0.017  Sum_probs=85.4

Q ss_pred             cccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhh
Q 040122          219 EKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSAS  298 (388)
Q Consensus       219 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~  298 (388)
                      .++.+++|+.|+++++ .++...+..+.  ..+++|++|++++|. +..++. ...+++|++|+++++ .++.++..  .
T Consensus       139 ~~~~l~~L~~L~Ls~N-~l~~~~~~~l~--~~l~~L~~L~Ls~N~-l~~~~~-~~~l~~L~~L~Ls~N-~l~~~~~~--~  210 (487)
T 3oja_A          139 DEGCRSRVQYLDLKLN-EIDTVNFAELA--ASSDTLEHLNLQYNF-IYDVKG-QVVFAKLKTLDLSSN-KLAFMGPE--F  210 (487)
T ss_dssp             CGGGGSSEEEEECTTS-CCCEEEGGGGG--GGTTTCCEEECTTSC-CCEEEC-CCCCTTCCEEECCSS-CCCEECGG--G
T ss_pred             hhcCCCCCCEEECCCC-CCCCcChHHHh--hhCCcccEEecCCCc-cccccc-cccCCCCCEEECCCC-CCCCCCHh--H
Confidence            4456788888888885 45554433221  467899999999986 444433 345889999999986 56666443  3


Q ss_pred             cCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCc-ceecCCCccccCCCcceEEec
Q 040122          299 KNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSL-TSFCLGNYALEFPSLKQVVVR  368 (388)
Q Consensus       299 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l-~~~~~~~~~~~~~~L~~L~l~  368 (388)
                      ..+++|+.|++++|. +..++.        ....+++|+.|++++++.. ..++....  .+++|+.+.+.
T Consensus       211 ~~l~~L~~L~Ls~N~-l~~lp~--------~l~~l~~L~~L~l~~N~l~c~~~~~~~~--~l~~L~~l~~~  270 (487)
T 3oja_A          211 QSAAGVTWISLRNNK-LVLIEK--------ALRFSQNLEHFDLRGNGFHCGTLRDFFS--KNQRVQTVAKQ  270 (487)
T ss_dssp             GGGTTCSEEECTTSC-CCEECT--------TCCCCTTCCEEECTTCCBCHHHHHHHHT--TCHHHHHHHHH
T ss_pred             cCCCCccEEEecCCc-Ccccch--------hhccCCCCCEEEcCCCCCcCcchHHHHH--hCCCCcEEecc
Confidence            578899999999875 334433        2245688999999887643 22322222  25677776665

>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=99.64  E-value=5.5e-15  Score=136.88  Aligned_cols=236  Identities=19%  Similarity=0.166  Sum_probs=173.0

Q ss_pred             hHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEecccccc
Q 040122           38 TIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSL  117 (388)
Q Consensus        38 ~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l  117 (388)
                      .+.++|..+  ++++++|+++++. ++.++.+. +  ..+++|++|++++|...+. ++...+.++++++++...+++.+
T Consensus        20 ~Lt~iP~~l--~~~l~~L~Ls~N~-i~~i~~~~-f--~~l~~L~~L~Ls~N~i~~~-i~~~~f~~L~~l~~~l~~~~N~l   92 (350)
T 4ay9_X           20 KVTEIPSDL--PRNAIELRFVLTK-LRVIQKGA-F--SGFGDLEKIEISQNDVLEV-IEADVFSNLPKLHEIRIEKANNL   92 (350)
T ss_dssp             TCCSCCTTC--CTTCSEEEEESCC-CSEECTTS-S--TTCTTCCEEEEECCTTCCE-ECTTSBCSCTTCCEEEEEEETTC
T ss_pred             CCCccCcCc--CCCCCEEEccCCc-CCCcCHHH-H--cCCCCCCEEECcCCCCCCc-cChhHhhcchhhhhhhcccCCcc
Confidence            344566655  4789999999875 87766544 2  4689999999999954444 44444788999888777776778


Q ss_pred             ceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCc
Q 040122          118 EEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKE  197 (388)
Q Consensus       118 ~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~  197 (388)
                      ..+++..         +..+++|++|+++++. +..+  +........++..+++.++..+..++....           
T Consensus        93 ~~l~~~~---------f~~l~~L~~L~l~~n~-l~~~--~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f-----------  149 (350)
T 4ay9_X           93 LYINPEA---------FQNLPNLQYLLISNTG-IKHL--PDVHKIHSLQKVLLDIQDNINIHTIERNSF-----------  149 (350)
T ss_dssp             CEECTTS---------BCCCTTCCEEEEEEEC-CSSC--CCCTTCCBSSCEEEEEESCTTCCEECTTSS-----------
T ss_pred             cccCchh---------hhhccccccccccccc-cccC--Cchhhcccchhhhhhhccccccccccccch-----------
Confidence            8775431         4668999999998763 4554  222234556778899988888888776542           


Q ss_pred             cccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccC
Q 040122          198 PQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLE  276 (388)
Q Consensus       198 l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~  276 (388)
                      ......++.|++++ ....++......++|+++.+.+++.++.++...+   ..+++|++|+++++ .++.+|..  .+.
T Consensus       150 ~~~~~~l~~L~L~~N~i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f---~~l~~L~~LdLs~N-~l~~lp~~--~~~  223 (350)
T 4ay9_X          150 VGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVF---HGASGPVILDISRT-RIHSLPSY--GLE  223 (350)
T ss_dssp             TTSBSSCEEEECCSSCCCEECTTSSTTEEEEEEECTTCTTCCCCCTTTT---TTEECCSEEECTTS-CCCCCCSS--SCT
T ss_pred             hhcchhhhhhccccccccCCChhhccccchhHHhhccCCcccCCCHHHh---ccCcccchhhcCCC-CcCccChh--hhc
Confidence            23344688899888 5666766666778899999998888998887654   67899999999997 46777653  467


Q ss_pred             CCCEEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          277 NLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       277 ~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      +|+.|.+.++..++.++.   ..++++|+.+++.+.
T Consensus       224 ~L~~L~~l~~~~l~~lP~---l~~l~~L~~l~l~~~  256 (350)
T 4ay9_X          224 NLKKLRARSTYNLKKLPT---LEKLVALMEASLTYP  256 (350)
T ss_dssp             TCCEEECTTCTTCCCCCC---TTTCCSCCEEECSCH
T ss_pred             cchHhhhccCCCcCcCCC---chhCcChhhCcCCCC
Confidence            899999888888888764   367889999988653

>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=99.63  E-value=8.7e-17  Score=148.08  Aligned_cols=109  Identities=19%  Similarity=0.257  Sum_probs=60.6

Q ss_pred             ccccCCceEEEecc-c---ccccccccCCC-CcceEEecCCC-Ccce--ecccCchhHhhhccccEEEEecCCCc-cccc
Q 040122          199 QKLKSEENLLVANQ-I---QHLFDEKVAFP-QLGNLRLSGLH-KVQH--LWKENDESNKAFANLERLEISECSKL-QKLV  269 (388)
Q Consensus       199 ~~l~~L~~L~l~~~-~---~~~~~~~~~~~-~L~~L~l~~~~-~l~~--~~~~~~~~~~~~~~L~~L~i~~~~~~-~~~~  269 (388)
                      ..+++|+.|+++++ .   ..++..+..++ +|++|++++|. .+++  ++.    ....+++|++|++++|..+ ...+
T Consensus       165 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~----~~~~~~~L~~L~l~~~~~l~~~~~  240 (336)
T 2ast_B          165 SSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLST----LVRRCPNLVHLDLSDSVMLKNDCF  240 (336)
T ss_dssp             HHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHH----HHHHCTTCSEEECTTCTTCCGGGG
T ss_pred             hcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHH----HHhhCCCCCEEeCCCCCcCCHHHH
Confidence            34455555555441 1   11233344566 77777777664 2321  111    1255677777777777633 3444


Q ss_pred             CCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          270 PPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       270 ~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      ..+..+++|++|++++|..+.+.... ...++++|++|++++|
T Consensus       241 ~~l~~l~~L~~L~l~~~~~~~~~~~~-~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          241 QEFFQLNYLQHLSLSRCYDIIPETLL-ELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             GGGGGCTTCCEEECTTCTTCCGGGGG-GGGGCTTCCEEECTTS
T ss_pred             HHHhCCCCCCEeeCCCCCCCCHHHHH-HHhcCCCCCEEeccCc
Confidence            55667777888888777644433221 2245777888888776

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

Probab=99.63  E-value=4.9e-15  Score=143.27  Aligned_cols=222  Identities=17%  Similarity=0.161  Sum_probs=161.8

Q ss_pred             HhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceec
Q 040122           42 CYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVL  121 (388)
Q Consensus        42 l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~  121 (388)
                      +......+++|++|+++++. +...+...   ...+++|++|++++| .++..++   +..+++|++|++++| .+..++
T Consensus        26 l~~l~~~~~~L~~L~Ls~n~-l~~~~~~~---~~~l~~L~~L~Ls~N-~l~~~~~---l~~l~~L~~L~Ls~N-~l~~l~   96 (487)
T 3oja_A           26 LASLRQSAWNVKELDLSGNP-LSQISAAD---LAPFTKLELLNLSSN-VLYETLD---LESLSTLRTLDLNNN-YVQELL   96 (487)
T ss_dssp             HHTTSTTGGGCCEEECCSSC-CCCCCGGG---GTTCTTCCEEECTTS-CCEEEEE---CTTCTTCCEEECCSS-EEEEEE
T ss_pred             HHHhcccCCCccEEEeeCCc-CCCCCHHH---HhCCCCCCEEEeeCC-CCCCCcc---cccCCCCCEEEecCC-cCCCCC
Confidence            33334455699999999876 66443322   257899999999998 5666555   789999999999996 455552


Q ss_pred             ccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccc
Q 040122          122 HLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKL  201 (388)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l  201 (388)
                                    ..++|++|+++++. +..+.     ...+++|++|++.+| .++..++..            ++.+
T Consensus        97 --------------~~~~L~~L~L~~N~-l~~~~-----~~~l~~L~~L~L~~N-~l~~~~~~~------------~~~l  143 (487)
T 3oja_A           97 --------------VGPSIETLHAANNN-ISRVS-----CSRGQGKKNIYLANN-KITMLRDLD------------EGCR  143 (487)
T ss_dssp             --------------ECTTCCEEECCSSC-CCCEE-----ECCCSSCEEEECCSS-CCCSGGGBC------------GGGG
T ss_pred             --------------CCCCcCEEECcCCc-CCCCC-----ccccCCCCEEECCCC-CCCCCCchh------------hcCC
Confidence                          24899999998874 44441     225789999999997 566554432            6788


Q ss_pred             cCCceEEEec-cc-cccccccc-CCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCC
Q 040122          202 KSEENLLVAN-QI-QHLFDEKV-AFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENL  278 (388)
Q Consensus       202 ~~L~~L~l~~-~~-~~~~~~~~-~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L  278 (388)
                      ++|+.|++++ .. ...+..+. .+++|+.|+++++ .++.++..     ..+++|+.|++++|. +..++..+..+++|
T Consensus       144 ~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N-~l~~~~~~-----~~l~~L~~L~Ls~N~-l~~~~~~~~~l~~L  216 (487)
T 3oja_A          144 SRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQ-----VVFAKLKTLDLSSNK-LAFMGPEFQSAAGV  216 (487)
T ss_dssp             SSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTS-CCCEEECC-----CCCTTCCEEECCSSC-CCEECGGGGGGTTC
T ss_pred             CCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCC-cccccccc-----ccCCCCCEEECCCCC-CCCCCHhHcCCCCc
Confidence            9999999988 22 23444444 6899999999985 46666433     457899999999975 55566678888999


Q ss_pred             CEEeeccCcCcccccchhhhcCccccceeeEcccccc
Q 040122          279 EALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMI  315 (388)
Q Consensus       279 ~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~  315 (388)
                      +.|+++++ .+..++..  ...+++|+.|++++|+..
T Consensus       217 ~~L~Ls~N-~l~~lp~~--l~~l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          217 TWISLRNN-KLVLIEKA--LRFSQNLEHFDLRGNGFH  250 (487)
T ss_dssp             SEEECTTS-CCCEECTT--CCCCTTCCEEECTTCCBC
T ss_pred             cEEEecCC-cCcccchh--hccCCCCCEEEcCCCCCc
Confidence            99999986 56665432  367889999999988654

>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=99.63  E-value=1.7e-14  Score=133.65  Aligned_cols=226  Identities=14%  Similarity=0.099  Sum_probs=108.9

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .+++++|++++| +++.+++ ..+.++++|++|++++|...+.++...         +..+++++.+...++..+..+  
T Consensus        29 ~~~l~~L~Ls~N-~i~~i~~-~~f~~l~~L~~L~Ls~N~i~~~i~~~~---------f~~L~~l~~~l~~~~N~l~~l--   95 (350)
T 4ay9_X           29 PRNAIELRFVLT-KLRVIQK-GAFSGFGDLEKIEISQNDVLEVIEADV---------FSNLPKLHEIRIEKANNLLYI--   95 (350)
T ss_dssp             CTTCSEEEEESC-CCSEECT-TSSTTCTTCCEEEEECCTTCCEECTTS---------BCSCTTCCEEEEEEETTCCEE--
T ss_pred             CCCCCEEEccCC-cCCCcCH-HHHcCCCCCCEEECcCCCCCCccChhH---------hhcchhhhhhhcccCCccccc--
Confidence            345666666665 4555333 225666666666666654444443211         233445554444444445544  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecccccccccccCCCCcceEEecCCCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHK  236 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~  236 (388)
                      +...+..+++|++|++.++ .++.++...            ..                      ...++..+++.++..
T Consensus        96 ~~~~f~~l~~L~~L~l~~n-~l~~~~~~~------------~~----------------------~~~~l~~l~l~~~~~  140 (350)
T 4ay9_X           96 NPEAFQNLPNLQYLLISNT-GIKHLPDVH------------KI----------------------HSLQKVLLDIQDNIN  140 (350)
T ss_dssp             CTTSBCCCTTCCEEEEEEE-CCSSCCCCT------------TC----------------------CBSSCEEEEEESCTT
T ss_pred             Cchhhhhcccccccccccc-ccccCCchh------------hc----------------------ccchhhhhhhccccc
Confidence            2222445566666666654 344333221            11                      223344455544444


Q ss_pred             cceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccc
Q 040122          237 VQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIE  316 (388)
Q Consensus       237 l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~  316 (388)
                      +..++...+.  .....++.|+++++ .++.++.......+|+++++.++..++.++... ...+++|++|++++| .++
T Consensus       141 i~~l~~~~f~--~~~~~l~~L~L~~N-~i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~~~-f~~l~~L~~LdLs~N-~l~  215 (350)
T 4ay9_X          141 IHTIERNSFV--GLSFESVILWLNKN-GIQEIHNSAFNGTQLDELNLSDNNNLEELPNDV-FHGASGPVILDISRT-RIH  215 (350)
T ss_dssp             CCEECTTSST--TSBSSCEEEECCSS-CCCEECTTSSTTEEEEEEECTTCTTCCCCCTTT-TTTEECCSEEECTTS-CCC
T ss_pred             cccccccchh--hcchhhhhhccccc-cccCCChhhccccchhHHhhccCCcccCCCHHH-hccCcccchhhcCCC-CcC
Confidence            5554443321  22234555555554 234444444444556666665555555554322 245566666666655 233


Q ss_pred             hhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEec
Q 040122          317 QIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVR  368 (388)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~  368 (388)
                      .++.          ..+..|+.|.+.++.+++.++. .  ..+++|+.+++.
T Consensus       216 ~lp~----------~~~~~L~~L~~l~~~~l~~lP~-l--~~l~~L~~l~l~  254 (350)
T 4ay9_X          216 SLPS----------YGLENLKKLRARSTYNLKKLPT-L--EKLVALMEASLT  254 (350)
T ss_dssp             CCCS----------SSCTTCCEEECTTCTTCCCCCC-T--TTCCSCCEEECS
T ss_pred             ccCh----------hhhccchHhhhccCCCcCcCCC-c--hhCcChhhCcCC
Confidence            3332          2345555666555555555553 1  125566665553

>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=99.63  E-value=1e-14  Score=127.54  Aligned_cols=200  Identities=15%  Similarity=0.125  Sum_probs=99.9

Q ss_pred             CcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccc
Q 040122           51 DINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKE  130 (388)
Q Consensus        51 ~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  130 (388)
                      +|++|+++++. +..++...   ...+++|++|++++|..++.+++.. +.++++|++|++++|+.+..++...      
T Consensus        32 ~l~~L~l~~n~-l~~i~~~~---~~~l~~L~~L~l~~n~~l~~i~~~~-f~~l~~L~~L~l~~~n~l~~i~~~~------  100 (239)
T 2xwt_C           32 STQTLKLIETH-LRTIPSHA---FSNLPNISRIYVSIDVTLQQLESHS-FYNLSKVTHIEIRNTRNLTYIDPDA------  100 (239)
T ss_dssp             TCCEEEEESCC-CSEECTTT---TTTCTTCCEEEEECCSSCCEECTTT-EESCTTCCEEEEEEETTCCEECTTS------
T ss_pred             cccEEEEeCCc-ceEECHHH---ccCCCCCcEEeCCCCCCcceeCHhH-cCCCcCCcEEECCCCCCeeEcCHHH------
Confidence            55555555543 44333221   1335555555555553344433322 4555555555555544444443211      


Q ss_pred             cccCCcCccccEeecccCcccccccCCCCccccCCCcc---eEeEecCCCcccccCCcceeeecccCCCccccccCCceE
Q 040122          131 EHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLE---YLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENL  207 (388)
Q Consensus       131 ~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~---~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L  207 (388)
                         +..+++|++|+++++. ++.++.    +..+++|+   +|++++++.++.++..                       
T Consensus       101 ---f~~l~~L~~L~l~~n~-l~~lp~----~~~l~~L~~L~~L~l~~N~~l~~i~~~-----------------------  149 (239)
T 2xwt_C          101 ---LKELPLLKFLGIFNTG-LKMFPD----LTKVYSTDIFFILEITDNPYMTSIPVN-----------------------  149 (239)
T ss_dssp             ---EECCTTCCEEEEEEEC-CCSCCC----CTTCCBCCSEEEEEEESCTTCCEECTT-----------------------
T ss_pred             ---hCCCCCCCEEeCCCCC-Cccccc----cccccccccccEEECCCCcchhhcCcc-----------------------
Confidence               2335555555555442 333311    33444444   5555554344444332                       


Q ss_pred             EEecccccccccccCCCCcc-eEEecCCCCcceecccCchhHhhhccccEEEEecCCCccccc-CCcccc-CCCCEEeec
Q 040122          208 LVANQIQHLFDEKVAFPQLG-NLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLV-PPSWHL-ENLEALKVS  284 (388)
Q Consensus       208 ~l~~~~~~~~~~~~~~~~L~-~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~-~~~~~~-~~L~~L~l~  284 (388)
                                 .+..+++|+ .|+++++ .++.++...+   . .++|++|++++|..+..++ ..+..+ ++|+.|+++
T Consensus       150 -----------~~~~l~~L~~~L~l~~n-~l~~i~~~~~---~-~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~  213 (239)
T 2xwt_C          150 -----------AFQGLCNETLTLKLYNN-GFTSVQGYAF---N-GTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVS  213 (239)
T ss_dssp             -----------TTTTTBSSEEEEECCSC-CCCEECTTTT---T-TCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECT
T ss_pred             -----------cccchhcceeEEEcCCC-CCcccCHhhc---C-CCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECC
Confidence                       234456666 6666653 4555554332   1 2567777777765455553 334556 777777777


Q ss_pred             cCcCcccccchhhhcCccccceeeEcccc
Q 040122          285 KCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       285 ~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      ++ .++.++..    .+++|+.|++.++.
T Consensus       214 ~N-~l~~l~~~----~~~~L~~L~l~~~~  237 (239)
T 2xwt_C          214 QT-SVTALPSK----GLEHLKELIARNTW  237 (239)
T ss_dssp             TC-CCCCCCCT----TCTTCSEEECTTC-
T ss_pred             CC-ccccCChh----HhccCceeeccCcc
Confidence            64 45554332    45677777776654

>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=99.60  E-value=1.1e-13  Score=138.04  Aligned_cols=135  Identities=16%  Similarity=0.153  Sum_probs=90.5

Q ss_pred             cceeeecCCCCchhHHHHh-hhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcC
Q 040122           25 GELHHWEGNNLNSTIQKCY-DEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCL  103 (388)
Q Consensus        25 ~~~~~~~~~~~~~~~~~l~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l  103 (388)
                      +++++..+    +.++.++ ..+..+++|++|+++++. ++.++.+.   ...+++|++|+|++| .++.+++ ..+.++
T Consensus        54 ~~~LdLs~----N~i~~l~~~~f~~l~~L~~L~Ls~N~-i~~i~~~~---f~~L~~L~~L~Ls~N-~l~~l~~-~~f~~L  123 (635)
T 4g8a_A           54 TKNLDLSF----NPLRHLGSYSFFSFPELQVLDLSRCE-IQTIEDGA---YQSLSHLSTLILTGN-PIQSLAL-GAFSGL  123 (635)
T ss_dssp             CCEEECTT----SCCCEECTTTTTTCTTCCEEECTTCC-CCEECTTT---TTTCTTCCEEECTTC-CCCEECG-GGGTTC
T ss_pred             CCEEEeeC----CCCCCCCHHHHhCCCCCCEEECCCCc-CCCcChhH---hcCCCCCCEEEccCC-cCCCCCH-HHhcCC
Confidence            45555555    3333444 356778888888888775 66555443   245788888888888 6777544 337888


Q ss_pred             CCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccccc
Q 040122          104 NNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFT  182 (388)
Q Consensus       104 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~  182 (388)
                      ++|++|++++| .+..+++..         +..+++|++|+++++. +..+..+.. ++.+++|++|++.++ .++.++
T Consensus       124 ~~L~~L~Ls~N-~l~~l~~~~---------~~~L~~L~~L~Ls~N~-l~~~~~~~~-~~~l~~L~~L~L~~N-~l~~~~  189 (635)
T 4g8a_A          124 SSLQKLVAVET-NLASLENFP---------IGHLKTLKELNVAHNL-IQSFKLPEY-FSNLTNLEHLDLSSN-KIQSIY  189 (635)
T ss_dssp             TTCCEEECTTS-CCCCSTTCC---------CTTCTTCCEEECCSSC-CCCCCCCGG-GGGCTTCCEEECCSS-CCCEEC
T ss_pred             CCCCEEECCCC-cCCCCChhh---------hhcCcccCeeccccCc-cccCCCchh-hccchhhhhhcccCc-cccccc
Confidence            88888888885 455554321         4678999999998763 444422333 678899999999986 455443

>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=99.60  E-value=3.8e-14  Score=126.72  Aligned_cols=201  Identities=17%  Similarity=0.220  Sum_probs=106.8

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCC
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF  157 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  157 (388)
                      ++|++|++++| .++.+++.. +.++++|++|++++| .+..++...         +..+++|++|+++++. +..+  +
T Consensus        28 ~~l~~L~ls~n-~l~~~~~~~-~~~l~~L~~L~l~~n-~l~~~~~~~---------~~~l~~L~~L~L~~n~-l~~~--~   92 (276)
T 2z62_A           28 FSTKNLDLSFN-PLRHLGSYS-FFSFPELQVLDLSRC-EIQTIEDGA---------YQSLSHLSTLILTGNP-IQSL--A   92 (276)
T ss_dssp             TTCCEEECTTC-CCCEECTTT-TTTCTTCSEEECTTC-CCCEECTTT---------TTTCTTCCEEECTTCC-CCEE--C
T ss_pred             CCccEEECCCC-cccccCHhH-hccccCCcEEECCCC-cCCccCHHH---------ccCCcCCCEEECCCCc-cCcc--C
Confidence            34555555555 344433322 455555555555554 333332210         2345555555555542 3333  1


Q ss_pred             CCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccc--cccccccCCCCcceEEecCC
Q 040122          158 TGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQ--HLFDEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       158 ~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~--~~~~~~~~~~~L~~L~l~~~  234 (388)
                      ...+..+++|++|++.++ .+..++...            ++.+++|+.|++++ ...  .++..++.+++|+.|+++++
T Consensus        93 ~~~~~~l~~L~~L~l~~n-~l~~~~~~~------------~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N  159 (276)
T 2z62_A           93 LGAFSGLSSLQKLVAVET-NLASLENFP------------IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN  159 (276)
T ss_dssp             TTTTTTCTTCCEEECTTS-CCCCSTTCC------------CTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSS
T ss_pred             hhhhcCCccccEEECCCC-CccccCchh------------cccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCC
Confidence            122445556666666554 333333221            45555666666655 222  23455666778888888774


Q ss_pred             CCcceecccCchhHhhhcccc----EEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEc
Q 040122          235 HKVQHLWKENDESNKAFANLE----RLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIA  310 (388)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~L~----~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~  310 (388)
                       .++.++...+   ..+++|+    .|+++++. +..++.......+|++|+++++ .++.++.. ....+++|++|+++
T Consensus       160 -~l~~~~~~~~---~~l~~L~~l~l~L~ls~n~-l~~~~~~~~~~~~L~~L~L~~n-~l~~~~~~-~~~~l~~L~~L~l~  232 (276)
T 2z62_A          160 -KIQSIYCTDL---RVLHQMPLLNLSLDLSLNP-MNFIQPGAFKEIRLKELALDTN-QLKSVPDG-IFDRLTSLQKIWLH  232 (276)
T ss_dssp             -CCCEECGGGG---HHHHTCTTCCEEEECCSSC-CCEECTTSSCSCCEEEEECCSS-CCSCCCTT-TTTTCCSCCEEECC
T ss_pred             -CCCcCCHHHh---hhhhhccccceeeecCCCc-ccccCccccCCCcccEEECCCC-ceeecCHh-HhcccccccEEEcc
Confidence             4666554433   3344444    77777764 4444444445557888888876 46655433 23567888888888


Q ss_pred             ccc
Q 040122          311 DCK  313 (388)
Q Consensus       311 ~~~  313 (388)
                      +++
T Consensus       233 ~N~  235 (276)
T 2z62_A          233 TNP  235 (276)
T ss_dssp             SSC
T ss_pred             CCc
Confidence            765

>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=99.59  E-value=5.6e-17  Score=155.95  Aligned_cols=326  Identities=14%  Similarity=0.049  Sum_probs=161.0

Q ss_pred             CcceeeecCCCC-chhHHHHhhhccCCCCcceEEecCccccceeccccccCccccC----CccEEEecCCCCCcc----c
Q 040122           24 EGELHHWEGNNL-NSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFN----NLAELVVDDSTNMSS----A   94 (388)
Q Consensus        24 ~~~~~~~~~~~~-~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~----~L~~L~l~~~~~l~~----~   94 (388)
                      +++.++..++.. ......++..+..+++|++|+++++. +.+..... +. ..++    +|++|++++| .++.    .
T Consensus        29 ~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-l~~~~~~~-l~-~~l~~~~~~L~~L~L~~n-~i~~~~~~~  104 (461)
T 1z7x_W           29 QCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNE-LGDVGVHC-VL-QGLQTPSCKIQKLSLQNC-CLTGAGCGV  104 (461)
T ss_dssp             TCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCC-CHHHHHHH-HH-HTTCSTTCCCCEEECTTS-CCBGGGHHH
T ss_pred             CccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCc-CChHHHHH-HH-HHHhhCCCceeEEEccCC-CCCHHHHHH
Confidence            344444444322 22345667777778888888888765 54321111 00 1233    6888888888 4543    1


Q ss_pred             CChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCccccccc--CCCCccccCCCcceEeE
Q 040122           95 IPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFC--NFTGNIIELPKLEYLII  172 (388)
Q Consensus        95 ~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~--~~~~~~~~l~~L~~L~l  172 (388)
                      .+ ..+.++++|++|++++|. +...... .+   ........++|++|++++|. ++...  .....+..+++|++|++
T Consensus       105 l~-~~l~~~~~L~~L~Ls~n~-i~~~~~~-~l---~~~l~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~L  177 (461)
T 1z7x_W          105 LS-STLRTLPTLQELHLSDNL-LGDAGLQ-LL---CEGLLDPQCRLEKLQLEYCS-LSAASCEPLASVLRAKPDFKELTV  177 (461)
T ss_dssp             HH-HHTTSCTTCCEEECCSSB-CHHHHHH-HH---HHHHTSTTCCCCEEECTTSC-CBGGGHHHHHHHHHHCTTCCEEEC
T ss_pred             HH-HHHccCCceeEEECCCCc-CchHHHH-HH---HHHHhcCCCcceEEECCCCC-CCHHHHHHHHHHHhhCCCCCEEEC
Confidence            12 236788888888888864 3221000 00   00001224567777777663 22210  00011345667777777


Q ss_pred             ecCCCcccccCCc-----------ceeeecccC----------CCccccccCCceEEEecc-ccc-----cccc-ccCCC
Q 040122          173 ENCPDMETFTSNS-----------TFVLHMTAD----------NKEPQKLKSEENLLVANQ-IQH-----LFDE-KVAFP  224 (388)
Q Consensus       173 ~~c~~l~~~~~~~-----------~~~~~l~~~----------~~~l~~l~~L~~L~l~~~-~~~-----~~~~-~~~~~  224 (388)
                      ++|. +.......           .+...+...          ...+..+++|+.|+++++ ...     +... ...++
T Consensus       178 ~~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~  256 (461)
T 1z7x_W          178 SNND-INEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSS  256 (461)
T ss_dssp             CSSB-CHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTC
T ss_pred             cCCC-cchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCC
Confidence            7653 33221111           000011110          002345677777777661 111     1111 12466


Q ss_pred             CcceEEecCCCCcceecccCc-hhHhhhccccEEEEecCCCcccccCCcc-----ccCCCCEEeeccCcCcccccc---h
Q 040122          225 QLGNLRLSGLHKVQHLWKEND-ESNKAFANLERLEISECSKLQKLVPPSW-----HLENLEALKVSKCHELINVLT---L  295 (388)
Q Consensus       225 ~L~~L~l~~~~~l~~~~~~~~-~~~~~~~~L~~L~i~~~~~~~~~~~~~~-----~~~~L~~L~l~~c~~l~~~~~---~  295 (388)
                      +|++|++++| .++......+ .....+++|++|++++|..-...+..+.     ..++|++|++++|. ++....   .
T Consensus       257 ~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~l~  334 (461)
T 1z7x_W          257 RLRTLWIWEC-GITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCS-FTAACCSHFS  334 (461)
T ss_dssp             CCCEEECTTS-CCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CBGGGHHHHH
T ss_pred             CceEEECcCC-CCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCC-CchHHHHHHH
Confidence            7777777775 3443110000 0124467777777777643221111111     22578888887763 443321   1


Q ss_pred             hhhcCccccceeeEccccccchhhc--ccccccCCccccccccceEecccCCCcc-----eecCCCccccCCCcceEEec
Q 040122          296 SASKNLVNLGRMMIADCKMIEQIIQ--LQVGEEAKDCNVFKELEYLGLDCLPSLT-----SFCLGNYALEFPSLKQVVVR  368 (388)
Q Consensus       296 ~~~~~l~~L~~L~l~~~~~~~~~~~--~~~~~~~~~~~~~~~L~~L~l~~~~~l~-----~~~~~~~~~~~~~L~~L~l~  368 (388)
                      .....+++|++|++++|. +.+...  ....+.    ...++|++|++++|. ++     .++....  .+++|++|+++
T Consensus       335 ~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~----~~~~~L~~L~L~~n~-i~~~~~~~l~~~l~--~~~~L~~L~l~  406 (461)
T 1z7x_W          335 SVLAQNRFLLELQISNNR-LEDAGVRELCQGLG----QPGSVLRVLWLADCD-VSDSSCSSLAATLL--ANHSLRELDLS  406 (461)
T ss_dssp             HHHHHCSSCCEEECCSSB-CHHHHHHHHHHHHT----STTCCCCEEECTTSC-CCHHHHHHHHHHHH--HCCCCCEEECC
T ss_pred             HHHhhCCCccEEEccCCc-cccccHHHHHHHHc----CCCCceEEEECCCCC-CChhhHHHHHHHHH--hCCCccEEECC
Confidence            223456788888888774 332211  000000    114688888888874 44     3333322  27889999998


Q ss_pred             cCC
Q 040122          369 QCP  371 (388)
Q Consensus       369 ~c~  371 (388)
                      +|+
T Consensus       407 ~N~  409 (461)
T 1z7x_W          407 NNC  409 (461)
T ss_dssp             SSS
T ss_pred             CCC
Confidence            876

>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=99.59  E-value=5.5e-14  Score=126.60  Aligned_cols=199  Identities=16%  Similarity=0.077  Sum_probs=134.0

Q ss_pred             ccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccc
Q 040122           46 KIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEE  125 (388)
Q Consensus        46 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~  125 (388)
                      +..+++++++++++.. ++.++.+.      .++++.|++++| .++...+.. +.++++|++|++++| .+..++..  
T Consensus         6 ~~~l~~l~~l~~~~~~-l~~ip~~~------~~~l~~L~L~~N-~l~~~~~~~-~~~l~~L~~L~L~~n-~l~~~~~~--   73 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRN-LTALPPDL------PKDTTILHLSEN-LLYTFSLAT-LMPYTRLTQLNLDRA-ELTKLQVD--   73 (290)
T ss_dssp             EECSTTCCEEECTTSC-CSSCCSCC------CTTCCEEECTTS-CCSEEEGGG-GTTCTTCCEEECTTS-CCCEEECC--
T ss_pred             ccccCCccEEECCCCC-CCcCCCCC------CCCCCEEEcCCC-cCCccCHHH-hhcCCCCCEEECCCC-ccCcccCC--
Confidence            3456788888887654 65544333      478888999888 566644433 788888999999885 45555432  


Q ss_pred             ccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCc
Q 040122          126 LSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEE  205 (388)
Q Consensus       126 ~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~  205 (388)
                               ..+++|+.|+++++ .+..+  +.. +..+++|++|+++++ .++.++...            +..+++|+
T Consensus        74 ---------~~l~~L~~L~Ls~N-~l~~l--~~~-~~~l~~L~~L~l~~N-~l~~l~~~~------------~~~l~~L~  127 (290)
T 1p9a_G           74 ---------GTLPVLGTLDLSHN-QLQSL--PLL-GQTLPALTVLDVSFN-RLTSLPLGA------------LRGLGELQ  127 (290)
T ss_dssp             ---------SCCTTCCEEECCSS-CCSSC--CCC-TTTCTTCCEEECCSS-CCCCCCSST------------TTTCTTCC
T ss_pred             ---------CCCCcCCEEECCCC-cCCcC--chh-hccCCCCCEEECCCC-cCcccCHHH------------HcCCCCCC
Confidence                     45788888988876 35555  222 567888889988886 676666543            66777888


Q ss_pred             eEEEec-ccccccc-cccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEee
Q 040122          206 NLLVAN-QIQHLFD-EKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKV  283 (388)
Q Consensus       206 ~L~l~~-~~~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l  283 (388)
                      .|++++ ....++. .+..+++|+.|+++++ .++.++...+   ..+++|+.|+++++. +..+|..+...++|+.+++
T Consensus       128 ~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~---~~l~~L~~L~L~~N~-l~~ip~~~~~~~~L~~l~L  202 (290)
T 1p9a_G          128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANN-NLTELPAGLL---NGLENLDTLLLQENS-LYTIPKGFFGSHLLPFAFL  202 (290)
T ss_dssp             EEECTTSCCCCCCTTTTTTCTTCCEEECTTS-CCSCCCTTTT---TTCTTCCEEECCSSC-CCCCCTTTTTTCCCSEEEC
T ss_pred             EEECCCCCCCccChhhcccccCCCEEECCCC-cCCccCHHHh---cCcCCCCEEECCCCc-CCccChhhcccccCCeEEe
Confidence            888777 3333333 2456778888888774 5666665432   456778888887764 4566777777777778777


Q ss_pred             ccCc
Q 040122          284 SKCH  287 (388)
Q Consensus       284 ~~c~  287 (388)
                      ++++
T Consensus       203 ~~Np  206 (290)
T 1p9a_G          203 HGNP  206 (290)
T ss_dssp             CSCC
T ss_pred             CCCC
Confidence            7643

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

Probab=99.58  E-value=2.5e-14  Score=127.60  Aligned_cols=199  Identities=17%  Similarity=0.132  Sum_probs=113.3

Q ss_pred             ccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCccccccc
Q 040122           76 FFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFC  155 (388)
Q Consensus        76 ~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  155 (388)
                      .+++|+.|++.+| .++....   +..+++|++|++++|. +..++.           +..+++|++|+++++ .++.+ 
T Consensus        39 ~l~~L~~L~l~~~-~i~~~~~---l~~l~~L~~L~l~~n~-l~~~~~-----------l~~l~~L~~L~L~~n-~l~~~-  100 (272)
T 3rfs_A           39 ELNSIDQIIANNS-DIKSVQG---IQYLPNVRYLALGGNK-LHDISA-----------LKELTNLTYLILTGN-QLQSL-  100 (272)
T ss_dssp             HHTTCCEEECTTS-CCCCCTT---GGGCTTCCEEECTTSC-CCCCGG-----------GTTCTTCCEEECTTS-CCCCC-
T ss_pred             cccceeeeeeCCC-Ccccccc---cccCCCCcEEECCCCC-CCCchh-----------hcCCCCCCEEECCCC-ccCcc-
Confidence            4677777777766 4554332   5677777777777753 333322           255677777777765 34444 


Q ss_pred             CCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccc-cccCCCCcceEEecC
Q 040122          156 NFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFD-EKVAFPQLGNLRLSG  233 (388)
Q Consensus       156 ~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~-~~~~~~~L~~L~l~~  233 (388)
                       +...+..+++|++|++.+| .++..+...            ++.+++|+.|++++ ....++. .++.+++|+.|++++
T Consensus       101 -~~~~~~~l~~L~~L~L~~n-~l~~~~~~~------------~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~  166 (272)
T 3rfs_A          101 -PNGVFDKLTNLKELVLVEN-QLQSLPDGV------------FDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSY  166 (272)
T ss_dssp             -CTTTTTTCTTCCEEECTTS-CCCCCCTTT------------TTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             -ChhHhcCCcCCCEEECCCC-cCCccCHHH------------hccCCCCCEEECCCCccCccCHHHhccCccCCEEECCC
Confidence             2222456777777777776 455554432            45566666666665 2222222 235567777777776


Q ss_pred             CCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          234 LHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      + .++.++...+   ..+++|++|++++|......+..+..+++|++|++++++         +...+++|++++++.+.
T Consensus       167 n-~l~~~~~~~~---~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~---------~~~~~~~l~~l~~~~n~  233 (272)
T 3rfs_A          167 N-QLQSLPEGVF---DKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNP---------WDCTCPGIRYLSEWINK  233 (272)
T ss_dssp             S-CCCCCCTTTT---TTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC---------BCCCTTTTHHHHHHHHH
T ss_pred             C-CcCccCHHHh---cCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEccCCC---------ccccCcHHHHHHHHHHh
Confidence            4 4555443322   456677777777765443333345666777777777653         11345566666666655


Q ss_pred             ccchhh
Q 040122          314 MIEQII  319 (388)
Q Consensus       314 ~~~~~~  319 (388)
                      ....++
T Consensus       234 ~~g~ip  239 (272)
T 3rfs_A          234 HSGVVR  239 (272)
T ss_dssp             TGGGBB
T ss_pred             CCCccc
Confidence            444443

>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=99.58  E-value=4.1e-16  Score=149.88  Aligned_cols=216  Identities=16%  Similarity=0.033  Sum_probs=125.4

Q ss_pred             CccccEeecccCccccccc--CCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cc
Q 040122          137 FPRLLSLKLIDLPKLKRFC--NFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QI  213 (388)
Q Consensus       137 ~~~L~~L~l~~~~~l~~~~--~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~  213 (388)
                      .++|++|++++|. ++...  .....+..+++|++|++++| .++.......       .......+++|+.|++++ ..
T Consensus       198 ~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~l~~~~~~~l-------~~~~~~~~~~L~~L~L~~n~l  268 (461)
T 1z7x_W          198 PCQLEALKLESCG-VTSDNCRDLCGIVASKASLRELALGSN-KLGDVGMAEL-------CPGLLHPSSRLRTLWIWECGI  268 (461)
T ss_dssp             CCCCCEEECTTSC-CBTTHHHHHHHHHHHCTTCCEEECCSS-BCHHHHHHHH-------HHHHTSTTCCCCEEECTTSCC
T ss_pred             CCCceEEEccCCC-CcHHHHHHHHHHHHhCCCccEEeccCC-cCChHHHHHH-------HHHHhcCCCCceEEECcCCCC
Confidence            3466777776653 22210  00011345677777777776 3443221100       000023578999999998 22


Q ss_pred             cc-----ccccccCCCCcceEEecCCCCcceecccCchh--HhhhccccEEEEecCCCccc----ccCCccccCCCCEEe
Q 040122          214 QH-----LFDEKVAFPQLGNLRLSGLHKVQHLWKENDES--NKAFANLERLEISECSKLQK----LVPPSWHLENLEALK  282 (388)
Q Consensus       214 ~~-----~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~--~~~~~~L~~L~i~~~~~~~~----~~~~~~~~~~L~~L~  282 (388)
                      ..     ++..+..+++|++|+++++ .+++.....+..  ....++|++|++++|.....    ++..+..+++|++|+
T Consensus       269 ~~~~~~~l~~~l~~~~~L~~L~Ls~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~  347 (461)
T 1z7x_W          269 TAKGCGDLCRVLRAKESLKELSLAGN-ELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQ  347 (461)
T ss_dssp             CHHHHHHHHHHHHHCTTCCEEECTTC-CCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEE
T ss_pred             CHHHHHHHHHHHhhCCCcceEECCCC-CCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEE
Confidence            22     4556667899999999986 444322111100  01236999999999974432    344556779999999


Q ss_pred             eccCcCcccccchhhhc----CccccceeeEccccccc----hhhcccccccCCccccccccceEecccCCCcceecCCC
Q 040122          283 VSKCHELINVLTLSASK----NLVNLGRMMIADCKMIE----QIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGN  354 (388)
Q Consensus       283 l~~c~~l~~~~~~~~~~----~l~~L~~L~l~~~~~~~----~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  354 (388)
                      ++++ .+.+.....+..    ..++|++|++++|....    .++.        ....+++|++|++++++ ++......
T Consensus       348 Ls~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~--------~l~~~~~L~~L~l~~N~-i~~~~~~~  417 (461)
T 1z7x_W          348 ISNN-RLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAA--------TLLANHSLRELDLSNNC-LGDAGILQ  417 (461)
T ss_dssp             CCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHH--------HHHHCCCCCEEECCSSS-CCHHHHHH
T ss_pred             ccCC-ccccccHHHHHHHHcCCCCceEEEECCCCCCChhhHHHHHH--------HHHhCCCccEEECCCCC-CCHHHHHH
Confidence            9997 566543332222    26799999999985432    2222        12346899999999974 33221110


Q ss_pred             ----ccccCCCcceEEeccCCC
Q 040122          355 ----YALEFPSLKQVVVRQCPK  372 (388)
Q Consensus       355 ----~~~~~~~L~~L~l~~c~~  372 (388)
                          ......+|+.|++.++..
T Consensus       418 l~~~l~~~~~~L~~L~~~~~~~  439 (461)
T 1z7x_W          418 LVESVRQPGCLLEQLVLYDIYW  439 (461)
T ss_dssp             HHHHHTSTTCCCCEEECTTCCC
T ss_pred             HHHHhccCCcchhheeeccccc
Confidence                001135788888887654

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

Probab=99.57  E-value=1.3e-13  Score=122.81  Aligned_cols=110  Identities=18%  Similarity=0.159  Sum_probs=58.9

Q ss_pred             CcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccc
Q 040122           51 DINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKE  130 (388)
Q Consensus        51 ~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  130 (388)
                      +.+.+++++.. ++.++...      .+++++|++++| .++.+++.. +.++++|++|++++| .+..++..       
T Consensus        17 ~~~~l~~~~~~-l~~ip~~~------~~~l~~L~l~~n-~l~~~~~~~-~~~l~~L~~L~l~~n-~l~~i~~~-------   79 (270)
T 2o6q_A           17 NKNSVDCSSKK-LTAIPSNI------PADTKKLDLQSN-KLSSLPSKA-FHRLTKLRLLYLNDN-KLQTLPAG-------   79 (270)
T ss_dssp             TTTEEECTTSC-CSSCCSCC------CTTCSEEECCSS-CCSCCCTTS-SSSCTTCCEEECCSS-CCSCCCTT-------
T ss_pred             CCCEEEccCCC-CCccCCCC------CCCCCEEECcCC-CCCeeCHHH-hcCCCCCCEEECCCC-ccCeeChh-------
Confidence            35566665443 44333222      356777777766 455544322 666777777777764 33443321       


Q ss_pred             cccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccC
Q 040122          131 EHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTS  183 (388)
Q Consensus       131 ~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~  183 (388)
                        .+..+++|++|+++++. +..+  +...+..+++|++|+++++ .++.++.
T Consensus        80 --~~~~l~~L~~L~l~~n~-l~~~--~~~~~~~l~~L~~L~l~~n-~l~~~~~  126 (270)
T 2o6q_A           80 --IFKELKNLETLWVTDNK-LQAL--PIGVFDQLVNLAELRLDRN-QLKSLPP  126 (270)
T ss_dssp             --TTSSCTTCCEEECCSSC-CCCC--CTTTTTTCSSCCEEECCSS-CCCCCCT
T ss_pred             --hhcCCCCCCEEECCCCc-CCcC--CHhHcccccCCCEEECCCC-ccCeeCH
Confidence              12446677777776553 3443  2222445667777777665 4444443

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

Probab=99.56  E-value=9.4e-15  Score=130.41  Aligned_cols=198  Identities=21%  Similarity=0.224  Sum_probs=120.3

Q ss_pred             ccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCccccccc
Q 040122           76 FFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFC  155 (388)
Q Consensus        76 ~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  155 (388)
                      .+.++..+.+..+ .+.....   ...+++|++|+++++ .+..++.           +..+++|++|+++++. +..+ 
T Consensus        17 ~~~~l~~l~l~~~-~~~~~~~---~~~l~~L~~L~l~~~-~i~~~~~-----------l~~l~~L~~L~l~~n~-l~~~-   78 (272)
T 3rfs_A           17 AFAETIKANLKKK-SVTDAVT---QNELNSIDQIIANNS-DIKSVQG-----------IQYLPNVRYLALGGNK-LHDI-   78 (272)
T ss_dssp             HHHHHHHHHHTCS-CTTSEEC---HHHHTTCCEEECTTS-CCCCCTT-----------GGGCTTCCEEECTTSC-CCCC-
T ss_pred             hHHHHHHHHhcCc-ccccccc---cccccceeeeeeCCC-Ccccccc-----------cccCCCCcEEECCCCC-CCCc-
Confidence            3555556666555 3444333   678899999999985 3555433           2568999999998874 4444 


Q ss_pred             CCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccc-cccCCCCcceEEecC
Q 040122          156 NFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFD-EKVAFPQLGNLRLSG  233 (388)
Q Consensus       156 ~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~-~~~~~~~L~~L~l~~  233 (388)
                         ..+..+++|++|++++| .++.++...            +..+++|+.|++++ ....++. .++.+++|+.|++++
T Consensus        79 ---~~l~~l~~L~~L~L~~n-~l~~~~~~~------------~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~  142 (272)
T 3rfs_A           79 ---SALKELTNLTYLILTGN-QLQSLPNGV------------FDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAH  142 (272)
T ss_dssp             ---GGGTTCTTCCEEECTTS-CCCCCCTTT------------TTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             ---hhhcCCCCCCEEECCCC-ccCccChhH------------hcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEECCC
Confidence               23678999999999997 566665542            56677777777776 3333332 245667777777776


Q ss_pred             CCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          234 LHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      + .++.++...+   ..+++|++|++++|......+..+..+++|++|+++++ .+..++.. ....+++|++|++++|+
T Consensus       143 n-~l~~~~~~~~---~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~-~~~~l~~L~~L~l~~N~  216 (272)
T 3rfs_A          143 N-QLQSLPKGVF---DKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQN-QLKSVPDG-VFDRLTSLQYIWLHDNP  216 (272)
T ss_dssp             S-CCCCCCTTTT---TTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCSCCCTT-TTTTCTTCCEEECCSSC
T ss_pred             C-ccCccCHHHh---ccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCC-cCCccCHH-HHhCCcCCCEEEccCCC
Confidence            4 4555443322   45566666666666433222223455666666666665 34444332 22456666666666654

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.56  E-value=1.7e-15  Score=137.98  Aligned_cols=34  Identities=21%  Similarity=0.240  Sum_probs=16.9

Q ss_pred             cccceEecccCCCcceecCCCccccCCCcceEEeccCC
Q 040122          334 KELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCP  371 (388)
Q Consensus       334 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~  371 (388)
                      ++|++|+++++ .++.++. .  ..+++|++|++.+++
T Consensus       274 ~~L~~L~Ls~N-~l~~~p~-~--~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          274 AKLSVLDLSYN-RLDRNPS-P--DELPQVGNLSLKGNP  307 (312)
T ss_dssp             SEEEEEECCSS-CCCSCCC-T--TTSCEEEEEECTTCT
T ss_pred             CCceEEECCCC-CCCCChh-H--hhCCCCCEEeccCCC
Confidence            45555555554 3444432 2  125666666666544

>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=99.56  E-value=1.3e-15  Score=140.15  Aligned_cols=258  Identities=14%  Similarity=0.036  Sum_probs=158.1

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcC--CCCcEEEeccccccceecccccccccccccCCcCccccEeecccCccccccc
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCL--NNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFC  155 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l--~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  155 (388)
                      ..++.++++++. +.    ...+..+  +++++|+++++......+.           ...+++|++|+++++. +....
T Consensus        47 ~~~~~l~l~~~~-~~----~~~~~~~~~~~l~~L~l~~n~l~~~~~~-----------~~~~~~L~~L~L~~~~-l~~~~  109 (336)
T 2ast_B           47 SLWQTLDLTGKN-LH----PDVTGRLLSQGVIAFRCPRSFMDQPLAE-----------HFSPFRVQHMDLSNSV-IEVST  109 (336)
T ss_dssp             TTSSEEECTTCB-CC----HHHHHHHHHTTCSEEECTTCEECSCCCS-----------CCCCBCCCEEECTTCE-ECHHH
T ss_pred             hhheeecccccc-CC----HHHHHhhhhccceEEEcCCccccccchh-----------hccCCCCCEEEccCCC-cCHHH
Confidence            346777777652 22    1225555  7788888877532222221           2357888888888764 22210


Q ss_pred             CCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecc--cc--cccccccCCCCcceEEe
Q 040122          156 NFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQ--IQ--HLFDEKVAFPQLGNLRL  231 (388)
Q Consensus       156 ~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~--~~--~~~~~~~~~~~L~~L~l  231 (388)
                      .+.. +..+++|++|++++| .++......            ++.+++|+.|+++++  ..  .++..+..+++|++|++
T Consensus       110 ~~~~-~~~~~~L~~L~L~~~-~l~~~~~~~------------l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l  175 (336)
T 2ast_B          110 LHGI-LSQCSKLQNLSLEGL-RLSDPIVNT------------LAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNL  175 (336)
T ss_dssp             HHHH-HTTBCCCSEEECTTC-BCCHHHHHH------------HTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEEC
T ss_pred             HHHH-HhhCCCCCEEeCcCc-ccCHHHHHH------------HhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcC
Confidence            0111 457788888888887 344322221            566788888888762  22  24445667899999999


Q ss_pred             cCCCCcceecccCchhHhhhc-cccEEEEecCC-Cc--ccccCCccccCCCCEEeeccCcCcccccchhhhcCcccccee
Q 040122          232 SGLHKVQHLWKENDESNKAFA-NLERLEISECS-KL--QKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRM  307 (388)
Q Consensus       232 ~~~~~l~~~~~~~~~~~~~~~-~L~~L~i~~~~-~~--~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L  307 (388)
                      ++|..+++....  .....++ +|++|++++|. .+  ..++..+..+++|++|++++|..+++..... ...+++|++|
T Consensus       176 ~~~~~l~~~~~~--~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~-l~~l~~L~~L  252 (336)
T 2ast_B          176 SWCFDFTEKHVQ--VAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQE-FFQLNYLQHL  252 (336)
T ss_dssp             CCCTTCCHHHHH--HHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGG-GGGCTTCCEE
T ss_pred             CCCCCcChHHHH--HHHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHH-HhCCCCCCEe
Confidence            998666642100  1237788 99999999985 33  3445556788999999999997666543333 3678999999


Q ss_pred             eEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCCCC
Q 040122          308 MIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLL  381 (388)
Q Consensus       308 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~  381 (388)
                      ++++|..+...     ++.  ....+++|++|++.+|     ++......-..++..|++.++.--+..|..++
T Consensus       253 ~l~~~~~~~~~-----~~~--~l~~~~~L~~L~l~~~-----i~~~~~~~l~~~l~~L~l~~n~l~~~~~~~~~  314 (336)
T 2ast_B          253 SLSRCYDIIPE-----TLL--ELGEIPTLKTLQVFGI-----VPDGTLQLLKEALPHLQINCSHFTTIARPTIG  314 (336)
T ss_dssp             ECTTCTTCCGG-----GGG--GGGGCTTCCEEECTTS-----SCTTCHHHHHHHSTTSEESCCCSCCTTCSSCS
T ss_pred             eCCCCCCCCHH-----HHH--HHhcCCCCCEEeccCc-----cCHHHHHHHHhhCcceEEecccCccccCCccc
Confidence            99999633222     111  1245799999999998     23222111012466666765443334454443

>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=99.55  E-value=8.1e-14  Score=126.65  Aligned_cols=188  Identities=18%  Similarity=0.234  Sum_probs=95.1

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      +++|++|++++| .+..++.   +..+++|++|++++| .+..++.           +..+++|++|+++++. +..+  
T Consensus        40 l~~L~~L~l~~~-~i~~l~~---~~~l~~L~~L~L~~n-~i~~~~~-----------~~~l~~L~~L~L~~n~-l~~~--  100 (308)
T 1h6u_A           40 LDGITTLSAFGT-GVTTIEG---VQYLNNLIGLELKDN-QITDLAP-----------LKNLTKITELELSGNP-LKNV--  100 (308)
T ss_dssp             HHTCCEEECTTS-CCCCCTT---GGGCTTCCEEECCSS-CCCCCGG-----------GTTCCSCCEEECCSCC-CSCC--
T ss_pred             cCCcCEEEeeCC-CccCchh---hhccCCCCEEEccCC-cCCCChh-----------HccCCCCCEEEccCCc-CCCc--
Confidence            455555555554 3333221   445555555555553 2333222           1334555555555442 3332  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLH  235 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~  235 (388)
                        ..+..+++|++|++++| .++.++.              +..+++|+.|++++ ....++. ++.+++|+.|+++++ 
T Consensus       101 --~~~~~l~~L~~L~l~~n-~l~~~~~--------------l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n-  161 (308)
T 1h6u_A          101 --SAIAGLQSIKTLDLTST-QITDVTP--------------LAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNA-  161 (308)
T ss_dssp             --GGGTTCTTCCEEECTTS-CCCCCGG--------------GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSS-
T ss_pred             --hhhcCCCCCCEEECCCC-CCCCchh--------------hcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCC-
Confidence              11444555555555554 2333321              34455555555554 1222211 455666777777664 


Q ss_pred             CcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          236 KVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      .++.++.     ...+++|+.|++++|. +..++. +..+++|++|+++++ .+.+.+.   ...+++|+.|++++|+
T Consensus       162 ~l~~~~~-----l~~l~~L~~L~l~~n~-l~~~~~-l~~l~~L~~L~L~~N-~l~~~~~---l~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          162 QVSDLTP-----LANLSKLTTLKADDNK-ISDISP-LASLPNLIEVHLKNN-QISDVSP---LANTSNLFIVTLTNQT  228 (308)
T ss_dssp             CCCCCGG-----GTTCTTCCEEECCSSC-CCCCGG-GGGCTTCCEEECTTS-CCCBCGG---GTTCTTCCEEEEEEEE
T ss_pred             cCCCChh-----hcCCCCCCEEECCCCc-cCcChh-hcCCCCCCEEEccCC-ccCcccc---ccCCCCCCEEEccCCe
Confidence            3444432     1556677777777664 333332 566677777777775 4554432   2567777777777765

>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=99.54  E-value=1.7e-13  Score=122.51  Aligned_cols=201  Identities=16%  Similarity=0.132  Sum_probs=142.6

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      ++|++|+++++. +.......   ...+++|++|++++| .++.+++.. +.++++|++|++++|. +..++...     
T Consensus        28 ~~l~~L~ls~n~-l~~~~~~~---~~~l~~L~~L~l~~n-~l~~~~~~~-~~~l~~L~~L~L~~n~-l~~~~~~~-----   95 (276)
T 2z62_A           28 FSTKNLDLSFNP-LRHLGSYS---FFSFPELQVLDLSRC-EIQTIEDGA-YQSLSHLSTLILTGNP-IQSLALGA-----   95 (276)
T ss_dssp             TTCCEEECTTCC-CCEECTTT---TTTCTTCSEEECTTC-CCCEECTTT-TTTCTTCCEEECTTCC-CCEECTTT-----
T ss_pred             CCccEEECCCCc-ccccCHhH---hccccCCcEEECCCC-cCCccCHHH-ccCCcCCCEEECCCCc-cCccChhh-----
Confidence            679999999876 66554322   256899999999998 677755533 7899999999999964 45443211     


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEE
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLV  209 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l  209 (388)
                          +..+++|++|+++++. +..+  +...+..+++|++|+++++ .++.......           +..+++|+.|++
T Consensus        96 ----~~~l~~L~~L~l~~n~-l~~~--~~~~~~~l~~L~~L~l~~n-~l~~~~l~~~-----------~~~l~~L~~L~L  156 (276)
T 2z62_A           96 ----FSGLSSLQKLVAVETN-LASL--ENFPIGHLKTLKELNVAHN-LIQSFKLPEY-----------FSNLTNLEHLDL  156 (276)
T ss_dssp             ----TTTCTTCCEEECTTSC-CCCS--TTCCCTTCTTCCEEECCSS-CCCCCCCCGG-----------GGGCTTCCEEEC
T ss_pred             ----hcCCccccEEECCCCC-cccc--CchhcccCCCCCEEECcCC-ccceecCchh-----------hccCCCCCEEEC
Confidence                4668999999998874 4444  2223678999999999997 5655432222           788999999999


Q ss_pred             ec-ccccc-cccccCCCCcc----eEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCC-ccccCCCCEEe
Q 040122          210 AN-QIQHL-FDEKVAFPQLG----NLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPP-SWHLENLEALK  282 (388)
Q Consensus       210 ~~-~~~~~-~~~~~~~~~L~----~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~-~~~~~~L~~L~  282 (388)
                      ++ ....+ +..+..+++|+    +|+++++ .++.++...    ....+|++|++++|. +..++.. +..+++|+.|+
T Consensus       157 s~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n-~l~~~~~~~----~~~~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~  230 (276)
T 2z62_A          157 SSNKIQSIYCTDLRVLHQMPLLNLSLDLSLN-PMNFIQPGA----FKEIRLKELALDTNQ-LKSVPDGIFDRLTSLQKIW  230 (276)
T ss_dssp             CSSCCCEECGGGGHHHHTCTTCCEEEECCSS-CCCEECTTS----SCSCCEEEEECCSSC-CSCCCTTTTTTCCSCCEEE
T ss_pred             CCCCCCcCCHHHhhhhhhccccceeeecCCC-cccccCccc----cCCCcccEEECCCCc-eeecCHhHhcccccccEEE
Confidence            98 33322 23344455555    7888884 577776554    233489999999986 5555544 57899999999


Q ss_pred             eccCc
Q 040122          283 VSKCH  287 (388)
Q Consensus       283 l~~c~  287 (388)
                      +++++
T Consensus       231 l~~N~  235 (276)
T 2z62_A          231 LHTNP  235 (276)
T ss_dssp             CCSSC
T ss_pred             ccCCc
Confidence            99863

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

Probab=99.54  E-value=3.3e-13  Score=120.22  Aligned_cols=199  Identities=19%  Similarity=0.146  Sum_probs=140.2

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCC
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF  157 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  157 (388)
                      .+.++++++++ .++.+|. .   -.+++++|+++++ .+..++...         +..+++|++|+++++ .++.+  +
T Consensus        16 ~~~~~l~~~~~-~l~~ip~-~---~~~~l~~L~l~~n-~l~~~~~~~---------~~~l~~L~~L~l~~n-~l~~i--~   77 (270)
T 2o6q_A           16 NNKNSVDCSSK-KLTAIPS-N---IPADTKKLDLQSN-KLSSLPSKA---------FHRLTKLRLLYLNDN-KLQTL--P   77 (270)
T ss_dssp             TTTTEEECTTS-CCSSCCS-C---CCTTCSEEECCSS-CCSCCCTTS---------SSSCTTCCEEECCSS-CCSCC--C
T ss_pred             CCCCEEEccCC-CCCccCC-C---CCCCCCEEECcCC-CCCeeCHHH---------hcCCCCCCEEECCCC-ccCee--C
Confidence            46789999877 6776443 2   2367999999996 455554311         467899999999886 35555  3


Q ss_pred             CCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cccccc-ccccCCCCcceEEecCCC
Q 040122          158 TGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLF-DEKVAFPQLGNLRLSGLH  235 (388)
Q Consensus       158 ~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~-~~~~~~~~L~~L~l~~~~  235 (388)
                      ...+..+++|++|++.++ .++.++...            +..+++|+.|++++ ....++ ..++.+++|++|+++++ 
T Consensus        78 ~~~~~~l~~L~~L~l~~n-~l~~~~~~~------------~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n-  143 (270)
T 2o6q_A           78 AGIFKELKNLETLWVTDN-KLQALPIGV------------FDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYN-  143 (270)
T ss_dssp             TTTTSSCTTCCEEECCSS-CCCCCCTTT------------TTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-
T ss_pred             hhhhcCCCCCCEEECCCC-cCCcCCHhH------------cccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCC-
Confidence            332467999999999997 577666543            67889999999987 333333 34567889999999885 


Q ss_pred             CcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          236 KVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      .++.++...+   ..+++|++|++++|......+..+..+++|++|+++++ .++.++.. ....+++|+.|++++|+
T Consensus       144 ~l~~~~~~~~---~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~-~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          144 ELQSLPKGVF---DKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNN-QLKRVPEG-AFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             CCCCCCTTTT---TTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSS-CCSCCCTT-TTTTCTTCCEEECCSSC
T ss_pred             cCCccCHhHc---cCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCC-cCCcCCHH-HhccccCCCEEEecCCC
Confidence            5666665433   66788999999887543333334677889999999886 56665443 23567888999888775

>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=99.54  E-value=9.2e-14  Score=126.27  Aligned_cols=193  Identities=18%  Similarity=0.242  Sum_probs=144.4

Q ss_pred             CCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccc
Q 040122           48 GFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELS  127 (388)
Q Consensus        48 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~  127 (388)
                      .+++|++|+++++. +...+ +.    ..+++|++|++++| .+..+++   +.++++|++|++++|. +..++.     
T Consensus        39 ~l~~L~~L~l~~~~-i~~l~-~~----~~l~~L~~L~L~~n-~i~~~~~---~~~l~~L~~L~L~~n~-l~~~~~-----  102 (308)
T 1h6u_A           39 DLDGITTLSAFGTG-VTTIE-GV----QYLNNLIGLELKDN-QITDLAP---LKNLTKITELELSGNP-LKNVSA-----  102 (308)
T ss_dssp             HHHTCCEEECTTSC-CCCCT-TG----GGCTTCCEEECCSS-CCCCCGG---GTTCCSCCEEECCSCC-CSCCGG-----
T ss_pred             HcCCcCEEEeeCCC-ccCch-hh----hccCCCCEEEccCC-cCCCChh---HccCCCCCEEEccCCc-CCCchh-----
Confidence            46789999999875 65443 22    56899999999988 6776554   7899999999999964 555533     


Q ss_pred             ccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceE
Q 040122          128 AKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENL  207 (388)
Q Consensus       128 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L  207 (388)
                            +..+++|++|+++++. +..+.    .+..+++|++|++++| .++..+.              +..+++|+.|
T Consensus       103 ------~~~l~~L~~L~l~~n~-l~~~~----~l~~l~~L~~L~l~~n-~l~~~~~--------------l~~l~~L~~L  156 (308)
T 1h6u_A          103 ------IAGLQSIKTLDLTSTQ-ITDVT----PLAGLSNLQVLYLDLN-QITNISP--------------LAGLTNLQYL  156 (308)
T ss_dssp             ------GTTCTTCCEEECTTSC-CCCCG----GGTTCTTCCEEECCSS-CCCCCGG--------------GGGCTTCCEE
T ss_pred             ------hcCCCCCCEEECCCCC-CCCch----hhcCCCCCCEEECCCC-ccCcCcc--------------ccCCCCccEE
Confidence                  3668999999998874 55542    2678999999999997 5655542              6778999999


Q ss_pred             EEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          208 LVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       208 ~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                      ++++ ....++. +..+++|+.|+++++ .++.++.     ...+++|++|++++|.. ..++ .+..+++|+.|+++++
T Consensus       157 ~l~~n~l~~~~~-l~~l~~L~~L~l~~n-~l~~~~~-----l~~l~~L~~L~L~~N~l-~~~~-~l~~l~~L~~L~l~~N  227 (308)
T 1h6u_A          157 SIGNAQVSDLTP-LANLSKLTTLKADDN-KISDISP-----LASLPNLIEVHLKNNQI-SDVS-PLANTSNLFIVTLTNQ  227 (308)
T ss_dssp             ECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG-----GGGCTTCCEEECTTSCC-CBCG-GGTTCTTCCEEEEEEE
T ss_pred             EccCCcCCCChh-hcCCCCCCEEECCCC-ccCcChh-----hcCCCCCCEEEccCCcc-Cccc-cccCCCCCCEEEccCC
Confidence            9998 3333333 778899999999985 5666553     27789999999999854 4444 3788999999999986


Q ss_pred             cCcccc
Q 040122          287 HELINV  292 (388)
Q Consensus       287 ~~l~~~  292 (388)
                      + +...
T Consensus       228 ~-i~~~  232 (308)
T 1h6u_A          228 T-ITNQ  232 (308)
T ss_dssp             E-EECC
T ss_pred             e-eecC
Confidence            3 4443

>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=99.50  E-value=7.5e-13  Score=119.14  Aligned_cols=198  Identities=19%  Similarity=0.113  Sum_probs=147.6

Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      ..++++++++++++ .++.+++.    -.+++++|++++|. +..++...         +..+++|++|+++++. ++.+
T Consensus         7 ~~l~~l~~l~~~~~-~l~~ip~~----~~~~l~~L~L~~N~-l~~~~~~~---------~~~l~~L~~L~L~~n~-l~~~   70 (290)
T 1p9a_G            7 SKVASHLEVNCDKR-NLTALPPD----LPKDTTILHLSENL-LYTFSLAT---------LMPYTRLTQLNLDRAE-LTKL   70 (290)
T ss_dssp             ECSTTCCEEECTTS-CCSSCCSC----CCTTCCEEECTTSC-CSEEEGGG---------GTTCTTCCEEECTTSC-CCEE
T ss_pred             cccCCccEEECCCC-CCCcCCCC----CCCCCCEEEcCCCc-CCccCHHH---------hhcCCCCCEEECCCCc-cCcc
Confidence            46889999999987 67775442    23789999999964 55443211         4678999999999864 5665


Q ss_pred             cCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cccccc-ccccCCCCcceEEec
Q 040122          155 CNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLF-DEKVAFPQLGNLRLS  232 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~-~~~~~~~~L~~L~l~  232 (388)
                      ..    .+.+++|++|+++++ .++.++..             +..+++|+.|++++ ....++ ..+..+++|+.|+++
T Consensus        71 ~~----~~~l~~L~~L~Ls~N-~l~~l~~~-------------~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~  132 (290)
T 1p9a_G           71 QV----DGTLPVLGTLDLSHN-QLQSLPLL-------------GQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLK  132 (290)
T ss_dssp             EC----CSCCTTCCEEECCSS-CCSSCCCC-------------TTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECT
T ss_pred             cC----CCCCCcCCEEECCCC-cCCcCchh-------------hccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECC
Confidence            22    358999999999997 67766653             67899999999998 444444 457788999999999


Q ss_pred             CCCCcceecccCchhHhhhccccEEEEecCCCcccccCC-ccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcc
Q 040122          233 GLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPP-SWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIAD  311 (388)
Q Consensus       233 ~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~-~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~  311 (388)
                      ++ .++.++...+   ..+++|+.|+++++. +..++.. +..+++|++|+++++ .++.++..  ....++|+.+++.+
T Consensus       133 ~N-~l~~~~~~~~---~~l~~L~~L~L~~N~-l~~l~~~~~~~l~~L~~L~L~~N-~l~~ip~~--~~~~~~L~~l~L~~  204 (290)
T 1p9a_G          133 GN-ELKTLPPGLL---TPTPKLEKLSLANNN-LTELPAGLLNGLENLDTLLLQEN-SLYTIPKG--FFGSHLLPFAFLHG  204 (290)
T ss_dssp             TS-CCCCCCTTTT---TTCTTCCEEECTTSC-CSCCCTTTTTTCTTCCEEECCSS-CCCCCCTT--TTTTCCCSEEECCS
T ss_pred             CC-CCCccChhhc---ccccCCCEEECCCCc-CCccCHHHhcCcCCCCEEECCCC-cCCccChh--hcccccCCeEEeCC
Confidence            85 5777765543   567899999999975 4556554 467899999999986 56666543  24567899999987


Q ss_pred             ccc
Q 040122          312 CKM  314 (388)
Q Consensus       312 ~~~  314 (388)
                      ++.
T Consensus       205 Np~  207 (290)
T 1p9a_G          205 NPW  207 (290)
T ss_dssp             CCB
T ss_pred             CCc
Confidence            753

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.49  E-value=3.9e-14  Score=128.88  Aligned_cols=154  Identities=19%  Similarity=0.163  Sum_probs=85.9

Q ss_pred             cCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecc-ccc---cc--ccccCCCCcceEEecCCCC
Q 040122          163 ELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQ-IQH---LF--DEKVAFPQLGNLRLSGLHK  236 (388)
Q Consensus       163 ~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~-~~~---~~--~~~~~~~~L~~L~l~~~~~  236 (388)
                      .+++|++|++++| .+...+...            ++.+++|+.|+++++ ...   ++  ...+.+++|++|+++++ .
T Consensus       143 ~~~~L~~L~Ls~n-~l~~~~~~~------------~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N-~  208 (310)
T 4glp_A          143 LKPGLKVLSIAQA-HSPAFSCEQ------------VRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNT-G  208 (310)
T ss_dssp             BCSCCCEEEEECC-SSCCCCTTS------------CCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSS-C
T ss_pred             hccCCCEEEeeCC-CcchhhHHH------------hccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCC-C
Confidence            4566666666665 344443332            455666666666652 111   11  22245677777777775 3


Q ss_pred             cceecccCchhHhhhccccEEEEecCCCcccccCCcccc---CCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          237 VQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHL---ENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       237 l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~---~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      ++.++.........+++|++|++++|......|..+..+   ++|++|+++++ .++.++.. +   .++|++|++++|.
T Consensus       209 l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N-~l~~lp~~-~---~~~L~~L~Ls~N~  283 (310)
T 4glp_A          209 METPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFA-GLEQVPKG-L---PAKLRVLDLSSNR  283 (310)
T ss_dssp             CCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSS-CCCSCCSC-C---CSCCSCEECCSCC
T ss_pred             CCchHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCC-CCCchhhh-h---cCCCCEEECCCCc
Confidence            444332111112456778888888776554445555554   68888888775 45554332 1   2678888888774


Q ss_pred             ccchhhcccccccCCccccccccceEecccCC
Q 040122          314 MIEQIIQLQVGEEAKDCNVFKELEYLGLDCLP  345 (388)
Q Consensus       314 ~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  345 (388)
                       ++.++.         ...+++|+.|++++++
T Consensus       284 -l~~~~~---------~~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          284 -LNRAPQ---------PDELPEVDNLTLDGNP  305 (310)
T ss_dssp             -CCSCCC---------TTSCCCCSCEECSSTT
T ss_pred             -CCCCch---------hhhCCCccEEECcCCC
Confidence             333221         1345778888887754

>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=99.45  E-value=7.3e-15  Score=137.94  Aligned_cols=250  Identities=15%  Similarity=0.104  Sum_probs=133.2

Q ss_pred             hhHHHHhhhccCCCCcceEEecCccccceecccc-ccCccccCCccEEEecCC--CCCcccCChhh------hhcCCCCc
Q 040122           37 STIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQ-ALPVRFFNNLAELVVDDS--TNMSSAIPANL------LRCLNNLE  107 (388)
Q Consensus        37 ~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~-~~~~~~~~~L~~L~l~~~--~~l~~~~~~~~------~~~l~~L~  107 (388)
                      ..++.++..+..+++|++|+++++. +....... +.....+++|++|++++|  ..+....|..+      +.++++|+
T Consensus        19 ~~~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~   97 (386)
T 2ca6_A           19 EDEKSVFAVLLEDDSVKEIVLSGNT-IGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLH   97 (386)
T ss_dssp             HHHHTTSHHHHHCSCCCEEECTTSE-ECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCC
T ss_pred             HHHHHHHHHHhcCCCccEEECCCCC-CCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCccc
Confidence            4455666666677888888888775 44221100 001145788888888877  23333233331      36778888


Q ss_pred             EEEeccccccc----eecccccccccccccCCcCccccEeecccCcccccccC--CCCccccC---------CCcceEeE
Q 040122          108 WLAVRNCDSLE----EVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN--FTGNIIEL---------PKLEYLII  172 (388)
Q Consensus       108 ~L~l~~~~~l~----~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~--~~~~~~~l---------~~L~~L~l  172 (388)
                      +|++++|..-.    .++..          +..+++|++|++++|.. .....  ....+..+         ++|++|++
T Consensus        98 ~L~Ls~n~l~~~~~~~l~~~----------l~~~~~L~~L~L~~n~l-~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L  166 (386)
T 2ca6_A           98 TVRLSDNAFGPTAQEPLIDF----------LSKHTPLEHLYLHNNGL-GPQAGAKIARALQELAVNKKAKNAPPLRSIIC  166 (386)
T ss_dssp             EEECCSCCCCTTTHHHHHHH----------HHHCTTCCEEECCSSCC-HHHHHHHHHHHHHHHHHHHHHHTCCCCCEEEC
T ss_pred             EEECCCCcCCHHHHHHHHHH----------HHhCCCCCEEECcCCCC-CHHHHHHHHHHHHHHhhhhhcccCCCCcEEEC
Confidence            88888864222    12211          24578888888887743 21100  00002223         78888888


Q ss_pred             ecCCCcccccCCcceeeecccCCCccccccCCceEEEecc-cc-----cccc-cccCCCCcceEEecCCCCcc-----ee
Q 040122          173 ENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQ-IQ-----HLFD-EKVAFPQLGNLRLSGLHKVQ-----HL  240 (388)
Q Consensus       173 ~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~-~~-----~~~~-~~~~~~~L~~L~l~~~~~l~-----~~  240 (388)
                      .+| .++.......        ...+..+++|+.|+++++ ..     .+.. .+..+++|+.|+++++. ++     .+
T Consensus       167 ~~n-~l~~~~~~~l--------~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~-l~~~g~~~l  236 (386)
T 2ca6_A          167 GRN-RLENGSMKEW--------AKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSAL  236 (386)
T ss_dssp             CSS-CCTGGGHHHH--------HHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHHH
T ss_pred             CCC-CCCcHHHHHH--------HHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCC-CCcHHHHHH
Confidence            886 3432111100        001446667777777761 11     1222 55667777777777653 32     22


Q ss_pred             cccCchhHhhhccccEEEEecCCCccc----ccCCc--cccCCCCEEeeccCcCccc-----ccchhhhcCccccceeeE
Q 040122          241 WKENDESNKAFANLERLEISECSKLQK----LVPPS--WHLENLEALKVSKCHELIN-----VLTLSASKNLVNLGRMMI  309 (388)
Q Consensus       241 ~~~~~~~~~~~~~L~~L~i~~~~~~~~----~~~~~--~~~~~L~~L~l~~c~~l~~-----~~~~~~~~~l~~L~~L~l  309 (388)
                      +.    ....+++|++|++++|.....    ++..+  +.+++|++|++++| .+..     ++ ..+..++++|++|++
T Consensus       237 ~~----~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n-~i~~~g~~~l~-~~l~~~l~~L~~L~l  310 (386)
T 2ca6_A          237 AI----ALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYN-EIELDAVRTLK-TVIDEKMPDLLFLEL  310 (386)
T ss_dssp             HH----HGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSS-CCBHHHHHHHH-HHHHHHCTTCCEEEC
T ss_pred             HH----HHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCC-cCCHHHHHHHH-HHHHhcCCCceEEEc
Confidence            21    114556777777777653322    23333  23667777777765 3443     21 112245677777777


Q ss_pred             ccccc
Q 040122          310 ADCKM  314 (388)
Q Consensus       310 ~~~~~  314 (388)
                      ++|+.
T Consensus       311 ~~N~l  315 (386)
T 2ca6_A          311 NGNRF  315 (386)
T ss_dssp             TTSBS
T ss_pred             cCCcC
Confidence            77653

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.45  E-value=1.2e-12  Score=119.07  Aligned_cols=234  Identities=20%  Similarity=0.190  Sum_probs=140.3

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhh-hcCCCCcEEEeccccccceecccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLL-RCLNNLEWLAVRNCDSLEEVLHLEELSA  128 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~-~~l~~L~~L~l~~~~~l~~i~~~~~~~~  128 (388)
                      ..++.+.+.++. +.............+++|++|++++| .+....+..++ .++++|++|++++|......+...... 
T Consensus        64 ~~l~~l~l~~~~-~~~~~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~-  140 (310)
T 4glp_A           64 LRVRRLTVGAAQ-VPAQLLVGALRVLAYSRLKELTLEDL-KITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQ-  140 (310)
T ss_dssp             CCCCEEEECSCC-CBHHHHHHHHHHHHHSCCCEEEEESC-CCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHH-
T ss_pred             cceeEEEEeCCc-CCHHHHHHHHHhcccCceeEEEeeCC-EeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHH-
Confidence            456777777654 32111000000123566888888887 45544444322 778888888888864332222111100 


Q ss_pred             cccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccc--ccCCcceeeecccCCCccccccCCce
Q 040122          129 KEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMET--FTSNSTFVLHMTADNKEPQKLKSEEN  206 (388)
Q Consensus       129 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~--~~~~~~~~~~l~~~~~~l~~l~~L~~  206 (388)
                           ...+++|++|+++++. +..+  +...+..+++|++|+++++.-...  ++....           +..+++|+.
T Consensus       141 -----~~~~~~L~~L~Ls~n~-l~~~--~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~-----------~~~l~~L~~  201 (310)
T 4glp_A          141 -----QWLKPGLKVLSIAQAH-SPAF--SCEQVRAFPALTSLDLSDNPGLGERGLMAALC-----------PHKFPAIQN  201 (310)
T ss_dssp             -----TTBCSCCCEEEEECCS-SCCC--CTTSCCCCTTCCEEECCSCTTCHHHHHHTTSC-----------TTSSCCCCS
T ss_pred             -----hhhccCCCEEEeeCCC-cchh--hHHHhccCCCCCEEECCCCCCccchhhhHHHh-----------hhcCCCCCE
Confidence                 2357888888887764 3444  223356788888888888743221  322222           456788888


Q ss_pred             EEEec-ccccccc----cccCCCCcceEEecCCCCccee-cccCchhHhhhccccEEEEecCCCcccccCCccccCCCCE
Q 040122          207 LLVAN-QIQHLFD----EKVAFPQLGNLRLSGLHKVQHL-WKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEA  280 (388)
Q Consensus       207 L~l~~-~~~~~~~----~~~~~~~L~~L~l~~~~~l~~~-~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~  280 (388)
                      |++++ ....++.    ..+.+++|++|+++++ .++.. +... .....+++|++|++++|. ++.+|..+.  ++|+.
T Consensus       202 L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N-~l~~~~p~~~-~~~~~~~~L~~L~Ls~N~-l~~lp~~~~--~~L~~  276 (310)
T 4glp_A          202 LALRNTGMETPTGVCAALAAAGVQPHSLDLSHN-SLRATVNPSA-PRCMWSSALNSLNLSFAG-LEQVPKGLP--AKLRV  276 (310)
T ss_dssp             CBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTS-CCCCCCCSCC-SSCCCCTTCCCEECCSSC-CCSCCSCCC--SCCSC
T ss_pred             EECCCCCCCchHHHHHHHHhcCCCCCEEECCCC-CCCccchhhH-HhccCcCcCCEEECCCCC-CCchhhhhc--CCCCE
Confidence            88887 2222221    1356789999999885 45554 3222 111223799999999875 447776654  79999


Q ss_pred             EeeccCcCcccccchhhhcCccccceeeEccccc
Q 040122          281 LKVSKCHELINVLTLSASKNLVNLGRMMIADCKM  314 (388)
Q Consensus       281 L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~  314 (388)
                      |+++++ .++.++.   ...+++|+.|++++|+.
T Consensus       277 L~Ls~N-~l~~~~~---~~~l~~L~~L~L~~N~l  306 (310)
T 4glp_A          277 LDLSSN-RLNRAPQ---PDELPEVDNLTLDGNPF  306 (310)
T ss_dssp             EECCSC-CCCSCCC---TTSCCCCSCEECSSTTT
T ss_pred             EECCCC-cCCCCch---hhhCCCccEEECcCCCC
Confidence            999986 5666543   36789999999998853

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.45  E-value=2.6e-13  Score=123.57  Aligned_cols=229  Identities=21%  Similarity=0.201  Sum_probs=149.8

Q ss_pred             cceEEecCcccccee--cccc---ccCccccCCccEEEecCCCCCcccCChhh-hhcCCCCcEEEeccccccceeccc-c
Q 040122           52 INRLQLSHFPRLQEI--WHGQ---ALPVRFFNNLAELVVDDSTNMSSAIPANL-LRCLNNLEWLAVRNCDSLEEVLHL-E  124 (388)
Q Consensus        52 L~~L~l~~~~~l~~~--~~~~---~~~~~~~~~L~~L~l~~~~~l~~~~~~~~-~~~l~~L~~L~l~~~~~l~~i~~~-~  124 (388)
                      |++|+++++. +...  +...   ......+++|++|++++| .+....|..+ +..+++|++|++++|. +..+|.. .
T Consensus        65 L~~L~L~~n~-l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~  141 (312)
T 1wwl_A           65 IKSLSLKRLT-VRAARIPSRILFGALRVLGISGLQELTLENL-EVTGTAPPPLLEATGPDLNILNLRNVS-WATRDAWLA  141 (312)
T ss_dssp             HHHCCCCEEE-EEEEECBHHHHHHHHHHHTTSCCCEEEEEEE-BCBSCCCCCSSSCCSCCCSEEEEESCB-CSSSSSHHH
T ss_pred             Hhhccccccc-ccCCCcCHHHHHHHHHhcCcCCccEEEccCC-cccchhHHHHHHhcCCCccEEEccCCC-CcchhHHHH
Confidence            7777777654 4321  1111   000014789999999998 4554344442 2889999999999964 4443321 0


Q ss_pred             cccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccc--ccCCcceeeecccCCCcccccc
Q 040122          125 ELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMET--FTSNSTFVLHMTADNKEPQKLK  202 (388)
Q Consensus       125 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~--~~~~~~~~~~l~~~~~~l~~l~  202 (388)
                      .+.      ....++|++|+++++. +..+  +...++.+++|++|+++++.-...  .+....           +..++
T Consensus       142 ~l~------~~~~~~L~~L~L~~N~-l~~~--~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~-----------~~~l~  201 (312)
T 1wwl_A          142 ELQ------QWLKPGLKVLSIAQAH-SLNF--SCEQVRVFPALSTLDLSDNPELGERGLISALC-----------PLKFP  201 (312)
T ss_dssp             HHH------TTCCTTCCEEEEESCS-CCCC--CTTTCCCCSSCCEEECCSCTTCHHHHHHHHSC-----------TTSCT
T ss_pred             HHH------HhhcCCCcEEEeeCCC-Cccc--hHHHhccCCCCCEEECCCCCcCcchHHHHHHH-----------hccCC
Confidence            000      0113899999998874 4555  323377899999999999853322  121211           37789


Q ss_pred             CCceEEEec-ccc---cccc-cccCCCCcceEEecCCCCcceecc-cCchhHhhhccccEEEEecCCCcccccCCccccC
Q 040122          203 SEENLLVAN-QIQ---HLFD-EKVAFPQLGNLRLSGLHKVQHLWK-ENDESNKAFANLERLEISECSKLQKLVPPSWHLE  276 (388)
Q Consensus       203 ~L~~L~l~~-~~~---~~~~-~~~~~~~L~~L~l~~~~~l~~~~~-~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~  276 (388)
                      +|+.|++++ ...   .++. ....+++|+.|+++++ .++...+ ...   ..+++|++|++++|. ++.+|..+.  +
T Consensus       202 ~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~---~~l~~L~~L~Ls~N~-l~~ip~~~~--~  274 (312)
T 1wwl_A          202 TLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHN-SLRDAAGAPSC---DWPSQLNSLNLSFTG-LKQVPKGLP--A  274 (312)
T ss_dssp             TCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTS-CCCSSCCCSCC---CCCTTCCEEECTTSC-CSSCCSSCC--S
T ss_pred             CCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCC-cCCcccchhhh---hhcCCCCEEECCCCc-cChhhhhcc--C
Confidence            999999988 332   2222 2246789999999985 4555331 111   456899999999986 457777665  8


Q ss_pred             CCCEEeeccCcCcccccchhhhcCccccceeeEccccc
Q 040122          277 NLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKM  314 (388)
Q Consensus       277 ~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~  314 (388)
                      +|++|+++++ .++.++.   ...+++|++|++++++.
T Consensus       275 ~L~~L~Ls~N-~l~~~p~---~~~l~~L~~L~L~~N~l  308 (312)
T 1wwl_A          275 KLSVLDLSYN-RLDRNPS---PDELPQVGNLSLKGNPF  308 (312)
T ss_dssp             EEEEEECCSS-CCCSCCC---TTTSCEEEEEECTTCTT
T ss_pred             CceEEECCCC-CCCCChh---HhhCCCCCEEeccCCCC
Confidence            9999999986 6777643   36889999999998853

>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=99.40  E-value=6.4e-12  Score=110.55  Aligned_cols=176  Identities=17%  Similarity=0.174  Sum_probs=92.6

Q ss_pred             CcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccc
Q 040122           51 DINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKE  130 (388)
Q Consensus        51 ~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~  130 (388)
                      +.+++++++.. +..++.+.      .+++++|++++| .+....+.. +.++++|++|++++| .+..++..       
T Consensus        15 ~~~~l~~~~~~-l~~~p~~~------~~~l~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~L~~n-~l~~~~~~-------   77 (251)
T 3m19_A           15 GKKEVDCQGKS-LDSVPSGI------PADTEKLDLQST-GLATLSDAT-FRGLTKLTWLNLDYN-QLQTLSAG-------   77 (251)
T ss_dssp             GGTEEECTTCC-CSSCCSCC------CTTCCEEECTTS-CCCCCCTTT-TTTCTTCCEEECTTS-CCCCCCTT-------
T ss_pred             CCeEEecCCCC-ccccCCCC------CCCCCEEEccCC-CcCccCHhH-hcCcccCCEEECCCC-cCCccCHh-------
Confidence            34555655443 44333222      356667777666 444433322 566677777777664 33333221       


Q ss_pred             cccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEe
Q 040122          131 EHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVA  210 (388)
Q Consensus       131 ~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~  210 (388)
                        .+..+++|++|+++++. ++.+  +...+..+++|++|+++++ .++.++...                         
T Consensus        78 --~~~~l~~L~~L~L~~n~-l~~~--~~~~~~~l~~L~~L~L~~N-~l~~~~~~~-------------------------  126 (251)
T 3m19_A           78 --VFDDLTELGTLGLANNQ-LASL--PLGVFDHLTQLDKLYLGGN-QLKSLPSGV-------------------------  126 (251)
T ss_dssp             --TTTTCTTCCEEECTTSC-CCCC--CTTTTTTCTTCCEEECCSS-CCCCCCTTT-------------------------
T ss_pred             --HhccCCcCCEEECCCCc-cccc--ChhHhcccCCCCEEEcCCC-cCCCcChhH-------------------------
Confidence              02446666666666542 3333  2222445666666666664 444443321                         


Q ss_pred             cccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCc
Q 040122          211 NQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCH  287 (388)
Q Consensus       211 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~  287 (388)
                               +..+++|+.|+++++ .++.++...+   ..+++|++|++++|......+..+..+++|++|++++++
T Consensus       127 ---------~~~l~~L~~L~Ls~N-~l~~~~~~~~---~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~  190 (251)
T 3m19_A          127 ---------FDRLTKLKELRLNTN-QLQSIPAGAF---DKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFGNQ  190 (251)
T ss_dssp             ---------TTTCTTCCEEECCSS-CCCCCCTTTT---TTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCC
T ss_pred             ---------hccCCcccEEECcCC-cCCccCHHHc---CcCcCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCc
Confidence                     234556666666653 4555544322   455667777777664333333355667778888887753

>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=99.37  E-value=8.6e-14  Score=130.59  Aligned_cols=268  Identities=11%  Similarity=0.023  Sum_probs=166.1

Q ss_pred             cCcceeeecCCCCc-hhHHHHhhhccCCCCcceEEecCcc--ccce-eccccc---cCccccCCccEEEecCCCCCcc--
Q 040122           23 EEGELHHWEGNNLN-STIQKCYDEKIGFLDINRLQLSHFP--RLQE-IWHGQA---LPVRFFNNLAELVVDDSTNMSS--   93 (388)
Q Consensus        23 ~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~L~~L~l~~~~--~l~~-~~~~~~---~~~~~~~~L~~L~l~~~~~l~~--   93 (388)
                      ..+..++..++... .....++..+..+++|++|+++++.  .+.. ++.+..   .....+++|++|++++| .++.  
T Consensus        32 ~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n-~l~~~~  110 (386)
T 2ca6_A           32 DSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDN-AFGPTA  110 (386)
T ss_dssp             SCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSC-CCCTTT
T ss_pred             CCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCC-cCCHHH
Confidence            34555555553222 2344566778889999999999874  2221 111100   00145799999999998 4554  


Q ss_pred             --cCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcC---------ccccEeecccCccc-ccccCCCCcc
Q 040122           94 --AIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLF---------PRLLSLKLIDLPKL-KRFCNFTGNI  161 (388)
Q Consensus        94 --~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~---------~~L~~L~l~~~~~l-~~~~~~~~~~  161 (388)
                        ..+. .+.++++|++|++++|.. ...... .+.    ..+..+         ++|++|+++++..- ..+......+
T Consensus       111 ~~~l~~-~l~~~~~L~~L~L~~n~l-~~~~~~-~l~----~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l  183 (386)
T 2ca6_A          111 QEPLID-FLSKHTPLEHLYLHNNGL-GPQAGA-KIA----RALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTF  183 (386)
T ss_dssp             HHHHHH-HHHHCTTCCEEECCSSCC-HHHHHH-HHH----HHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHH
T ss_pred             HHHHHH-HHHhCCCCCEEECcCCCC-CHHHHH-HHH----HHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHH
Confidence              1222 378899999999999753 211000 000    001223         89999999987532 1221001125


Q ss_pred             ccCCCcceEeEecCCCcccc-----cCCcceeeecccCCCccccccCCceEEEec-cc-----ccccccccCCCCcceEE
Q 040122          162 IELPKLEYLIIENCPDMETF-----TSNSTFVLHMTADNKEPQKLKSEENLLVAN-QI-----QHLFDEKVAFPQLGNLR  230 (388)
Q Consensus       162 ~~l~~L~~L~l~~c~~l~~~-----~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~-----~~~~~~~~~~~~L~~L~  230 (388)
                      ..+++|++|++.+| .++..     ...            .+..+++|+.|++++ ..     ..++..+..+++|+.|+
T Consensus       184 ~~~~~L~~L~L~~n-~l~~~g~~~l~~~------------~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~  250 (386)
T 2ca6_A          184 QSHRLLHTVKMVQN-GIRPEGIEHLLLE------------GLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELG  250 (386)
T ss_dssp             HHCTTCCEEECCSS-CCCHHHHHHHHHT------------TGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEE
T ss_pred             HhCCCcCEEECcCC-CCCHhHHHHHHHH------------HhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEE
Confidence            57899999999998 55521     111            167899999999998 22     45666778899999999


Q ss_pred             ecCCCCcceecccCch-hHhh--hccccEEEEecCCCcc----cccCCc-cccCCCCEEeeccCcCccccc--chhhhcC
Q 040122          231 LSGLHKVQHLWKENDE-SNKA--FANLERLEISECSKLQ----KLVPPS-WHLENLEALKVSKCHELINVL--TLSASKN  300 (388)
Q Consensus       231 l~~~~~l~~~~~~~~~-~~~~--~~~L~~L~i~~~~~~~----~~~~~~-~~~~~L~~L~l~~c~~l~~~~--~~~~~~~  300 (388)
                      +++|. ++......++ .+..  +++|++|++++|....    .++..+ .++++|++|++++++ +....  ...+...
T Consensus       251 L~~n~-i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~-l~~~~~~~~~l~~~  328 (386)
T 2ca6_A          251 LNDCL-LSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNR-FSEEDDVVDEIREV  328 (386)
T ss_dssp             CTTCC-CCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSB-SCTTSHHHHHHHHH
T ss_pred             CCCCC-CchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCc-CCcchhHHHHHHHH
Confidence            99974 4443111110 1122  7899999999987555    366666 568999999999974 44433  2334455


Q ss_pred             ccccceeeEcccc
Q 040122          301 LVNLGRMMIADCK  313 (388)
Q Consensus       301 l~~L~~L~l~~~~  313 (388)
                      +++++.+++....
T Consensus       329 l~~~~~~~l~~~d  341 (386)
T 2ca6_A          329 FSTRGRGELDELD  341 (386)
T ss_dssp             HHHHTCCEECCCC
T ss_pred             hhhcCcchhhhcc
Confidence            6777766665443

>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=99.34  E-value=2.6e-11  Score=106.61  Aligned_cols=177  Identities=19%  Similarity=0.166  Sum_probs=117.5

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCC
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF  157 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  157 (388)
                      .+.++++++++ .++.+|..    -.+++++|+++++. +..++...         +..+++|++|+++++ .+..+  +
T Consensus        14 ~~~~~l~~~~~-~l~~~p~~----~~~~l~~L~L~~n~-l~~~~~~~---------~~~l~~L~~L~L~~n-~l~~~--~   75 (251)
T 3m19_A           14 EGKKEVDCQGK-SLDSVPSG----IPADTEKLDLQSTG-LATLSDAT---------FRGLTKLTWLNLDYN-QLQTL--S   75 (251)
T ss_dssp             GGGTEEECTTC-CCSSCCSC----CCTTCCEEECTTSC-CCCCCTTT---------TTTCTTCCEEECTTS-CCCCC--C
T ss_pred             CCCeEEecCCC-CccccCCC----CCCCCCEEEccCCC-cCccCHhH---------hcCcccCCEEECCCC-cCCcc--C
Confidence            45677777766 56664432    22578888888753 33332210         355777888888765 34444  2


Q ss_pred             CCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecccccccccccCCCCcceEEecCCCCc
Q 040122          158 TGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKV  237 (388)
Q Consensus       158 ~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l  237 (388)
                      ...+..+++|++|+++++ .++.++..                                  .+..+++|+.|+++++ .+
T Consensus        76 ~~~~~~l~~L~~L~L~~n-~l~~~~~~----------------------------------~~~~l~~L~~L~L~~N-~l  119 (251)
T 3m19_A           76 AGVFDDLTELGTLGLANN-QLASLPLG----------------------------------VFDHLTQLDKLYLGGN-QL  119 (251)
T ss_dssp             TTTTTTCTTCCEEECTTS-CCCCCCTT----------------------------------TTTTCTTCCEEECCSS-CC
T ss_pred             HhHhccCCcCCEEECCCC-cccccChh----------------------------------HhcccCCCCEEEcCCC-cC
Confidence            232456777777777775 45444432                                  2345678888888874 56


Q ss_pred             ceecccCchhHhhhccccEEEEecCCCcccccC-CccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccc
Q 040122          238 QHLWKENDESNKAFANLERLEISECSKLQKLVP-PSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKM  314 (388)
Q Consensus       238 ~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~-~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~  314 (388)
                      +.++...+   ..+++|++|+++++. +..++. .+..+++|++|+++++ .+..++... ...+++|+.|++++|+.
T Consensus       120 ~~~~~~~~---~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~-~~~l~~L~~L~l~~N~~  191 (251)
T 3m19_A          120 KSLPSGVF---DRLTKLKELRLNTNQ-LQSIPAGAFDKLTNLQTLSLSTN-QLQSVPHGA-FDRLGKLQTITLFGNQF  191 (251)
T ss_dssp             CCCCTTTT---TTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCSCCCTTT-TTTCTTCCEEECCSCCB
T ss_pred             CCcChhHh---ccCCcccEEECcCCc-CCccCHHHcCcCcCCCEEECCCC-cCCccCHHH-HhCCCCCCEEEeeCCce
Confidence            66665433   668999999999985 455554 5788999999999986 566665433 36789999999998864

>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=99.34  E-value=9.5e-12  Score=111.95  Aligned_cols=165  Identities=19%  Similarity=0.265  Sum_probs=80.6

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      +++|++|++++| .+..++.   +..+++|++|++++| .+..++.           +..+++|++|+++++. +..+  
T Consensus        45 l~~L~~L~l~~~-~i~~~~~---~~~l~~L~~L~L~~n-~l~~~~~-----------l~~l~~L~~L~l~~n~-l~~~--  105 (291)
T 1h6t_A           45 LNSIDQIIANNS-DIKSVQG---IQYLPNVTKLFLNGN-KLTDIKP-----------LANLKNLGWLFLDENK-VKDL--  105 (291)
T ss_dssp             HHTCCEEECTTS-CCCCCTT---GGGCTTCCEEECCSS-CCCCCGG-----------GTTCTTCCEEECCSSC-CCCG--
T ss_pred             cCcccEEEccCC-CcccChh---HhcCCCCCEEEccCC-ccCCCcc-----------cccCCCCCEEECCCCc-CCCC--
Confidence            455555555554 3333222   444555555555553 2222222           1334555555555442 2332  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLH  235 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~  235 (388)
                        ..+..+++|++|++++| .++.++              .+..+++|+.|++++ ....+ ..++.+++|+.|+++++ 
T Consensus       106 --~~l~~l~~L~~L~L~~n-~i~~~~--------------~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~N-  166 (291)
T 1h6t_A          106 --SSLKDLKKLKSLSLEHN-GISDIN--------------GLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDN-  166 (291)
T ss_dssp             --GGGTTCTTCCEEECTTS-CCCCCG--------------GGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCSS-
T ss_pred             --hhhccCCCCCEEECCCC-cCCCCh--------------hhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccCC-
Confidence              11344555555555554 333331              144455555555555 12222 34455666666666664 


Q ss_pred             CcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          236 KVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                      .++.++.     ...+++|+.|++++|. +..++ .+..+++|+.|+++++
T Consensus       167 ~l~~~~~-----l~~l~~L~~L~L~~N~-i~~l~-~l~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          167 QISDIVP-----LAGLTKLQNLYLSKNH-ISDLR-ALAGLKNLDVLELFSQ  210 (291)
T ss_dssp             CCCCCGG-----GTTCTTCCEEECCSSC-CCBCG-GGTTCTTCSEEEEEEE
T ss_pred             ccccchh-----hcCCCccCEEECCCCc-CCCCh-hhccCCCCCEEECcCC
Confidence            3444432     1556667777776663 33343 3566677777777765

>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=99.33  E-value=1.1e-11  Score=111.43  Aligned_cols=166  Identities=22%  Similarity=0.362  Sum_probs=98.6

Q ss_pred             CCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccc
Q 040122           49 FLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSA  128 (388)
Q Consensus        49 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~  128 (388)
                      +++|++|+++++. +.... +.    ..+++|++|++++| .++..++   +.++++|++|++++| .+..++.      
T Consensus        45 l~~L~~L~l~~~~-i~~~~-~~----~~l~~L~~L~L~~n-~l~~~~~---l~~l~~L~~L~l~~n-~l~~~~~------  107 (291)
T 1h6t_A           45 LNSIDQIIANNSD-IKSVQ-GI----QYLPNVTKLFLNGN-KLTDIKP---LANLKNLGWLFLDEN-KVKDLSS------  107 (291)
T ss_dssp             HHTCCEEECTTSC-CCCCT-TG----GGCTTCCEEECCSS-CCCCCGG---GTTCTTCCEEECCSS-CCCCGGG------
T ss_pred             cCcccEEEccCCC-cccCh-hH----hcCCCCCEEEccCC-ccCCCcc---cccCCCCCEEECCCC-cCCCChh------
Confidence            4667777777654 44332 12    45677777777776 4555433   567777777777774 3444332      


Q ss_pred             cccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEE
Q 040122          129 KEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLL  208 (388)
Q Consensus       129 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~  208 (388)
                           +..+++|++|+++++. +..+    ..+..+++|++|++++| .++.++              .+..+++|+.|+
T Consensus       108 -----l~~l~~L~~L~L~~n~-i~~~----~~l~~l~~L~~L~l~~n-~l~~~~--------------~l~~l~~L~~L~  162 (291)
T 1h6t_A          108 -----LKDLKKLKSLSLEHNG-ISDI----NGLVHLPQLESLYLGNN-KITDIT--------------VLSRLTKLDTLS  162 (291)
T ss_dssp             -----GTTCTTCCEEECTTSC-CCCC----GGGGGCTTCCEEECCSS-CCCCCG--------------GGGGCTTCSEEE
T ss_pred             -----hccCCCCCEEECCCCc-CCCC----hhhcCCCCCCEEEccCC-cCCcch--------------hhccCCCCCEEE
Confidence                 2556777777777653 3443    12556777777777775 444442              156677777777


Q ss_pred             Eec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCC
Q 040122          209 VAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECS  263 (388)
Q Consensus       209 l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~  263 (388)
                      +++ ....++. +..+++|+.|+++++ .++.++.     ...+++|+.|+++++.
T Consensus       163 L~~N~l~~~~~-l~~l~~L~~L~L~~N-~i~~l~~-----l~~l~~L~~L~l~~n~  211 (291)
T 1h6t_A          163 LEDNQISDIVP-LAGLTKLQNLYLSKN-HISDLRA-----LAGLKNLDVLELFSQE  211 (291)
T ss_dssp             CCSSCCCCCGG-GTTCTTCCEEECCSS-CCCBCGG-----GTTCTTCSEEEEEEEE
T ss_pred             ccCCccccchh-hcCCCccCEEECCCC-cCCCChh-----hccCCCCCEEECcCCc
Confidence            776 2333322 566777777777764 4555432     2556777777777764

>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=99.31  E-value=1.1e-11  Score=104.80  Aligned_cols=148  Identities=15%  Similarity=0.165  Sum_probs=72.5

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      +++|++|++++| .+..++.   +..+++|++|++++| .+..++.           +..+++|++|+++++. +.... 
T Consensus        43 l~~L~~L~l~~n-~i~~l~~---l~~l~~L~~L~l~~n-~~~~~~~-----------l~~l~~L~~L~l~~n~-l~~~~-  104 (197)
T 4ezg_A           43 MNSLTYITLANI-NVTDLTG---IEYAHNIKDLTINNI-HATNYNP-----------ISGLSNLERLRIMGKD-VTSDK-  104 (197)
T ss_dssp             HHTCCEEEEESS-CCSCCTT---GGGCTTCSEEEEESC-CCSCCGG-----------GTTCTTCCEEEEECTT-CBGGG-
T ss_pred             cCCccEEeccCC-CccChHH---HhcCCCCCEEEccCC-CCCcchh-----------hhcCCCCCEEEeECCc-cCccc-
Confidence            455555555554 3443221   455555555555554 3333221           2345555555555542 22210 


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecc--cccccccccCCCCcceEEecCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQ--IQHLFDEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~L~~L~l~~~  234 (388)
                      + ..+..+++|++|++++| .++...+.            .+..+++|+.|+++++  ...++ .+..+++|+.|+++++
T Consensus       105 ~-~~l~~l~~L~~L~Ls~n-~i~~~~~~------------~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n  169 (197)
T 4ezg_A          105 I-PNLSGLTSLTLLDISHS-AHDDSILT------------KINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFD  169 (197)
T ss_dssp             S-CCCTTCTTCCEEECCSS-BCBGGGHH------------HHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTB
T ss_pred             C-hhhcCCCCCCEEEecCC-ccCcHhHH------------HHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCC
Confidence            1 11445555555555554 33321111            1445555555555552  22222 4556677777777764


Q ss_pred             CCcceecccCchhHhhhccccEEEEecCC
Q 040122          235 HKVQHLWKENDESNKAFANLERLEISECS  263 (388)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~L~~L~i~~~~  263 (388)
                       .+++++.     ...+++|++|+++++.
T Consensus       170 -~i~~~~~-----l~~l~~L~~L~l~~N~  192 (197)
T 4ezg_A          170 -GVHDYRG-----IEDFPKLNQLYAFSQT  192 (197)
T ss_dssp             -CCCCCTT-----GGGCSSCCEEEECBC-
T ss_pred             -CCcChHH-----hccCCCCCEEEeeCcc
Confidence             3454431     1667778888877764

>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=99.30  E-value=1.6e-11  Score=103.75  Aligned_cols=153  Identities=13%  Similarity=0.176  Sum_probs=86.3

Q ss_pred             hhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcc
Q 040122          100 LRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDME  179 (388)
Q Consensus       100 ~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~  179 (388)
                      ...+++|++|++++| .+..++.           +..+++|++|+++++ .+..+    ..+..+++|++|++++| .++
T Consensus        40 ~~~l~~L~~L~l~~n-~i~~l~~-----------l~~l~~L~~L~l~~n-~~~~~----~~l~~l~~L~~L~l~~n-~l~  101 (197)
T 4ezg_A           40 EAQMNSLTYITLANI-NVTDLTG-----------IEYAHNIKDLTINNI-HATNY----NPISGLSNLERLRIMGK-DVT  101 (197)
T ss_dssp             HHHHHTCCEEEEESS-CCSCCTT-----------GGGCTTCSEEEEESC-CCSCC----GGGTTCTTCCEEEEECT-TCB
T ss_pred             hhhcCCccEEeccCC-CccChHH-----------HhcCCCCCEEEccCC-CCCcc----hhhhcCCCCCEEEeECC-ccC
Confidence            356677777777774 3444432           244667777777666 33333    12556677777777765 343


Q ss_pred             cccCCcceeeecccCCCccccccCCceEEEecccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEE
Q 040122          180 TFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEI  259 (388)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i  259 (388)
                      ...                                  +..++.+++|+.|+++++ .++.....   ....+++|++|++
T Consensus       102 ~~~----------------------------------~~~l~~l~~L~~L~Ls~n-~i~~~~~~---~l~~l~~L~~L~L  143 (197)
T 4ezg_A          102 SDK----------------------------------IPNLSGLTSLTLLDISHS-AHDDSILT---KINTLPKVNSIDL  143 (197)
T ss_dssp             GGG----------------------------------SCCCTTCTTCCEEECCSS-BCBGGGHH---HHTTCSSCCEEEC
T ss_pred             ccc----------------------------------ChhhcCCCCCCEEEecCC-ccCcHhHH---HHhhCCCCCEEEc
Confidence            322                                  222344556666666553 23321111   1245566666766


Q ss_pred             ecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          260 SECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      ++|..+..++ .+..+++|++|++++| .+.+++   ....+++|++|++++++
T Consensus       144 ~~n~~i~~~~-~l~~l~~L~~L~l~~n-~i~~~~---~l~~l~~L~~L~l~~N~  192 (197)
T 4ezg_A          144 SYNGAITDIM-PLKTLPELKSLNIQFD-GVHDYR---GIEDFPKLNQLYAFSQT  192 (197)
T ss_dssp             CSCTBCCCCG-GGGGCSSCCEEECTTB-CCCCCT---TGGGCSSCCEEEECBC-
T ss_pred             cCCCCccccH-hhcCCCCCCEEECCCC-CCcChH---HhccCCCCCEEEeeCcc
Confidence            6665455554 4666777777777775 455543   23567778888887764

>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=99.30  E-value=4.1e-12  Score=125.53  Aligned_cols=167  Identities=19%  Similarity=0.259  Sum_probs=107.0

Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      ..+++|+.|++++| .+..++.   +..+++|++|++++| .+..+++           +..+++|+.|+++++. +..+
T Consensus        40 ~~L~~L~~L~l~~n-~i~~l~~---l~~l~~L~~L~Ls~N-~l~~~~~-----------l~~l~~L~~L~Ls~N~-l~~l  102 (605)
T 1m9s_A           40 NELNSIDQIIANNS-DIKSVQG---IQYLPNVTKLFLNGN-KLTDIKP-----------LTNLKNLGWLFLDENK-IKDL  102 (605)
T ss_dssp             HHHTTCCCCBCTTC-CCCCCTT---GGGCTTCCEEECTTS-CCCCCGG-----------GGGCTTCCEEECCSSC-CCCC
T ss_pred             hcCCCCCEEECcCC-CCCCChH---HccCCCCCEEEeeCC-CCCCChh-----------hccCCCCCEEECcCCC-CCCC
Confidence            35888999999888 5666443   788999999999986 3444443           2568889999998873 4554


Q ss_pred             cCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecC
Q 040122          155 CNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSG  233 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~  233 (388)
                          ..+..+++|++|++++| .+..++.              +..+++|+.|++++ ....+ ..++.+++|+.|++++
T Consensus       103 ----~~l~~l~~L~~L~Ls~N-~l~~l~~--------------l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls~  162 (605)
T 1m9s_A          103 ----SSLKDLKKLKSLSLEHN-GISDING--------------LVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLED  162 (605)
T ss_dssp             ----TTSTTCTTCCEEECTTS-CCCCCGG--------------GGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCS
T ss_pred             ----hhhccCCCCCEEEecCC-CCCCCcc--------------ccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcC
Confidence                12668889999999887 4554421              56677777777776 22222 4455666677777766


Q ss_pred             CCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          234 LHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       234 ~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                      + .+..+++     ...+++|+.|++++|. +..++ .+..+++|+.|+++++
T Consensus       163 N-~l~~~~~-----l~~l~~L~~L~Ls~N~-i~~l~-~l~~l~~L~~L~L~~N  207 (605)
T 1m9s_A          163 N-QISDIVP-----LAGLTKLQNLYLSKNH-ISDLR-ALAGLKNLDVLELFSQ  207 (605)
T ss_dssp             S-CCCCCGG-----GTTCTTCCEEECCSSC-CCBCG-GGTTCTTCSEEECCSE
T ss_pred             C-cCCCchh-----hccCCCCCEEECcCCC-CCCCh-HHccCCCCCEEEccCC
Confidence            4 3444332     1555666666666653 23332 3555666666666654

>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=99.29  E-value=1.2e-11  Score=122.21  Aligned_cols=170  Identities=22%  Similarity=0.358  Sum_probs=123.2

Q ss_pred             CCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccc
Q 040122           48 GFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELS  127 (388)
Q Consensus        48 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~  127 (388)
                      .+++|+.|+++++. +..++ ..    ..+++|+.|+|++| .+..+++   +..+++|++|++++| .+..++.     
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~~-----  104 (605)
T 1m9s_A           41 ELNSIDQIIANNSD-IKSVQ-GI----QYLPNVTKLFLNGN-KLTDIKP---LTNLKNLGWLFLDEN-KIKDLSS-----  104 (605)
T ss_dssp             HHTTCCCCBCTTCC-CCCCT-TG----GGCTTCCEEECTTS-CCCCCGG---GGGCTTCCEEECCSS-CCCCCTT-----
T ss_pred             cCCCCCEEECcCCC-CCCCh-HH----ccCCCCCEEEeeCC-CCCCChh---hccCCCCCEEECcCC-CCCCChh-----
Confidence            45778888888765 55433 22    56899999999988 6666554   788999999999986 4555442     


Q ss_pred             ccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceE
Q 040122          128 AKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENL  207 (388)
Q Consensus       128 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L  207 (388)
                            +..+++|+.|+++++. +..+    ..+..+++|+.|++++| .++.++              .+..+++|+.|
T Consensus       105 ------l~~l~~L~~L~Ls~N~-l~~l----~~l~~l~~L~~L~Ls~N-~l~~l~--------------~l~~l~~L~~L  158 (605)
T 1m9s_A          105 ------LKDLKKLKSLSLEHNG-ISDI----NGLVHLPQLESLYLGNN-KITDIT--------------VLSRLTKLDTL  158 (605)
T ss_dssp             ------STTCTTCCEEECTTSC-CCCC----GGGGGCTTCSEEECCSS-CCCCCG--------------GGGSCTTCSEE
T ss_pred             ------hccCCCCCEEEecCCC-CCCC----ccccCCCccCEEECCCC-ccCCch--------------hhcccCCCCEE
Confidence                  3668899999998874 4444    22678899999999987 565552              17788999999


Q ss_pred             EEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcc
Q 040122          208 LVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQ  266 (388)
Q Consensus       208 ~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~  266 (388)
                      ++++ ....++. +..+++|+.|+++++ .+..++.     +..+++|+.|++++|....
T Consensus       159 ~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N-~i~~l~~-----l~~l~~L~~L~L~~N~l~~  211 (605)
T 1m9s_A          159 SLEDNQISDIVP-LAGLTKLQNLYLSKN-HISDLRA-----LAGLKNLDVLELFSQECLN  211 (605)
T ss_dssp             ECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCBCGG-----GTTCTTCSEEECCSEEEEC
T ss_pred             ECcCCcCCCchh-hccCCCCCEEECcCC-CCCCChH-----HccCCCCCEEEccCCcCcC
Confidence            9988 3333333 778899999999886 4666532     2778899999999876443

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.29  E-value=8.8e-13  Score=122.62  Aligned_cols=122  Identities=12%  Similarity=-0.032  Sum_probs=64.8

Q ss_pred             hccCCCCcceEEecCccccceecccc-ccCccccC-CccEEEecCCCCCcccCChhhhhcC-----CCCcEEEecccccc
Q 040122           45 EKIGFLDINRLQLSHFPRLQEIWHGQ-ALPVRFFN-NLAELVVDDSTNMSSAIPANLLRCL-----NNLEWLAVRNCDSL  117 (388)
Q Consensus        45 ~~~~~~~L~~L~l~~~~~l~~~~~~~-~~~~~~~~-~L~~L~l~~~~~l~~~~~~~~~~~l-----~~L~~L~l~~~~~l  117 (388)
                      .....++|++|+++++. +....... .-....++ +|++|++++| .++...+.. +..+     ++|++|++++|. +
T Consensus        17 ~~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~-l~~~l~~~~~~L~~L~Ls~n~-l   92 (362)
T 3goz_A           17 FTSIPHGVTSLDLSLNN-LYSISTVELIQAFANTPASVTSLNLSGN-SLGFKNSDE-LVQILAAIPANVTSLNLSGNF-L   92 (362)
T ss_dssp             HHTSCTTCCEEECTTSC-GGGSCHHHHHHHHHTCCTTCCEEECCSS-CGGGSCHHH-HHHHHHTSCTTCCEEECCSSC-G
T ss_pred             HHhCCCCceEEEccCCC-CChHHHHHHHHHHHhCCCceeEEECcCC-CCCHHHHHH-HHHHHhccCCCccEEECcCCc-C
Confidence            33444558888888776 55433200 00013456 7888888887 566533332 3443     888888888864 3


Q ss_pred             ceecccccccccccccCCcC-ccccEeecccCcccccccCCCCc----ccc-CCCcceEeEecCCCcc
Q 040122          118 EEVLHLEELSAKEEHIGPLF-PRLLSLKLIDLPKLKRFCNFTGN----IIE-LPKLEYLIIENCPDME  179 (388)
Q Consensus       118 ~~i~~~~~~~~~~~~~~~~~-~~L~~L~l~~~~~l~~~~~~~~~----~~~-l~~L~~L~l~~c~~l~  179 (388)
                      ...+...-.     ..+..+ ++|++|+++++. ++..  +...    +.. .++|++|++++| .++
T Consensus        93 ~~~~~~~l~-----~~l~~~~~~L~~L~Ls~N~-l~~~--~~~~l~~~l~~~~~~L~~L~Ls~N-~l~  151 (362)
T 3goz_A           93 SYKSSDELV-----KTLAAIPFTITVLDLGWND-FSSK--SSSEFKQAFSNLPASITSLNLRGN-DLG  151 (362)
T ss_dssp             GGSCHHHHH-----HHHHTSCTTCCEEECCSSC-GGGS--CHHHHHHHHTTSCTTCCEEECTTS-CGG
T ss_pred             ChHHHHHHH-----HHHHhCCCCccEEECcCCc-CCcH--HHHHHHHHHHhCCCceeEEEccCC-cCC
Confidence            321110000     001223 678888887764 3333  1111    122 357888888876 444

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.25  E-value=4.6e-11  Score=101.83  Aligned_cols=160  Identities=14%  Similarity=0.077  Sum_probs=70.6

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .++|++|++++| .++.+++ ..+..+++|++|++++| .+..++..         .+..+++|++|+++++. ++.+  
T Consensus        27 ~~~l~~L~l~~n-~l~~~~~-~~~~~l~~L~~L~l~~n-~l~~~~~~---------~~~~l~~L~~L~Ls~n~-l~~~--   91 (208)
T 2o6s_A           27 PAQTTYLDLETN-SLKSLPN-GVFDELTSLTQLYLGGN-KLQSLPNG---------VFNKLTSLTYLNLSTNQ-LQSL--   91 (208)
T ss_dssp             CTTCSEEECCSS-CCCCCCT-TTTTTCTTCSEEECCSS-CCCCCCTT---------TTTTCTTCCEEECCSSC-CCCC--
T ss_pred             CCCCcEEEcCCC-ccCcCCh-hhhcccccCcEEECCCC-ccCccChh---------hcCCCCCcCEEECCCCc-CCcc--
Confidence            345555555555 3443222 22445555555555553 23332221         02335555555555442 3333  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccc-cccCCCCcceEEecCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFD-EKVAFPQLGNLRLSGL  234 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~-~~~~~~~L~~L~l~~~  234 (388)
                      +...+..+++|++|+++++ .++.++...            +..+++|+.|++++ ....++. .+..+++|+.|+++++
T Consensus        92 ~~~~~~~l~~L~~L~L~~N-~l~~~~~~~------------~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N  158 (208)
T 2o6s_A           92 PNGVFDKLTQLKELALNTN-QLQSLPDGV------------FDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDN  158 (208)
T ss_dssp             CTTTTTTCTTCCEEECCSS-CCCCCCTTT------------TTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSC
T ss_pred             CHhHhcCccCCCEEEcCCC-cCcccCHhH------------hccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCC
Confidence            1121344555555555554 344333321            33444444444443 1122222 1344556666666654


Q ss_pred             CCcceecccCchhHhhhccccEEEEecCCCcccccCCcccc
Q 040122          235 HKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHL  275 (388)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~  275 (388)
                      +..           ..++.|+.|.++.+...+.+|..++.+
T Consensus       159 ~~~-----------~~~~~l~~L~~~~n~~~g~ip~~~~~l  188 (208)
T 2o6s_A          159 PWD-----------CTCPGIRYLSEWINKHSGVVRNSAGSV  188 (208)
T ss_dssp             CBC-----------CCTTTTHHHHHHHHHCTTTBBCTTSSB
T ss_pred             Cee-----------cCCCCHHHHHHHHHhCCceeeccCccc
Confidence            211           223455555555555555555544443

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.14  E-value=5.2e-10  Score=95.25  Aligned_cols=173  Identities=14%  Similarity=0.073  Sum_probs=94.3

Q ss_pred             cEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCc
Q 040122           81 AELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGN  160 (388)
Q Consensus        81 ~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  160 (388)
                      +.++.+++ .++.++.    ...++|++|+++++ .+..++..         .+..+++|++|+++++ .++.+  +...
T Consensus        10 ~~v~c~~~-~l~~~p~----~~~~~l~~L~l~~n-~l~~~~~~---------~~~~l~~L~~L~l~~n-~l~~~--~~~~   71 (208)
T 2o6s_A           10 TTVECYSQ-GRTSVPT----GIPAQTTYLDLETN-SLKSLPNG---------VFDELTSLTQLYLGGN-KLQSL--PNGV   71 (208)
T ss_dssp             TEEECCSS-CCSSCCS----CCCTTCSEEECCSS-CCCCCCTT---------TTTTCTTCSEEECCSS-CCCCC--CTTT
T ss_pred             CEEEecCC-CccCCCC----CCCCCCcEEEcCCC-ccCcCChh---------hhcccccCcEEECCCC-ccCcc--Chhh
Confidence            45555554 4455332    33467888888775 34443321         0245677777777765 34444  2222


Q ss_pred             cccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecccccccccccCCCCcceEEecCCCCccee
Q 040122          161 IIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHL  240 (388)
Q Consensus       161 ~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  240 (388)
                      +..+++|++|+++++ .++.++...                                  ++.+++|+.|+++++ .++.+
T Consensus        72 ~~~l~~L~~L~Ls~n-~l~~~~~~~----------------------------------~~~l~~L~~L~L~~N-~l~~~  115 (208)
T 2o6s_A           72 FNKLTSLTYLNLSTN-QLQSLPNGV----------------------------------FDKLTQLKELALNTN-QLQSL  115 (208)
T ss_dssp             TTTCTTCCEEECCSS-CCCCCCTTT----------------------------------TTTCTTCCEEECCSS-CCCCC
T ss_pred             cCCCCCcCEEECCCC-cCCccCHhH----------------------------------hcCccCCCEEEcCCC-cCccc
Confidence            456677777777775 444443321                                  234455666666553 34444


Q ss_pred             cccCchhHhhhccccEEEEecCCCcccccC-CccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhh
Q 040122          241 WKENDESNKAFANLERLEISECSKLQKLVP-PSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQII  319 (388)
Q Consensus       241 ~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~-~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~  319 (388)
                      +...+   ..+++|++|+++++.. ..++. .+..+++|++|++++++         +...+++|++|+++.+.....++
T Consensus       116 ~~~~~---~~l~~L~~L~l~~N~l-~~~~~~~~~~l~~L~~L~l~~N~---------~~~~~~~l~~L~~~~n~~~g~ip  182 (208)
T 2o6s_A          116 PDGVF---DKLTQLKDLRLYQNQL-KSVPDGVFDRLTSLQYIWLHDNP---------WDCTCPGIRYLSEWINKHSGVVR  182 (208)
T ss_dssp             CTTTT---TTCTTCCEEECCSSCC-SCCCTTTTTTCTTCCEEECCSCC---------BCCCTTTTHHHHHHHHHCTTTBB
T ss_pred             CHhHh---ccCCcCCEEECCCCcc-ceeCHHHhccCCCccEEEecCCC---------eecCCCCHHHHHHHHHhCCceee
Confidence            43221   4456667777766543 33333 35667777777777752         12445677777777665544444


Q ss_pred             c
Q 040122          320 Q  320 (388)
Q Consensus       320 ~  320 (388)
                      .
T Consensus       183 ~  183 (208)
T 2o6s_A          183 N  183 (208)
T ss_dssp             C
T ss_pred             c
Confidence            3

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.14  E-value=5.7e-12  Score=117.10  Aligned_cols=248  Identities=12%  Similarity=0.020  Sum_probs=148.6

Q ss_pred             ccCCccEEEecCCCCCcccCCh---hhhhcCC-CCcEEEeccccccceecc--cccccccccccCCc-CccccEeecccC
Q 040122           76 FFNNLAELVVDDSTNMSSAIPA---NLLRCLN-NLEWLAVRNCDSLEEVLH--LEELSAKEEHIGPL-FPRLLSLKLIDL  148 (388)
Q Consensus        76 ~~~~L~~L~l~~~~~l~~~~~~---~~~~~l~-~L~~L~l~~~~~l~~i~~--~~~~~~~~~~~~~~-~~~L~~L~l~~~  148 (388)
                      ..++|++|++++| .++...+.   ..+.+++ +|++|++++|. +.....  ....       ... +++|++|+++++
T Consensus        20 ~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l~~~-------l~~~~~~L~~L~Ls~n   90 (362)
T 3goz_A           20 IPHGVTSLDLSLN-NLYSISTVELIQAFANTPASVTSLNLSGNS-LGFKNSDELVQI-------LAAIPANVTSLNLSGN   90 (362)
T ss_dssp             SCTTCCEEECTTS-CGGGSCHHHHHHHHHTCCTTCCEEECCSSC-GGGSCHHHHHHH-------HHTSCTTCCEEECCSS
T ss_pred             CCCCceEEEccCC-CCChHHHHHHHHHHHhCCCceeEEECcCCC-CCHHHHHHHHHH-------HhccCCCccEEECcCC
Confidence            4566999999999 57764431   3377888 99999999974 333211  1000       111 389999999988


Q ss_pred             cccccccCC--CCccccC-CCcceEeEecCCCcccccCCcceeeecccCCCcccc-ccCCceEEEec-ccc-----cccc
Q 040122          149 PKLKRFCNF--TGNIIEL-PKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQK-LKSEENLLVAN-QIQ-----HLFD  218 (388)
Q Consensus       149 ~~l~~~~~~--~~~~~~l-~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~-l~~L~~L~l~~-~~~-----~~~~  218 (388)
                      . ++.....  ...+..+ ++|++|++++| .++..+....        ...+.. .++|+.|++++ ...     .+..
T Consensus        91 ~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l--------~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~  160 (362)
T 3goz_A           91 F-LSYKSSDELVKTLAAIPFTITVLDLGWN-DFSSKSSSEF--------KQAFSNLPASITSLNLRGNDLGIKSSDELIQ  160 (362)
T ss_dssp             C-GGGSCHHHHHHHHHTSCTTCCEEECCSS-CGGGSCHHHH--------HHHHTTSCTTCCEEECTTSCGGGSCHHHHHH
T ss_pred             c-CChHHHHHHHHHHHhCCCCccEEECcCC-cCCcHHHHHH--------HHHHHhCCCceeEEEccCCcCCHHHHHHHHH
Confidence            5 4433100  0012344 89999999998 4665543321        000222 36999999998 222     3334


Q ss_pred             cccCCC-CcceEEecCCCCcceecccCch-hHhhh-ccccEEEEecCCCcc----cccCCccc-cCCCCEEeeccCcCcc
Q 040122          219 EKVAFP-QLGNLRLSGLHKVQHLWKENDE-SNKAF-ANLERLEISECSKLQ----KLVPPSWH-LENLEALKVSKCHELI  290 (388)
Q Consensus       219 ~~~~~~-~L~~L~l~~~~~l~~~~~~~~~-~~~~~-~~L~~L~i~~~~~~~----~~~~~~~~-~~~L~~L~l~~c~~l~  290 (388)
                      .+..++ +|++|+++++ .++......+. ....+ ++|++|++++|..-.    .++..+.. .++|++|+++++ .+.
T Consensus       161 ~l~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~  238 (362)
T 3goz_A          161 ILAAIPANVNSLNLRGN-NLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLN-CLH  238 (362)
T ss_dssp             HHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSS-CCC
T ss_pred             HHhcCCccccEeeecCC-CCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCC-CCC
Confidence            444555 9999999996 45544322111 11334 599999999986333    14444444 359999999987 566


Q ss_pred             cccch---hhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCC
Q 040122          291 NVLTL---SASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLP  345 (388)
Q Consensus       291 ~~~~~---~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  345 (388)
                      +....   .....+++|+.|++++|.. ..+.......-......+++|+.|++++++
T Consensus       239 ~~~~~~l~~~~~~l~~L~~L~L~~n~l-~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          239 GPSLENLKLLKDSLKHLQTVYLDYDIV-KNMSKEQCKALGAAFPNIQKIILVDKNGKE  295 (362)
T ss_dssp             CCCHHHHHHTTTTTTTCSEEEEEHHHH-TTCCHHHHHHHHTTSTTCCEEEEECTTSCB
T ss_pred             cHHHHHHHHHHhcCCCccEEEeccCCc-cccCHHHHHHHHHHhccCCceEEEecCCCc
Confidence            65432   2346788999999999861 111100000000012346788999998864

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.14  E-value=9.6e-11  Score=103.73  Aligned_cols=103  Identities=17%  Similarity=0.239  Sum_probs=55.2

Q ss_pred             CCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccc
Q 040122           49 FLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSA  128 (388)
Q Consensus        49 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~  128 (388)
                      +.++..++++++. +.++. ..    ..+++|++|++++| .++.++.   +..+++|++|++++| .+..++.      
T Consensus        18 l~~l~~l~l~~~~-i~~~~-~~----~~l~~L~~L~l~~n-~i~~l~~---l~~l~~L~~L~L~~N-~i~~~~~------   80 (263)
T 1xeu_A           18 LANAVKQNLGKQS-VTDLV-SQ----KELSGVQNFNGDNS-NIQSLAG---MQFFTNLKELHLSHN-QISDLSP------   80 (263)
T ss_dssp             HHHHHHHHHTCSC-TTSEE-CH----HHHTTCSEEECTTS-CCCCCTT---GGGCTTCCEEECCSS-CCCCCGG------
T ss_pred             HHHHHHHHhcCCC-ccccc-ch----hhcCcCcEEECcCC-CcccchH---HhhCCCCCEEECCCC-ccCCChh------
Confidence            3445555555443 44332 11    34677777777776 5555332   566777777777764 3444433      


Q ss_pred             cccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccc
Q 040122          129 KEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMET  180 (388)
Q Consensus       129 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~  180 (388)
                           +..+++|+.|+++++ .++.+.  .  ... ++|++|++++| .++.
T Consensus        81 -----l~~l~~L~~L~L~~N-~l~~l~--~--~~~-~~L~~L~L~~N-~l~~  120 (263)
T 1xeu_A           81 -----LKDLTKLEELSVNRN-RLKNLN--G--IPS-ACLSRLFLDNN-ELRD  120 (263)
T ss_dssp             -----GTTCSSCCEEECCSS-CCSCCT--T--CCC-SSCCEEECCSS-CCSB
T ss_pred             -----hccCCCCCEEECCCC-ccCCcC--c--ccc-CcccEEEccCC-ccCC
Confidence                 144666777777665 234431  1  122 66666666665 3443

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.13  E-value=7.5e-10  Score=108.31  Aligned_cols=179  Identities=17%  Similarity=0.125  Sum_probs=107.2

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      .+|+.|+++++. +..++...      +++|++|++++| .++.++     ..+++|++|++++| .+..+|..      
T Consensus        59 ~~L~~L~Ls~n~-L~~lp~~l------~~~L~~L~Ls~N-~l~~ip-----~~l~~L~~L~Ls~N-~l~~ip~l------  118 (571)
T 3cvr_A           59 NQFSELQLNRLN-LSSLPDNL------PPQITVLEITQN-ALISLP-----ELPASLEYLDACDN-RLSTLPEL------  118 (571)
T ss_dssp             TTCSEEECCSSC-CSCCCSCC------CTTCSEEECCSS-CCSCCC-----CCCTTCCEEECCSS-CCSCCCCC------
T ss_pred             CCccEEEeCCCC-CCccCHhH------cCCCCEEECcCC-CCcccc-----cccCCCCEEEccCC-CCCCcchh------
Confidence            478899998775 65433322      578999999888 566643     34688999999886 45555441      


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEE
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLV  209 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l  209 (388)
                             ..+|++|+++++. ++.+  +.    .+++|++|+++++ .++.++.                .+++|+.|++
T Consensus       119 -------~~~L~~L~Ls~N~-l~~l--p~----~l~~L~~L~Ls~N-~l~~lp~----------------~l~~L~~L~L  167 (571)
T 3cvr_A          119 -------PASLKHLDVDNNQ-LTML--PE----LPALLEYINADNN-QLTMLPE----------------LPTSLEVLSV  167 (571)
T ss_dssp             -------CTTCCEEECCSSC-CSCC--CC----CCTTCCEEECCSS-CCSCCCC----------------CCTTCCEEEC
T ss_pred             -------hcCCCEEECCCCc-CCCC--CC----cCccccEEeCCCC-ccCcCCC----------------cCCCcCEEEC
Confidence                   2288889988763 5555  21    5788889988886 4655442                2566777777


Q ss_pred             ec-ccccccccccCCCCcceEEecCCCCcceecccCchh--HhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          210 AN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDES--NKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       210 ~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~--~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                      ++ ....++. +.  ++|+.|+++++ .++.++.  +..  ....+.|+.|++++| .+..+|..+..+++|+.|+++++
T Consensus       168 s~N~L~~lp~-l~--~~L~~L~Ls~N-~L~~lp~--~~~~L~~~~~~L~~L~Ls~N-~l~~lp~~l~~l~~L~~L~L~~N  240 (571)
T 3cvr_A          168 RNNQLTFLPE-LP--ESLEALDVSTN-LLESLPA--VPVRNHHSEETEIFFRCREN-RITHIPENILSLDPTCTIILEDN  240 (571)
T ss_dssp             CSSCCSCCCC-CC--TTCCEEECCSS-CCSSCCC--CC--------CCEEEECCSS-CCCCCCGGGGGSCTTEEEECCSS
T ss_pred             CCCCCCCcch-hh--CCCCEEECcCC-CCCchhh--HHHhhhcccccceEEecCCC-cceecCHHHhcCCCCCEEEeeCC
Confidence            66 3333333 32  66777777664 4555443  110  001112266666665 34455555555666666666654

>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=99.10  E-value=1.2e-09  Score=93.97  Aligned_cols=89  Identities=12%  Similarity=0.117  Sum_probs=43.6

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCC
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF  157 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  157 (388)
                      +.+++|++++| .++.+++...+.++++|++|++++| .+..++...         +..+++|++|+++++. +..+  +
T Consensus        32 ~~~~~L~L~~N-~l~~~~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~---------~~~l~~L~~L~Ls~N~-l~~~--~   97 (220)
T 2v70_A           32 QYTAELRLNNN-EFTVLEATGIFKKLPQLRKINFSNN-KITDIEEGA---------FEGASGVNEILLTSNR-LENV--Q   97 (220)
T ss_dssp             TTCSEEECCSS-CCCEECCCCCGGGCTTCCEEECCSS-CCCEECTTT---------TTTCTTCCEEECCSSC-CCCC--C
T ss_pred             CCCCEEEcCCC-cCCccCchhhhccCCCCCEEECCCC-cCCEECHHH---------hCCCCCCCEEECCCCc-cCcc--C
Confidence            34556666655 4444433333556666666666653 344432210         2445566666665542 3333  2


Q ss_pred             CCccccCCCcceEeEecCCCcccc
Q 040122          158 TGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       158 ~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                      ...+..+++|++|+++++ .++.+
T Consensus        98 ~~~~~~l~~L~~L~Ls~N-~l~~~  120 (220)
T 2v70_A           98 HKMFKGLESLKTLMLRSN-RITCV  120 (220)
T ss_dssp             GGGGTTCSSCCEEECTTS-CCCCB
T ss_pred             HhHhcCCcCCCEEECCCC-cCCeE
Confidence            222445566666666664 34444

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.09  E-value=1.4e-09  Score=106.36  Aligned_cols=181  Identities=19%  Similarity=0.159  Sum_probs=128.0

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCC
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF  157 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  157 (388)
                      .+++.|++++| .++.+++ . +  +++|++|++++| .+..+|             ..+++|+.|+++++ .++.++. 
T Consensus        59 ~~L~~L~Ls~n-~L~~lp~-~-l--~~~L~~L~Ls~N-~l~~ip-------------~~l~~L~~L~Ls~N-~l~~ip~-  117 (571)
T 3cvr_A           59 NQFSELQLNRL-NLSSLPD-N-L--PPQITVLEITQN-ALISLP-------------ELPASLEYLDACDN-RLSTLPE-  117 (571)
T ss_dssp             TTCSEEECCSS-CCSCCCS-C-C--CTTCSEEECCSS-CCSCCC-------------CCCTTCCEEECCSS-CCSCCCC-
T ss_pred             CCccEEEeCCC-CCCccCH-h-H--cCCCCEEECcCC-CCcccc-------------cccCCCCEEEccCC-CCCCcch-
Confidence            48999999988 6777443 2 2  478999999996 455664             22789999999987 4555522 


Q ss_pred             CCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCCC
Q 040122          158 TGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHK  236 (388)
Q Consensus       158 ~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~  236 (388)
                         +..  +|++|+++++ .++.++.                .+++|+.|++++ ....++.   .+++|+.|+++++ .
T Consensus       118 ---l~~--~L~~L~Ls~N-~l~~lp~----------------~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N-~  171 (571)
T 3cvr_A          118 ---LPA--SLKHLDVDNN-QLTMLPE----------------LPALLEYINADNNQLTMLPE---LPTSLEVLSVRNN-Q  171 (571)
T ss_dssp             ---CCT--TCCEEECCSS-CCSCCCC----------------CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCSS-C
T ss_pred             ---hhc--CCCEEECCCC-cCCCCCC----------------cCccccEEeCCCCccCcCCC---cCCCcCEEECCCC-C
Confidence               222  9999999997 5666553                378899999988 3334443   5689999999985 5


Q ss_pred             cceecccCchhHhhhccccEEEEecCCCcccccCCccccCCC-------CEEeeccCcCcccccchhhhcCccccceeeE
Q 040122          237 VQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENL-------EALKVSKCHELINVLTLSASKNLVNLGRMMI  309 (388)
Q Consensus       237 l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L-------~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l  309 (388)
                      ++.++.  +   .  ++|+.|++++|. ++.+|. +..  +|       +.|+++++ .++.++.. + .++++|+.|++
T Consensus       172 L~~lp~--l---~--~~L~~L~Ls~N~-L~~lp~-~~~--~L~~~~~~L~~L~Ls~N-~l~~lp~~-l-~~l~~L~~L~L  237 (571)
T 3cvr_A          172 LTFLPE--L---P--ESLEALDVSTNL-LESLPA-VPV--RNHHSEETEIFFRCREN-RITHIPEN-I-LSLDPTCTIIL  237 (571)
T ss_dssp             CSCCCC--C---C--TTCCEEECCSSC-CSSCCC-CC----------CCEEEECCSS-CCCCCCGG-G-GGSCTTEEEEC
T ss_pred             CCCcch--h---h--CCCCEEECcCCC-CCchhh-HHH--hhhcccccceEEecCCC-cceecCHH-H-hcCCCCCEEEe
Confidence            666664  2   2  789999999874 557766 443  77       99999886 67766543 2 45889999999


Q ss_pred             ccccccchhh
Q 040122          310 ADCKMIEQII  319 (388)
Q Consensus       310 ~~~~~~~~~~  319 (388)
                      ++|+....++
T Consensus       238 ~~N~l~~~~p  247 (571)
T 3cvr_A          238 EDNPLSSRIR  247 (571)
T ss_dssp             CSSSCCHHHH
T ss_pred             eCCcCCCcCH
Confidence            9887655443

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.09  E-value=5.3e-10  Score=98.90  Aligned_cols=143  Identities=24%  Similarity=0.320  Sum_probs=98.1

Q ss_pred             cCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccc
Q 040122           47 IGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEEL  126 (388)
Q Consensus        47 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~  126 (388)
                      ..+++|++|+++++. +..++ +.    ..+++|++|++++| .++..++   +.++++|++|++++| .+..++..   
T Consensus        38 ~~l~~L~~L~l~~n~-i~~l~-~l----~~l~~L~~L~L~~N-~i~~~~~---l~~l~~L~~L~L~~N-~l~~l~~~---  103 (263)
T 1xeu_A           38 KELSGVQNFNGDNSN-IQSLA-GM----QFFTNLKELHLSHN-QISDLSP---LKDLTKLEELSVNRN-RLKNLNGI---  103 (263)
T ss_dssp             HHHTTCSEEECTTSC-CCCCT-TG----GGCTTCCEEECCSS-CCCCCGG---GTTCSSCCEEECCSS-CCSCCTTC---
T ss_pred             hhcCcCcEEECcCCC-cccch-HH----hhCCCCCEEECCCC-ccCCChh---hccCCCCCEEECCCC-ccCCcCcc---
Confidence            456899999999875 66544 23    56899999999998 6777555   789999999999996 45555442   


Q ss_pred             cccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCce
Q 040122          127 SAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEEN  206 (388)
Q Consensus       127 ~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~  206 (388)
                              .. ++|+.|+++++ .++.+    ..+..+++|++|+++++ .++.++.              ++.+++|+.
T Consensus       104 --------~~-~~L~~L~L~~N-~l~~~----~~l~~l~~L~~L~Ls~N-~i~~~~~--------------l~~l~~L~~  154 (263)
T 1xeu_A          104 --------PS-ACLSRLFLDNN-ELRDT----DSLIHLKNLEILSIRNN-KLKSIVM--------------LGFLSKLEV  154 (263)
T ss_dssp             --------CC-SSCCEEECCSS-CCSBS----GGGTTCTTCCEEECTTS-CCCBCGG--------------GGGCTTCCE
T ss_pred             --------cc-CcccEEEccCC-ccCCC----hhhcCcccccEEECCCC-cCCCChH--------------HccCCCCCE
Confidence                    22 89999999987 45555    22678999999999997 5665531              455566666


Q ss_pred             EEEec-ccccccccccCCCCcceEEecC
Q 040122          207 LLVAN-QIQHLFDEKVAFPQLGNLRLSG  233 (388)
Q Consensus       207 L~l~~-~~~~~~~~~~~~~~L~~L~l~~  233 (388)
                      |++++ ..... ..+..+++|+.|++++
T Consensus       155 L~L~~N~i~~~-~~l~~l~~L~~L~l~~  181 (263)
T 1xeu_A          155 LDLHGNEITNT-GGLTRLKKVNWIDLTG  181 (263)
T ss_dssp             EECTTSCCCBC-TTSTTCCCCCEEEEEE
T ss_pred             EECCCCcCcch-HHhccCCCCCEEeCCC
Confidence            65555 11111 3334444444444444

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.06  E-value=9.6e-10  Score=101.96  Aligned_cols=115  Identities=17%  Similarity=0.172  Sum_probs=61.8

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      +.++.|+++++. +..++... .. ..+++|++|++++| .+..+++.. +.++++|++|++++| .+..++...     
T Consensus        39 ~~l~~L~Ls~N~-l~~l~~~~-~~-~~l~~L~~L~L~~N-~i~~i~~~~-~~~l~~L~~L~Ls~N-~l~~~~~~~-----  107 (361)
T 2xot_A           39 SYTALLDLSHNN-LSRLRAEW-TP-TRLTNLHSLLLSHN-HLNFISSEA-FVPVPNLRYLDLSSN-HLHTLDEFL-----  107 (361)
T ss_dssp             TTCSEEECCSSC-CCEECTTS-SS-SCCTTCCEEECCSS-CCCEECTTT-TTTCTTCCEEECCSS-CCCEECTTT-----
T ss_pred             CCCCEEECCCCC-CCccChhh-hh-hcccccCEEECCCC-cCCccChhh-ccCCCCCCEEECCCC-cCCcCCHHH-----
Confidence            456677776654 55443332 10 14666777777666 555544332 566677777777664 344443211     


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccC
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTS  183 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~  183 (388)
                          +..+++|+.|+++++. +..+  ....+..+++|++|+++++ .++.++.
T Consensus       108 ----~~~l~~L~~L~L~~N~-i~~~--~~~~~~~l~~L~~L~L~~N-~l~~l~~  153 (361)
T 2xot_A          108 ----FSDLQALEVLLLYNNH-IVVV--DRNAFEDMAQLQKLYLSQN-QISRFPV  153 (361)
T ss_dssp             ----TTTCTTCCEEECCSSC-CCEE--CTTTTTTCTTCCEEECCSS-CCCSCCG
T ss_pred             ----hCCCcCCCEEECCCCc-ccEE--CHHHhCCcccCCEEECCCC-cCCeeCH
Confidence                3456666677766553 3333  2222456666666666664 4554443

>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=99.05  E-value=2.6e-09  Score=91.75  Aligned_cols=34  Identities=12%  Similarity=0.325  Sum_probs=14.4

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEecc
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRN  113 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~  113 (388)
                      ++++.|++++| .++.+++.. +..+++|++|++++
T Consensus        32 ~~l~~L~l~~n-~i~~i~~~~-~~~l~~L~~L~Ls~   65 (220)
T 2v9t_B           32 ETITEIRLEQN-TIKVIPPGA-FSPYKKLRRIDLSN   65 (220)
T ss_dssp             TTCCEEECCSS-CCCEECTTS-STTCTTCCEEECCS
T ss_pred             cCCCEEECCCC-cCCCcCHhH-hhCCCCCCEEECCC
Confidence            34444444444 333322211 44444444444444

>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=99.04  E-value=2.6e-09  Score=92.39  Aligned_cols=34  Identities=24%  Similarity=0.285  Sum_probs=15.9

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEecc
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRN  113 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~  113 (388)
                      ++|++|++++| .+..+.+.. +.++++|++|++++
T Consensus        40 ~~L~~L~Ls~n-~i~~~~~~~-~~~l~~L~~L~L~~   73 (229)
T 3e6j_A           40 TNAQILYLHDN-QITKLEPGV-FDSLINLKELYLGS   73 (229)
T ss_dssp             TTCSEEECCSS-CCCCCCTTT-TTTCTTCCEEECCS
T ss_pred             CCCCEEEcCCC-ccCccCHHH-hhCccCCcEEECCC
Confidence            45555555554 333332222 44455555555555

>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=99.03  E-value=3.7e-09  Score=91.45  Aligned_cols=60  Identities=12%  Similarity=0.119  Sum_probs=26.1

Q ss_pred             ccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecC
Q 040122          199 QKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISEC  262 (388)
Q Consensus       199 ~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~  262 (388)
                      ..+++|+.|++++ ....++..+..+++|+.|+++++ .++.++...+   ..+++|+.|++.++
T Consensus       109 ~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N-~l~~~~~~~~---~~l~~L~~L~l~~N  169 (229)
T 3e6j_A          109 DRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQN-QLKSIPHGAF---DRLSSLTHAYLFGN  169 (229)
T ss_dssp             TTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSS-CCCCCCTTTT---TTCTTCCEEECTTS
T ss_pred             CcchhhCeEeccCCcccccCcccccCCCCCEEECCCC-cCCccCHHHH---hCCCCCCEEEeeCC
Confidence            3444444444444 23333444444455555555442 3343332211   33445555555444

>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=99.02  E-value=1.1e-09  Score=89.85  Aligned_cols=113  Identities=22%  Similarity=0.196  Sum_probs=64.0

Q ss_pred             cCCCCcceEEecCccccc--eeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccc
Q 040122           47 IGFLDINRLQLSHFPRLQ--EIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLE  124 (388)
Q Consensus        47 ~~~~~L~~L~l~~~~~l~--~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~  124 (388)
                      ..+++|++|+++++. +.  .++...    ..+++|++|++++| .++.. .  .+..+++|++|++++|.....++.. 
T Consensus        21 ~~~~~L~~L~l~~n~-l~~~~i~~~~----~~l~~L~~L~l~~n-~l~~~-~--~~~~l~~L~~L~Ls~N~l~~~~~~~-   90 (168)
T 2ell_A           21 RTPAAVRELVLDNCK-SNDGKIEGLT----AEFVNLEFLSLINV-GLISV-S--NLPKLPKLKKLELSENRIFGGLDML-   90 (168)
T ss_dssp             SCTTSCSEEECCSCB-CBTTBCSSCC----GGGGGCCEEEEESS-CCCCC-S--SCCCCSSCCEEEEESCCCCSCCCHH-
T ss_pred             CCcccCCEEECCCCC-CChhhHHHHH----HhCCCCCEEeCcCC-CCCCh-h--hhccCCCCCEEECcCCcCchHHHHH-
Confidence            345777788877765 44  332222    45677777777777 45554 2  2667777777777775422223322 


Q ss_pred             cccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccc
Q 040122          125 ELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       125 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                               ...+++|++|+++++ .++.+..... +..+++|++|++++| .++..
T Consensus        91 ---------~~~l~~L~~L~Ls~N-~l~~~~~~~~-l~~l~~L~~L~l~~N-~l~~~  135 (168)
T 2ell_A           91 ---------AEKLPNLTHLNLSGN-KLKDISTLEP-LKKLECLKSLDLFNC-EVTNL  135 (168)
T ss_dssp             ---------HHHCTTCCEEECBSS-SCCSSGGGGG-GSSCSCCCEEECCSS-GGGTS
T ss_pred             ---------HhhCCCCCEEeccCC-ccCcchhHHH-HhcCCCCCEEEeeCC-cCcch
Confidence                     233667777777665 3444321112 556667777777665 34433

>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=99.01  E-value=4.3e-09  Score=90.40  Aligned_cols=148  Identities=11%  Similarity=0.119  Sum_probs=75.2

Q ss_pred             CcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCc
Q 040122          106 LEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNS  185 (388)
Q Consensus       106 L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~  185 (388)
                      -+++++++ ..++.+|..            ....++.|+++++. +..+... ..+..+++|++|++.++ .++.++...
T Consensus        13 ~~~l~~s~-n~l~~iP~~------------~~~~~~~L~L~~N~-l~~~~~~-~~~~~l~~L~~L~L~~N-~i~~i~~~~   76 (220)
T 2v70_A           13 GTTVDCSN-QKLNKIPEH------------IPQYTAELRLNNNE-FTVLEAT-GIFKKLPQLRKINFSNN-KITDIEEGA   76 (220)
T ss_dssp             TTEEECCS-SCCSSCCSC------------CCTTCSEEECCSSC-CCEECCC-CCGGGCTTCCEEECCSS-CCCEECTTT
T ss_pred             CCEeEeCC-CCcccCccC------------CCCCCCEEEcCCCc-CCccCch-hhhccCCCCCEEECCCC-cCCEECHHH
Confidence            35777777 345555432            24456778887653 4444211 22557788888888775 566655432


Q ss_pred             ceeeecccCCCccccccCCceEEEec-cccccc-ccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCC
Q 040122          186 TFVLHMTADNKEPQKLKSEENLLVAN-QIQHLF-DEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECS  263 (388)
Q Consensus       186 ~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~  263 (388)
                                  +..+++|+.|++++ ....++ ..++.+++|++|+++++ .++.+....+   ..+++|++|+++++.
T Consensus        77 ------------~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~---~~l~~L~~L~L~~N~  140 (220)
T 2v70_A           77 ------------FEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRSN-RITCVGNDSF---IGLSSVRLLSLYDNQ  140 (220)
T ss_dssp             ------------TTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEECTTS-CCCCBCTTSS---TTCTTCSEEECTTSC
T ss_pred             ------------hCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEECCCC-cCCeECHhHc---CCCccCCEEECCCCc
Confidence                        55566666666655 222222 22444555555555553 3443332222   334455555555543


Q ss_pred             CcccccCCccccCCCCEEeecc
Q 040122          264 KLQKLVPPSWHLENLEALKVSK  285 (388)
Q Consensus       264 ~~~~~~~~~~~~~~L~~L~l~~  285 (388)
                      .....+..+..+++|++|++++
T Consensus       141 l~~~~~~~~~~l~~L~~L~L~~  162 (220)
T 2v70_A          141 ITTVAPGAFDTLHSLSTLNLLA  162 (220)
T ss_dssp             CCCBCTTTTTTCTTCCEEECCS
T ss_pred             CCEECHHHhcCCCCCCEEEecC
Confidence            3222233444445555555544

>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=98.99  E-value=6.5e-09  Score=89.28  Aligned_cols=98  Identities=19%  Similarity=0.213  Sum_probs=50.4

Q ss_pred             cEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcc
Q 040122          107 EWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNST  186 (388)
Q Consensus       107 ~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~  186 (388)
                      +.++.++ ..+..+|..            ..++++.|+++++ .+..+  +...+..+++|++|+++++ .++.+.+.. 
T Consensus        14 ~~v~c~~-~~l~~iP~~------------l~~~l~~L~l~~n-~i~~i--~~~~~~~l~~L~~L~Ls~N-~i~~~~~~~-   75 (220)
T 2v9t_B           14 NIVDCRG-KGLTEIPTN------------LPETITEIRLEQN-TIKVI--PPGAFSPYKKLRRIDLSNN-QISELAPDA-   75 (220)
T ss_dssp             TEEECTT-SCCSSCCSS------------CCTTCCEEECCSS-CCCEE--CTTSSTTCTTCCEEECCSS-CCCEECTTT-
T ss_pred             CEEEcCC-CCcCcCCCc------------cCcCCCEEECCCC-cCCCc--CHhHhhCCCCCCEEECCCC-cCCCcCHHH-
Confidence            5566665 345555431            1356777777765 34444  2223556777777777775 455553332 


Q ss_pred             eeeecccCCCccccccCCceEEEec-cccccccc-ccCCCCcceEEecC
Q 040122          187 FVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDE-KVAFPQLGNLRLSG  233 (388)
Q Consensus       187 ~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~-~~~~~~L~~L~l~~  233 (388)
                                 +.++++|+.|++++ ....++.. +..+++|+.|++++
T Consensus        76 -----------~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~  113 (220)
T 2v9t_B           76 -----------FQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNA  113 (220)
T ss_dssp             -----------TTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             -----------hhCCcCCCEEECCCCcCCccCHhHccCCCCCCEEECCC
Confidence                       45555555555554 22222222 23344455555544

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.97  E-value=2.7e-09  Score=98.97  Aligned_cols=155  Identities=21%  Similarity=0.136  Sum_probs=88.5

Q ss_pred             cCCccEEEecCCCCCcccCChhhhh-cCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCccccccc
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLR-CLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFC  155 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~-~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  155 (388)
                      .++++.|++++| .++.+++.. +. ++++|++|++++| .+..++...         +..+++|++|+++++. ++.+ 
T Consensus        38 ~~~l~~L~Ls~N-~l~~l~~~~-~~~~l~~L~~L~L~~N-~i~~i~~~~---------~~~l~~L~~L~Ls~N~-l~~~-  103 (361)
T 2xot_A           38 PSYTALLDLSHN-NLSRLRAEW-TPTRLTNLHSLLLSHN-HLNFISSEA---------FVPVPNLRYLDLSSNH-LHTL-  103 (361)
T ss_dssp             CTTCSEEECCSS-CCCEECTTS-SSSCCTTCCEEECCSS-CCCEECTTT---------TTTCTTCCEEECCSSC-CCEE-
T ss_pred             CCCCCEEECCCC-CCCccChhh-hhhcccccCEEECCCC-cCCccChhh---------ccCCCCCCEEECCCCc-CCcC-
Confidence            456778888777 566644433 44 7778888888774 455553311         3557778888887653 5555 


Q ss_pred             CCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-ccccccccc----cCCCCcceEE
Q 040122          156 NFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEK----VAFPQLGNLR  230 (388)
Q Consensus       156 ~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~----~~~~~L~~L~  230 (388)
                       +...+..+++|++|+++++ .++.++...            +..+++|+.|++++ ....++...    ..+++|+.|+
T Consensus       104 -~~~~~~~l~~L~~L~L~~N-~i~~~~~~~------------~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~  169 (361)
T 2xot_A          104 -DEFLFSDLQALEVLLLYNN-HIVVVDRNA------------FEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLD  169 (361)
T ss_dssp             -CTTTTTTCTTCCEEECCSS-CCCEECTTT------------TTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEE
T ss_pred             -CHHHhCCCcCCCEEECCCC-cccEECHHH------------hCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEE
Confidence             2233556777888887775 455554432            56677777777766 333333222    4566777777


Q ss_pred             ecCCCCcceecccCchhHhhhcc--ccEEEEecCC
Q 040122          231 LSGLHKVQHLWKENDESNKAFAN--LERLEISECS  263 (388)
Q Consensus       231 l~~~~~l~~~~~~~~~~~~~~~~--L~~L~i~~~~  263 (388)
                      ++++ .++.++...+   ..++.  ++.|++.+++
T Consensus       170 L~~N-~l~~l~~~~~---~~l~~~~l~~l~l~~N~  200 (361)
T 2xot_A          170 LSSN-KLKKLPLTDL---QKLPAWVKNGLYLHNNP  200 (361)
T ss_dssp             CCSS-CCCCCCHHHH---HHSCHHHHTTEECCSSC
T ss_pred             CCCC-CCCccCHHHh---hhccHhhcceEEecCCC
Confidence            7663 4555443211   23333  3556665543

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.95  E-value=1.4e-11  Score=120.93  Aligned_cols=86  Identities=17%  Similarity=0.118  Sum_probs=43.4

Q ss_pred             ccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhc
Q 040122          220 KVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASK  299 (388)
Q Consensus       220 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~  299 (388)
                      ++.+++|+.|+++++ .++.+|...    ..+++|+.|++++|. +..+| .+..+++|+.|+++++ .++.+.......
T Consensus       459 ~~~l~~L~~L~Ls~N-~l~~lp~~~----~~l~~L~~L~Ls~N~-l~~lp-~l~~l~~L~~L~Ls~N-~l~~~~~p~~l~  530 (567)
T 1dce_A          459 LEQLLLVTHLDLSHN-RLRALPPAL----AALRCLEVLQASDNA-LENVD-GVANLPRLQELLLCNN-RLQQSAAIQPLV  530 (567)
T ss_dssp             GGGGTTCCEEECCSS-CCCCCCGGG----GGCTTCCEEECCSSC-CCCCG-GGTTCSSCCEEECCSS-CCCSSSTTGGGG
T ss_pred             ccccccCcEeecCcc-cccccchhh----hcCCCCCEEECCCCC-CCCCc-ccCCCCCCcEEECCCC-CCCCCCCcHHHh
Confidence            444555555555553 344443321    455556666665543 33344 5555666666666654 444442111224


Q ss_pred             CccccceeeEcccc
Q 040122          300 NLVNLGRMMIADCK  313 (388)
Q Consensus       300 ~l~~L~~L~l~~~~  313 (388)
                      .+++|+.|++++|+
T Consensus       531 ~l~~L~~L~L~~N~  544 (567)
T 1dce_A          531 SCPRLVLLNLQGNS  544 (567)
T ss_dssp             GCTTCCEEECTTSG
T ss_pred             cCCCCCEEEecCCc
Confidence            56666666666654

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.93  E-value=5.2e-10  Score=89.85  Aligned_cols=113  Identities=20%  Similarity=0.208  Sum_probs=69.8

Q ss_pred             CCCCcceEEecCccccc--eeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccc
Q 040122           48 GFLDINRLQLSHFPRLQ--EIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEE  125 (388)
Q Consensus        48 ~~~~L~~L~l~~~~~l~--~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~  125 (388)
                      .+++|++|+++++. +.  .++...    ..+++|++|++++| .++.. +  .++++++|++|++++|.....++..  
T Consensus        15 ~~~~l~~L~l~~n~-l~~~~~~~~~----~~l~~L~~L~l~~n-~l~~~-~--~~~~l~~L~~L~Ls~n~i~~~~~~~--   83 (149)
T 2je0_A           15 TPSDVKELVLDNSR-SNEGKLEGLT----DEFEELEFLSTINV-GLTSI-A--NLPKLNKLKKLELSDNRVSGGLEVL--   83 (149)
T ss_dssp             CGGGCSEEECTTCB-CBTTBCCSCC----TTCTTCCEEECTTS-CCCCC-T--TCCCCTTCCEEECCSSCCCSCTHHH--
T ss_pred             CCccCeEEEccCCc-CChhHHHHHH----hhcCCCcEEECcCC-CCCCc-h--hhhcCCCCCEEECCCCcccchHHHH--
Confidence            44778888888775 54  333222    56788888888877 56654 2  2677888888888876432223332  


Q ss_pred             ccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccccc
Q 040122          126 LSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFT  182 (388)
Q Consensus       126 ~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~  182 (388)
                              ...+++|++|+++++. ++.+..+.. +..+++|++|++++| .++..+
T Consensus        84 --------~~~l~~L~~L~ls~N~-i~~~~~~~~-~~~l~~L~~L~l~~N-~l~~~~  129 (149)
T 2je0_A           84 --------AEKCPNLTHLNLSGNK-IKDLSTIEP-LKKLENLKSLDLFNC-EVTNLN  129 (149)
T ss_dssp             --------HHHCTTCCEEECTTSC-CCSHHHHGG-GGGCTTCCEEECTTC-GGGGST
T ss_pred             --------hhhCCCCCEEECCCCc-CCChHHHHH-HhhCCCCCEEeCcCC-cccchH
Confidence                    2347778888887764 444311122 567778888888776 455554

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.92  E-value=9.8e-11  Score=114.91  Aligned_cols=119  Identities=14%  Similarity=0.110  Sum_probs=69.5

Q ss_pred             cccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cccccc
Q 040122          139 RLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLF  217 (388)
Q Consensus       139 ~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~  217 (388)
                      .|+.|+++++ .++.+  + . ++.+++|++|+++++ .++.+|..             ++.+++|+.|++++ ....++
T Consensus       442 ~L~~L~Ls~n-~l~~l--p-~-~~~l~~L~~L~Ls~N-~l~~lp~~-------------~~~l~~L~~L~Ls~N~l~~lp  502 (567)
T 1dce_A          442 DVRVLHLAHK-DLTVL--C-H-LEQLLLVTHLDLSHN-RLRALPPA-------------LAALRCLEVLQASDNALENVD  502 (567)
T ss_dssp             TCSEEECTTS-CCSSC--C-C-GGGGTTCCEEECCSS-CCCCCCGG-------------GGGCTTCCEEECCSSCCCCCG
T ss_pred             CceEEEecCC-CCCCC--c-C-ccccccCcEeecCcc-cccccchh-------------hhcCCCCCEEECCCCCCCCCc
Confidence            4666777665 34444  2 2 556677777777765 45555432             66677777777776 333344


Q ss_pred             ccccCCCCcceEEecCCCCcceec-ccCchhHhhhccccEEEEecCCCcccccCCc----cccCCCCEEe
Q 040122          218 DEKVAFPQLGNLRLSGLHKVQHLW-KENDESNKAFANLERLEISECSKLQKLVPPS----WHLENLEALK  282 (388)
Q Consensus       218 ~~~~~~~~L~~L~l~~~~~l~~~~-~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~----~~~~~L~~L~  282 (388)
                       .++.+++|+.|+++++ .++.+. +..   ...+++|+.|++++|.. ..+|...    ..+++|+.|+
T Consensus       503 -~l~~l~~L~~L~Ls~N-~l~~~~~p~~---l~~l~~L~~L~L~~N~l-~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          503 -GVANLPRLQELLLCNN-RLQQSAAIQP---LVSCPRLVLLNLQGNSL-CQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             -GGTTCSSCCEEECCSS-CCCSSSTTGG---GGGCTTCCEEECTTSGG-GGSSSCTTHHHHHCTTCSEEE
T ss_pred             -ccCCCCCCcEEECCCC-CCCCCCCcHH---HhcCCCCCEEEecCCcC-CCCccHHHHHHHHCcccCccC
Confidence             5667777777777764 455552 221   15677777777777653 3333322    2367777765

>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=98.90  E-value=4.7e-09  Score=85.98  Aligned_cols=13  Identities=15%  Similarity=0.110  Sum_probs=6.6

Q ss_pred             CCCcceEEeccCC
Q 040122          359 FPSLKQVVVRQCP  371 (388)
Q Consensus       359 ~~~L~~L~l~~c~  371 (388)
                      +|+|++|++.+|.
T Consensus       146 l~~L~~L~l~~n~  158 (168)
T 2ell_A          146 LPQLTYLDGYDRE  158 (168)
T ss_dssp             CSSCCEETTEETT
T ss_pred             CccCcEecCCCCC
Confidence            4555555555543

>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=98.87  E-value=6.1e-09  Score=95.24  Aligned_cols=98  Identities=17%  Similarity=0.197  Sum_probs=51.6

Q ss_pred             cCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccc-eEecccCCCcceecCC
Q 040122          275 LENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELE-YLGLDCLPSLTSFCLG  353 (388)
Q Consensus       275 ~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~-~L~l~~~~~l~~~~~~  353 (388)
                      +++|+.+++.++ .++.++...+ .+|++|+.+++.++  ++.+..   +    ....+++|+ .+.+.+  +++.+..+
T Consensus       225 ~~~L~~l~L~~n-~i~~I~~~aF-~~~~~L~~l~l~~n--i~~I~~---~----aF~~~~~L~~~l~l~~--~l~~I~~~  291 (329)
T 3sb4_A          225 MPNLVSLDISKT-NATTIPDFTF-AQKKYLLKIKLPHN--LKTIGQ---R----VFSNCGRLAGTLELPA--SVTAIEFG  291 (329)
T ss_dssp             CTTCCEEECTTB-CCCEECTTTT-TTCTTCCEEECCTT--CCEECT---T----TTTTCTTCCEEEEECT--TCCEECTT
T ss_pred             cCCCeEEECCCC-CcceecHhhh-hCCCCCCEEECCcc--cceehH---H----HhhCChhccEEEEEcc--cceEEchh
Confidence            566777777653 3555443322 55667777776653  333322   1    113345666 666655  45555544


Q ss_pred             CccccCCCcceEEeccCCCcccccC-CCCCCCCCC
Q 040122          354 NYALEFPSLKQVVVRQCPKMKIFSQ-GLLDTPMLN  387 (388)
Q Consensus       354 ~~~~~~~~L~~L~l~~c~~l~~lp~-~~~~~~~L~  387 (388)
                      .. ..|++|+.+++.+ .+++.++. .+.++++|+
T Consensus       292 aF-~~c~~L~~l~l~~-n~i~~I~~~aF~~~~~L~  324 (329)
T 3sb4_A          292 AF-MGCDNLRYVLATG-DKITTLGDELFGNGVPSK  324 (329)
T ss_dssp             TT-TTCTTEEEEEECS-SCCCEECTTTTCTTCCCC
T ss_pred             hh-hCCccCCEEEeCC-CccCccchhhhcCCcchh
Confidence            31 1266777777654 34555543 444555554

>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=98.82  E-value=1.1e-08  Score=84.45  Aligned_cols=38  Identities=34%  Similarity=0.390  Sum_probs=17.5

Q ss_pred             CcCccccEeecccCcccccccCCCCccccCCCcceEeEecC
Q 040122          135 PLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       135 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c  175 (388)
                      ..+++|++|+++++. +..+  +......+++|++|+++++
T Consensus        61 ~~l~~L~~L~Ls~N~-l~~~--~~~~~~~l~~L~~L~L~~N   98 (176)
T 1a9n_A           61 PLLRRLKTLLVNNNR-ICRI--GEGLDQALPDLTELILTNN   98 (176)
T ss_dssp             CCCSSCCEEECCSSC-CCEE--CSCHHHHCTTCCEEECCSC
T ss_pred             ccCCCCCEEECCCCc-cccc--CcchhhcCCCCCEEECCCC
Confidence            345555555555442 3333  2221244555555555554

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.81  E-value=5.7e-09  Score=83.68  Aligned_cols=11  Identities=18%  Similarity=0.537  Sum_probs=4.9

Q ss_pred             CCcceEeEecC
Q 040122          165 PKLEYLIIENC  175 (388)
Q Consensus       165 ~~L~~L~l~~c  175 (388)
                      ++|++|++.+|
T Consensus        17 ~~l~~L~l~~n   27 (149)
T 2je0_A           17 SDVKELVLDNS   27 (149)
T ss_dssp             GGCSEEECTTC
T ss_pred             ccCeEEEccCC
Confidence            34444444443

>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=98.78  E-value=4.5e-08  Score=82.06  Aligned_cols=82  Identities=18%  Similarity=0.206  Sum_probs=38.0

Q ss_pred             CccEEEecCCCCCcccCChhhhhcCCCCcEEEecccccccee-cccccccccccccCCcCccccEeecccCcccccccCC
Q 040122           79 NLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEV-LHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF  157 (388)
Q Consensus        79 ~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i-~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  157 (388)
                      ++++|++++| .++.+++...++++++|++|++++| .+..+ +..          +..+++|++|+++++ .+..+  +
T Consensus        30 ~l~~L~l~~n-~i~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~----------~~~l~~L~~L~Ls~N-~l~~~--~   94 (192)
T 1w8a_A           30 HTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRN-QLTGIEPNA----------FEGASHIQELQLGEN-KIKEI--S   94 (192)
T ss_dssp             TCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSS-CCCCBCTTT----------TTTCTTCCEEECCSC-CCCEE--C
T ss_pred             CCCEEECCCC-cCCccCCccccccCCCCCEEECCCC-CCCCcCHhH----------cCCcccCCEEECCCC-cCCcc--C
Confidence            5556666555 4444333323455556666666553 22222 111          234555555555544 23333  1


Q ss_pred             CCccccCCCcceEeEecC
Q 040122          158 TGNIIELPKLEYLIIENC  175 (388)
Q Consensus       158 ~~~~~~l~~L~~L~l~~c  175 (388)
                      ...+..+++|++|+++++
T Consensus        95 ~~~~~~l~~L~~L~L~~N  112 (192)
T 1w8a_A           95 NKMFLGLHQLKTLNLYDN  112 (192)
T ss_dssp             SSSSTTCTTCCEEECCSS
T ss_pred             HHHhcCCCCCCEEECCCC
Confidence            122334555555555554

>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=98.77  E-value=1.1e-07  Score=86.72  Aligned_cols=101  Identities=11%  Similarity=0.026  Sum_probs=75.1

Q ss_pred             cccCCceEEEec-ccccccc-cccCCCCcceEEecCCCCcceecccCchhHhhhcccc-EEEEecCCCccccc-CCcccc
Q 040122          200 KLKSEENLLVAN-QIQHLFD-EKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLE-RLEISECSKLQKLV-PPSWHL  275 (388)
Q Consensus       200 ~l~~L~~L~l~~-~~~~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~-~L~i~~~~~~~~~~-~~~~~~  275 (388)
                      .+++|+.+++.+ ....++. .+..+++|+++++.+  +++.++...|   ..+++|+ .+.+.+  .+..+. ..+..+
T Consensus       224 ~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~--ni~~I~~~aF---~~~~~L~~~l~l~~--~l~~I~~~aF~~c  296 (329)
T 3sb4_A          224 YMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPH--NLKTIGQRVF---SNCGRLAGTLELPA--SVTAIEFGAFMGC  296 (329)
T ss_dssp             HCTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCT--TCCEECTTTT---TTCTTCCEEEEECT--TCCEECTTTTTTC
T ss_pred             hcCCCeEEECCCCCcceecHhhhhCCCCCCEEECCc--ccceehHHHh---hCChhccEEEEEcc--cceEEchhhhhCC
Confidence            378999999987 4555543 456788999999987  3888887765   7788999 999988  455554 467788


Q ss_pred             CCCCEEeeccCcCcccccchhhhcCccccceeeE
Q 040122          276 ENLEALKVSKCHELINVLTLSASKNLVNLGRMMI  309 (388)
Q Consensus       276 ~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l  309 (388)
                      ++|+.+++.+. .++.+....+ .++++|+.++.
T Consensus       297 ~~L~~l~l~~n-~i~~I~~~aF-~~~~~L~~ly~  328 (329)
T 3sb4_A          297 DNLRYVLATGD-KITTLGDELF-GNGVPSKLIYK  328 (329)
T ss_dssp             TTEEEEEECSS-CCCEECTTTT-CTTCCCCEEEC
T ss_pred             ccCCEEEeCCC-ccCccchhhh-cCCcchhhhcc
Confidence            99999999653 5666654433 67888988763

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.72  E-value=4.7e-06  Score=78.00  Aligned_cols=41  Identities=5%  Similarity=0.053  Sum_probs=18.7

Q ss_pred             cccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCC
Q 040122          139 RLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSN  184 (388)
Q Consensus       139 ~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~  184 (388)
                      +|+.+.+.+  .++.+  +......|++|+.+++.++ +++.++..
T Consensus       158 ~L~~i~lp~--~l~~I--~~~aF~~c~~L~~l~l~~n-~l~~I~~~  198 (401)
T 4fdw_A          158 TVQEIVFPS--TLEQL--KEDIFYYCYNLKKADLSKT-KITKLPAS  198 (401)
T ss_dssp             CCCEEECCT--TCCEE--CSSTTTTCTTCCEEECTTS-CCSEECTT
T ss_pred             CceEEEeCC--CccEe--hHHHhhCcccCCeeecCCC-cceEechh
Confidence            455555543  23343  2232445555555555542 34444433

>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=98.72  E-value=2.5e-08  Score=82.33  Aligned_cols=131  Identities=15%  Similarity=0.177  Sum_probs=66.5

Q ss_pred             hcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccc
Q 040122          101 RCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMET  180 (388)
Q Consensus       101 ~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~  180 (388)
                      ..+++|++|++++| .+..++..          ....++|++|+++++ .++.+    ..+..+++|++|+++++ .++.
T Consensus        16 ~~~~~L~~L~l~~n-~l~~i~~~----------~~~~~~L~~L~Ls~N-~l~~~----~~l~~l~~L~~L~Ls~N-~l~~   78 (176)
T 1a9n_A           16 TNAVRDRELDLRGY-KIPVIENL----------GATLDQFDAIDFSDN-EIRKL----DGFPLLRRLKTLLVNNN-RICR   78 (176)
T ss_dssp             ECTTSCEEEECTTS-CCCSCCCG----------GGGTTCCSEEECCSS-CCCEE----CCCCCCSSCCEEECCSS-CCCE
T ss_pred             CCcCCceEEEeeCC-CCchhHHh----------hhcCCCCCEEECCCC-CCCcc----cccccCCCCCEEECCCC-cccc
Confidence            34455666666664 33333222          122336666666654 23443    12557788888888886 5665


Q ss_pred             ccCCcceeeecccCCCccccccCCceEEEecccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEe
Q 040122          181 FTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEIS  260 (388)
Q Consensus       181 ~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~  260 (388)
                      ++...            +..++                      +|+.|+++++ .++.++..  .....+++|+.|+++
T Consensus        79 ~~~~~------------~~~l~----------------------~L~~L~L~~N-~i~~~~~~--~~l~~l~~L~~L~l~  121 (176)
T 1a9n_A           79 IGEGL------------DQALP----------------------DLTELILTNN-SLVELGDL--DPLASLKSLTYLCIL  121 (176)
T ss_dssp             ECSCH------------HHHCT----------------------TCCEEECCSC-CCCCGGGG--GGGGGCTTCCEEECC
T ss_pred             cCcch------------hhcCC----------------------CCCEEECCCC-cCCcchhh--HhhhcCCCCCEEEec
Confidence            54431            24444                      4555555443 23333320  011445556666666


Q ss_pred             cCCCcccccCC----ccccCCCCEEeeccC
Q 040122          261 ECSKLQKLVPP----SWHLENLEALKVSKC  286 (388)
Q Consensus       261 ~~~~~~~~~~~----~~~~~~L~~L~l~~c  286 (388)
                      +|+. ..++..    +..+++|++|+++++
T Consensus       122 ~N~i-~~~~~~~~~~~~~l~~L~~Ld~~~n  150 (176)
T 1a9n_A          122 RNPV-TNKKHYRLYVIYKVPQVRVLDFQKV  150 (176)
T ss_dssp             SSGG-GGSTTHHHHHHHHCTTCSEETTEEC
T ss_pred             CCCC-CCcHhHHHHHHHHCCccceeCCCcC
Confidence            5532 233332    556677777777665

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.69  E-value=1.7e-07  Score=78.63  Aligned_cols=90  Identities=17%  Similarity=0.173  Sum_probs=46.9

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .++|++|++++| .++.++ . .+.++++|++|++++| .+..++...         +..+++|+.|+++++. +..+  
T Consensus        30 ~~~l~~L~L~~n-~i~~ip-~-~~~~l~~L~~L~Ls~N-~i~~i~~~~---------f~~l~~L~~L~Ls~N~-l~~i--   93 (193)
T 2wfh_A           30 PRDVTELYLDGN-QFTLVP-K-ELSNYKHLTLIDLSNN-RISTLSNQS---------FSNMTQLLTLILSYNR-LRCI--   93 (193)
T ss_dssp             CTTCCEEECCSS-CCCSCC-G-GGGGCTTCCEEECCSS-CCCCCCTTT---------TTTCTTCCEEECCSSC-CCBC--
T ss_pred             CCCCCEEECCCC-cCchhH-H-HhhcccCCCEEECCCC-cCCEeCHhH---------ccCCCCCCEEECCCCc-cCEe--
Confidence            356666666666 455433 2 2666666666666664 333332210         2445666666666542 4444  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTS  183 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~  183 (388)
                      +...+..+++|++|+++++ .++.++.
T Consensus        94 ~~~~f~~l~~L~~L~L~~N-~l~~~~~  119 (193)
T 2wfh_A           94 PPRTFDGLKSLRLLSLHGN-DISVVPE  119 (193)
T ss_dssp             CTTTTTTCTTCCEEECCSS-CCCBCCT
T ss_pred             CHHHhCCCCCCCEEECCCC-CCCeeCh
Confidence            2222445666666666664 4444443

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.64  E-value=2.5e-07  Score=76.29  Aligned_cols=90  Identities=16%  Similarity=0.191  Sum_probs=45.2

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .++|++|++++| .++.+++. .++++++|++|++++| .+..++...         +..+++|+.|+++++ .++.+  
T Consensus        27 ~~~l~~L~l~~n-~l~~~~~~-~~~~l~~L~~L~l~~n-~l~~~~~~~---------~~~l~~L~~L~l~~N-~l~~~--   91 (177)
T 2o6r_A           27 PSSATRLELESN-KLQSLPHG-VFDKLTQLTKLSLSQN-QIQSLPDGV---------FDKLTKLTILYLHEN-KLQSL--   91 (177)
T ss_dssp             CTTCSEEECCSS-CCCCCCTT-TTTTCTTCSEEECCSS-CCCCCCTTT---------TTTCTTCCEEECCSS-CCCCC--
T ss_pred             CCCCcEEEeCCC-cccEeCHH-HhcCcccccEEECCCC-cceEeChhH---------ccCCCccCEEECCCC-Ccccc--
Confidence            456666666665 34443332 2456666666666664 333332210         234566666666554 23333  


Q ss_pred             CCCccccCCCcceEeEecCCCccccc
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFT  182 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~  182 (388)
                      +...+..+++|++|++.++ .++.++
T Consensus        92 ~~~~~~~l~~L~~L~l~~N-~l~~~~  116 (177)
T 2o6r_A           92 PNGVFDKLTQLKELALDTN-QLKSVP  116 (177)
T ss_dssp             CTTTTTTCTTCCEEECCSS-CCSCCC
T ss_pred             CHHHhhCCcccCEEECcCC-cceEeC
Confidence            2222345566666666664 444443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.64  E-value=3.1e-06  Score=79.24  Aligned_cols=215  Identities=12%  Similarity=0.128  Sum_probs=120.7

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      .+|+.+.+...  +..+.... .  .. .+|+.+.+..  .++.+.. ..+.+|++|+.+++.+ +.+..++...     
T Consensus       135 ~~L~~i~l~~~--i~~I~~~a-F--~~-~~L~~i~lp~--~l~~I~~-~aF~~c~~L~~l~l~~-n~l~~I~~~a-----  199 (401)
T 4fdw_A          135 SQIAKVVLNEG--LKSIGDMA-F--FN-STVQEIVFPS--TLEQLKE-DIFYYCYNLKKADLSK-TKITKLPAST-----  199 (401)
T ss_dssp             CCCSEEECCTT--CCEECTTT-T--TT-CCCCEEECCT--TCCEECS-STTTTCTTCCEEECTT-SCCSEECTTT-----
T ss_pred             CCccEEEeCCC--ccEECHHh-c--CC-CCceEEEeCC--CccEehH-HHhhCcccCCeeecCC-CcceEechhh-----
Confidence            46777776542  55444433 1  12 3677777764  4555333 3377888888888876 3556664432     


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEE
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLV  209 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l  209 (388)
                          +. +.+|+.+.+.+  .++.+  +..+...|++|+.+.+.+  +++.++...            +.+ .+|+.+.+
T Consensus       200 ----F~-~~~L~~l~lp~--~l~~I--~~~aF~~~~~L~~l~l~~--~l~~I~~~a------------F~~-~~L~~i~l  255 (401)
T 4fdw_A          200 ----FV-YAGIEEVLLPV--TLKEI--GSQAFLKTSQLKTIEIPE--NVSTIGQEA------------FRE-SGITTVKL  255 (401)
T ss_dssp             ----TT-TCCCSEEECCT--TCCEE--CTTTTTTCTTCCCEECCT--TCCEECTTT------------TTT-CCCSEEEE
T ss_pred             ----Ee-ecccCEEEeCC--chhee--hhhHhhCCCCCCEEecCC--CccCccccc------------ccc-CCccEEEe
Confidence                12 56777777753  25555  334456777788777765  355555443            333 56777777


Q ss_pred             ecccccc-cccccCCCCcceEEecCCC----CcceecccCchhHhhhccccEEEEecCCCcccccC-CccccCCCCEEee
Q 040122          210 ANQIQHL-FDEKVAFPQLGNLRLSGLH----KVQHLWKENDESNKAFANLERLEISECSKLQKLVP-PSWHLENLEALKV  283 (388)
Q Consensus       210 ~~~~~~~-~~~~~~~~~L~~L~l~~~~----~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~-~~~~~~~L~~L~l  283 (388)
                      .+....+ ...+..+++|+.+.+.+..    ....+....|   ..|++|+.+.+.+  .+..+.. .+..+.+|+.+.+
T Consensus       256 p~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF---~~c~~L~~l~l~~--~i~~I~~~aF~~c~~L~~l~l  330 (401)
T 4fdw_A          256 PNGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCL---EGCPKLARFEIPE--SIRILGQGLLGGNRKVTQLTI  330 (401)
T ss_dssp             ETTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTT---TTCTTCCEECCCT--TCCEECTTTTTTCCSCCEEEE
T ss_pred             CCCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHh---hCCccCCeEEeCC--ceEEEhhhhhcCCCCccEEEE
Confidence            5533333 2334456777777775421    1123444433   5666777777764  2444432 3455677777777


Q ss_pred             ccCcCcccccchhhhcCccccceeeEccc
Q 040122          284 SKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       284 ~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      ..  .++.+....+ .++ +|+.+++.++
T Consensus       331 p~--~l~~I~~~aF-~~~-~L~~l~l~~n  355 (401)
T 4fdw_A          331 PA--NVTQINFSAF-NNT-GIKEVKVEGT  355 (401)
T ss_dssp             CT--TCCEECTTSS-SSS-CCCEEEECCS
T ss_pred             Cc--cccEEcHHhC-CCC-CCCEEEEcCC
Confidence            54  3444433322 455 7777777665

>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=98.62  E-value=3.6e-07  Score=76.47  Aligned_cols=63  Identities=14%  Similarity=0.139  Sum_probs=37.2

Q ss_pred             ccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          220 KVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       220 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                      ++.+++|+.|+++++ .++.++...+   ..+++|++|+++++......+..+..+++|++|+++++
T Consensus        74 ~~~l~~L~~L~Ls~N-~l~~~~~~~~---~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  136 (192)
T 1w8a_A           74 FEGASHIQELQLGEN-KIKEISNKMF---LGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             TTTCTTCCEEECCSC-CCCEECSSSS---TTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             cCCcccCCEEECCCC-cCCccCHHHh---cCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCC
Confidence            344556666666653 4555544322   44566677777666544444556666777777777765

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.60  E-value=2.9e-07  Score=77.18  Aligned_cols=98  Identities=15%  Similarity=0.101  Sum_probs=44.3

Q ss_pred             cEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cccccc-c
Q 040122          141 LSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLF-D  218 (388)
Q Consensus       141 ~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~-~  218 (388)
                      +.+++++. .++.+  +..   -.++|++|++.++ .++.++..             +..+++|+.|++++ ....++ .
T Consensus        13 ~~l~~~~~-~l~~i--p~~---~~~~l~~L~L~~n-~i~~ip~~-------------~~~l~~L~~L~Ls~N~i~~i~~~   72 (193)
T 2wfh_A           13 TVVRCSNK-GLKVL--PKG---IPRDVTELYLDGN-QFTLVPKE-------------LSNYKHLTLIDLSNNRISTLSNQ   72 (193)
T ss_dssp             TEEECTTS-CCSSC--CSC---CCTTCCEEECCSS-CCCSCCGG-------------GGGCTTCCEEECCSSCCCCCCTT
T ss_pred             CEEEcCCC-CCCcC--CCC---CCCCCCEEECCCC-cCchhHHH-------------hhcccCCCEEECCCCcCCEeCHh
Confidence            44555443 34444  222   2357777777775 45544421             45555555555554 222221 2


Q ss_pred             cccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecC
Q 040122          219 EKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISEC  262 (388)
Q Consensus       219 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~  262 (388)
                      .+..+++|++|+++++ .++.++...+   ..+++|+.|+++++
T Consensus        73 ~f~~l~~L~~L~Ls~N-~l~~i~~~~f---~~l~~L~~L~L~~N  112 (193)
T 2wfh_A           73 SFSNMTQLLTLILSYN-RLRCIPPRTF---DGLKSLRLLSLHGN  112 (193)
T ss_dssp             TTTTCTTCCEEECCSS-CCCBCCTTTT---TTCTTCCEEECCSS
T ss_pred             HccCCCCCCEEECCCC-ccCEeCHHHh---CCCCCCCEEECCCC
Confidence            2344455555555442 3343333221   33344444444443

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.59  E-value=2.3e-08  Score=101.06  Aligned_cols=106  Identities=14%  Similarity=0.000  Sum_probs=65.4

Q ss_pred             hhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcc
Q 040122          100 LRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDME  179 (388)
Q Consensus       100 ~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~  179 (388)
                      +..+++|++|++++|. +..++..          ...+++|++|+|+++. +..+  +.. ++.+++|++|+++++ .++
T Consensus       220 ~~~l~~L~~L~Ls~n~-l~~l~~~----------~~~l~~L~~L~Ls~N~-l~~l--p~~-~~~l~~L~~L~Ls~N-~l~  283 (727)
T 4b8c_D          220 KYDDQLWHALDLSNLQ-IFNISAN----------IFKYDFLTRLYLNGNS-LTEL--PAE-IKNLSNLRVLDLSHN-RLT  283 (727)
T ss_dssp             --CCCCCCEEECTTSC-CSCCCGG----------GGGCCSCSCCBCTTSC-CSCC--CGG-GGGGTTCCEEECTTS-CCS
T ss_pred             hccCCCCcEEECCCCC-CCCCChh----------hcCCCCCCEEEeeCCc-Cccc--Chh-hhCCCCCCEEeCcCC-cCC
Confidence            6667777777777743 3344432          2346777777777653 4444  323 566777777777775 455


Q ss_pred             cccCCcceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCC
Q 040122          180 TFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~  234 (388)
                      .+|..             ++.+++|+.|++++ ....++..++.+++|+.|+++++
T Consensus       284 ~lp~~-------------~~~l~~L~~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N  326 (727)
T 4b8c_D          284 SLPAE-------------LGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEGN  326 (727)
T ss_dssp             SCCSS-------------GGGGTTCSEEECCSSCCCCCCSSTTSCTTCCCEECTTS
T ss_pred             ccChh-------------hcCCCCCCEEECCCCCCCccChhhhcCCCccEEeCCCC
Confidence            55443             66677777777776 44566666777777777777764

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.58  E-value=1.8e-07  Score=77.08  Aligned_cols=116  Identities=20%  Similarity=0.186  Sum_probs=83.1

Q ss_pred             HHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccce
Q 040122           40 QKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEE  119 (388)
Q Consensus        40 ~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~  119 (388)
                      ..+|..+  +++|++|+++++. +..++...   ...+++|++|++++| .++.+++. .+..+++|++|++++| .+..
T Consensus        20 ~~~p~~~--~~~l~~L~l~~n~-l~~~~~~~---~~~l~~L~~L~l~~n-~l~~~~~~-~~~~l~~L~~L~l~~N-~l~~   90 (177)
T 2o6r_A           20 TSVPTGI--PSSATRLELESNK-LQSLPHGV---FDKLTQLTKLSLSQN-QIQSLPDG-VFDKLTKLTILYLHEN-KLQS   90 (177)
T ss_dssp             SSCCTTC--CTTCSEEECCSSC-CCCCCTTT---TTTCTTCSEEECCSS-CCCCCCTT-TTTTCTTCCEEECCSS-CCCC
T ss_pred             ccCCCCC--CCCCcEEEeCCCc-ccEeCHHH---hcCcccccEEECCCC-cceEeChh-HccCCCccCEEECCCC-Cccc
Confidence            3344333  4789999999876 66443322   146899999999998 67775543 3789999999999996 4555


Q ss_pred             ecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCC
Q 040122          120 VLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCP  176 (388)
Q Consensus       120 i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~  176 (388)
                      ++...         +..+++|++|+++++ .++.+  +...+..+++|++|++.+++
T Consensus        91 ~~~~~---------~~~l~~L~~L~l~~N-~l~~~--~~~~~~~l~~L~~L~l~~N~  135 (177)
T 2o6r_A           91 LPNGV---------FDKLTQLKELALDTN-QLKSV--PDGIFDRLTSLQKIWLHTNP  135 (177)
T ss_dssp             CCTTT---------TTTCTTCCEEECCSS-CCSCC--CTTTTTTCTTCCEEECCSSC
T ss_pred             cCHHH---------hhCCcccCEEECcCC-cceEe--CHHHhcCCcccCEEEecCCC
Confidence            44321         356899999999987 45665  33334678999999999874

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.48  E-value=2e-07  Score=94.20  Aligned_cols=118  Identities=19%  Similarity=0.162  Sum_probs=83.2

Q ss_pred             HHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccc
Q 040122           39 IQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLE  118 (388)
Q Consensus        39 ~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~  118 (388)
                      +...+..+..+++|+.|+++++. +..++...    ..+++|++|+|++| .++.+ |.. +.++++|++|++++|. +.
T Consensus       213 ~~~~~~~~~~l~~L~~L~Ls~n~-l~~l~~~~----~~l~~L~~L~Ls~N-~l~~l-p~~-~~~l~~L~~L~Ls~N~-l~  283 (727)
T 4b8c_D          213 MVMPKDSKYDDQLWHALDLSNLQ-IFNISANI----FKYDFLTRLYLNGN-SLTEL-PAE-IKNLSNLRVLDLSHNR-LT  283 (727)
T ss_dssp             ---------CCCCCCEEECTTSC-CSCCCGGG----GGCCSCSCCBCTTS-CCSCC-CGG-GGGGTTCCEEECTTSC-CS
T ss_pred             eecChhhhccCCCCcEEECCCCC-CCCCChhh----cCCCCCCEEEeeCC-cCccc-Chh-hhCCCCCCEEeCcCCc-CC
Confidence            33445666778899999999876 66555555    57899999999988 66664 444 7899999999999964 55


Q ss_pred             eecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccc
Q 040122          119 EVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMET  180 (388)
Q Consensus       119 ~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~  180 (388)
                      .+|..          +..+++|++|+++++ .+..+  +.. ++.+++|++|+++++ .++.
T Consensus       284 ~lp~~----------~~~l~~L~~L~L~~N-~l~~l--p~~-~~~l~~L~~L~L~~N-~l~~  330 (727)
T 4b8c_D          284 SLPAE----------LGSCFQLKYFYFFDN-MVTTL--PWE-FGNLCNLQFLGVEGN-PLEK  330 (727)
T ss_dssp             SCCSS----------GGGGTTCSEEECCSS-CCCCC--CSS-TTSCTTCCCEECTTS-CCCS
T ss_pred             ccChh----------hcCCCCCCEEECCCC-CCCcc--Chh-hhcCCCccEEeCCCC-ccCC
Confidence            66554          356899999999887 45666  444 778999999999987 4443

>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=98.46  E-value=2.4e-09  Score=90.40  Aligned_cols=81  Identities=17%  Similarity=0.215  Sum_probs=41.0

Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      ..+++|++|++++| .+..++   .+.++++|++|++++| .+..++..          ...+++|+.|+++++ .+..+
T Consensus        45 ~~l~~L~~L~ls~n-~l~~l~---~~~~l~~L~~L~l~~n-~l~~l~~~----------~~~~~~L~~L~L~~N-~l~~l  108 (198)
T 1ds9_A           45 STLKACKHLALSTN-NIEKIS---SLSGMENLRILSLGRN-LIKKIENL----------DAVADTLEELWISYN-QIASL  108 (198)
T ss_dssp             HHTTTCSEEECSEE-EESCCC---CHHHHTTCCEEEEEEE-EECSCSSH----------HHHHHHCSEEEEEEE-ECCCH
T ss_pred             hcCCCCCEEECCCC-CCcccc---ccccCCCCCEEECCCC-Ccccccch----------hhcCCcCCEEECcCC-cCCcC
Confidence            34566666666665 444432   1566666666666664 23333322          123455666666554 23333


Q ss_pred             cCCCCccccCCCcceEeEecC
Q 040122          155 CNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c  175 (388)
                      .    .+..+++|++|++.++
T Consensus       109 ~----~~~~l~~L~~L~l~~N  125 (198)
T 1ds9_A          109 S----GIEKLVNLRVLYMSNN  125 (198)
T ss_dssp             H----HHHHHHHSSEEEESEE
T ss_pred             C----ccccCCCCCEEECCCC
Confidence            1    1445555566655554

>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=98.44  E-value=1e-07  Score=77.83  Aligned_cols=90  Identities=20%  Similarity=0.289  Sum_probs=41.2

Q ss_pred             cccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcC---ccccceeeEccccccchhhcccccccCCc
Q 040122          253 NLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKN---LVNLGRMMIADCKMIEQIIQLQVGEEAKD  329 (388)
Q Consensus       253 ~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~---l~~L~~L~l~~~~~~~~~~~~~~~~~~~~  329 (388)
                      .|+.|++++|.....-...+..+++|+.|++++|..++|.....+...   +++|++|++++|..+++.     |+..+ 
T Consensus        62 ~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~-----Gl~~L-  135 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDK-----GIIAL-  135 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHH-----HHHHG-
T ss_pred             eEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHH-----HHHHH-
Confidence            456666666542222222334555666666666655555433333221   234555555555544432     11111 


Q ss_pred             cccccccceEecccCCCcce
Q 040122          330 CNVFKELEYLGLDCLPSLTS  349 (388)
Q Consensus       330 ~~~~~~L~~L~l~~~~~l~~  349 (388)
                       ..+++|++|++++|+.+++
T Consensus       136 -~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          136 -HHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             -GGCTTCCEEEEESCTTCCC
T ss_pred             -hcCCCCCEEECCCCCCCCc
Confidence             2345555555555554443

>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=98.42  E-value=2.2e-08  Score=84.38  Aligned_cols=62  Identities=24%  Similarity=0.187  Sum_probs=31.5

Q ss_pred             hhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          249 KAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       249 ~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                      ..+++|++|++++|. +..++ .+..+++|++|+++++ .+.+++.......+++|++|++++|+
T Consensus        90 ~~~~~L~~L~L~~N~-l~~l~-~~~~l~~L~~L~l~~N-~i~~~~~~~~l~~l~~L~~L~l~~N~  151 (198)
T 1ds9_A           90 AVADTLEELWISYNQ-IASLS-GIEKLVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             HHHHHCSEEEEEEEE-CCCHH-HHHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSCH
T ss_pred             hcCCcCCEEECcCCc-CCcCC-ccccCCCCCEEECCCC-cCCchhHHHHHhcCCCCCEEEecCCc
Confidence            344556666666552 23333 3445566666666654 34433321223456666666666654

>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=98.41  E-value=1.9e-07  Score=76.20  Aligned_cols=90  Identities=14%  Similarity=0.189  Sum_probs=38.1

Q ss_pred             CCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccc--cccccceEecccCCCcceecCCC
Q 040122          277 NLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCN--VFKELEYLGLDCLPSLTSFCLGN  354 (388)
Q Consensus       277 ~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~--~~~~L~~L~l~~~~~l~~~~~~~  354 (388)
                      +|+.|++++|. +++.....+ ..+++|++|++++|..+++.     ++..+...  .+++|++|++++|+++++-....
T Consensus        62 ~L~~LDLs~~~-Itd~GL~~L-~~~~~L~~L~L~~C~~ItD~-----gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~  134 (176)
T 3e4g_A           62 KIQAIDATDSC-IMSIGFDHM-EGLQYVEKIRLCKCHYIEDG-----CLERLSQLENLQKSMLEMEIISCGNVTDKGIIA  134 (176)
T ss_dssp             CEEEEEEESCC-CCGGGGGGG-TTCSCCCEEEEESCTTCCHH-----HHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHH
T ss_pred             eEeEEeCcCCC-ccHHHHHHh-cCCCCCCEEEeCCCCccCHH-----HHHHHHhcccccCCCCEEEcCCCCcCCHHHHHH
Confidence            45555555553 444333222 34555555555555444332     11111100  12345555555555444322211


Q ss_pred             ccccCCCcceEEeccCCCcc
Q 040122          355 YALEFPSLKQVVVRQCPKMK  374 (388)
Q Consensus       355 ~~~~~~~L~~L~l~~c~~l~  374 (388)
                      .. .+++|++|++++|++++
T Consensus       135 L~-~~~~L~~L~L~~c~~It  153 (176)
T 3e4g_A          135 LH-HFRNLKYLFLSDLPGVK  153 (176)
T ss_dssp             GG-GCTTCCEEEEESCTTCC
T ss_pred             Hh-cCCCCCEEECCCCCCCC
Confidence            11 24555555555555544

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.39  E-value=3.7e-05  Score=71.80  Aligned_cols=99  Identities=13%  Similarity=0.161  Sum_probs=54.9

Q ss_pred             ccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceec
Q 040122          272 SWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFC  351 (388)
Q Consensus       272 ~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  351 (388)
                      +..+.+|+.+.+..  .++.+.... ..+|.+|+.+++..  .++.+..   .    ....|.+|+.+.+..  +++.+.
T Consensus       293 F~~~~~L~~i~l~~--~i~~I~~~a-F~~c~~L~~i~lp~--~v~~I~~---~----aF~~c~~L~~i~lp~--~l~~I~  358 (394)
T 4fs7_A          293 FYGCSSLTEVKLLD--SVKFIGEEA-FESCTSLVSIDLPY--LVEEIGK---R----SFRGCTSLSNINFPL--SLRKIG  358 (394)
T ss_dssp             TTTCTTCCEEEECT--TCCEECTTT-TTTCTTCCEECCCT--TCCEECT---T----TTTTCTTCCEECCCT--TCCEEC
T ss_pred             cccccccccccccc--ccceechhh-hcCCCCCCEEEeCC--cccEEhH---H----hccCCCCCCEEEECc--cccEeh
Confidence            34556777777653  344433322 25677787777742  2333311   0    113456788877743  366665


Q ss_pred             CCCccccCCCcceEEeccCCCcccccCCCCCCCCCC
Q 040122          352 LGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       352 ~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                      ..+. ..|++|+.+.+..  .++.+.....++++|+
T Consensus       359 ~~aF-~~C~~L~~i~lp~--~~~~~~~~F~~c~~L~  391 (394)
T 4fs7_A          359 ANAF-QGCINLKKVELPK--RLEQYRYDFEDTTKFK  391 (394)
T ss_dssp             TTTB-TTCTTCCEEEEEG--GGGGGGGGBCTTCEEE
T ss_pred             HHHh-hCCCCCCEEEECC--CCEEhhheecCCCCCc
Confidence            5442 2378899888864  3444555566666654

>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=98.32  E-value=2.9e-06  Score=69.42  Aligned_cols=84  Identities=21%  Similarity=0.163  Sum_probs=45.2

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .++|++|++++| .++.+++.. +.++++|++|++++| .+..++...         +..+++|++|+++++ .+..+  
T Consensus        29 ~~~l~~L~L~~N-~i~~~~~~~-~~~l~~L~~L~Ls~N-~l~~l~~~~---------f~~l~~L~~L~L~~N-~l~~~--   93 (170)
T 3g39_A           29 PTTTQVLYLYDN-QITKLEPGV-FDRLTQLTRLDLDNN-QLTVLPAGV---------FDKLTQLTQLSLNDN-QLKSI--   93 (170)
T ss_dssp             CTTCSEEECCSS-CCCCCCTTT-TTTCTTCSEEECCSS-CCCCCCTTT---------TTTCTTCCEEECCSS-CCCCC--
T ss_pred             CCCCcEEEcCCC-cCCccChhh-hcCcccCCEEECCCC-CcCccChhh---------ccCCCCCCEEECCCC-ccCEe--
Confidence            356666666666 455543332 566666666666664 344443311         244666666666654 34444  


Q ss_pred             CCCccccCCCcceEeEecC
Q 040122          157 FTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c  175 (388)
                      +...+..+++|++|++.++
T Consensus        94 ~~~~~~~l~~L~~L~L~~N  112 (170)
T 3g39_A           94 PRGAFDNLKSLTHIWLLNN  112 (170)
T ss_dssp             CTTTTTTCTTCCEEECCSS
T ss_pred             CHHHhcCCCCCCEEEeCCC
Confidence            2222445666666666664

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.30  E-value=3.2e-06  Score=69.39  Aligned_cols=83  Identities=20%  Similarity=0.198  Sum_probs=42.4

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCC
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF  157 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  157 (388)
                      ++|++|++++| .+..+++.. +.++++|++|++++| .+..++...         +..+++|+.|+++++ .+..+  +
T Consensus        33 ~~L~~L~Ls~N-~l~~~~~~~-~~~l~~L~~L~Ls~N-~l~~i~~~~---------~~~l~~L~~L~L~~N-~l~~l--~   97 (174)
T 2r9u_A           33 TDKQRLWLNNN-QITKLEPGV-FDHLVNLQQLYFNSN-KLTAIPTGV---------FDKLTQLTQLDLNDN-HLKSI--P   97 (174)
T ss_dssp             TTCSEEECCSS-CCCCCCTTT-TTTCTTCCEEECCSS-CCCCCCTTT---------TTTCTTCCEEECCSS-CCCCC--C
T ss_pred             CCCcEEEeCCC-CccccCHHH-hcCCcCCCEEECCCC-CCCccChhH---------hCCcchhhEEECCCC-cccee--C
Confidence            56666666665 455433322 556666666666664 344443210         234566666666554 23443  2


Q ss_pred             CCccccCCCcceEeEecC
Q 040122          158 TGNIIELPKLEYLIIENC  175 (388)
Q Consensus       158 ~~~~~~l~~L~~L~l~~c  175 (388)
                      ...+..+++|++|++.++
T Consensus        98 ~~~~~~l~~L~~L~L~~N  115 (174)
T 2r9u_A           98 RGAFDNLKSLTHIYLYNN  115 (174)
T ss_dssp             TTTTTTCTTCSEEECCSS
T ss_pred             HHHhccccCCCEEEeCCC
Confidence            222445566666666554

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.13  E-value=2.1e-06  Score=79.14  Aligned_cols=41  Identities=12%  Similarity=0.060  Sum_probs=23.4

Q ss_pred             CCCCcceEEecCCCCcceecccCch-hHhhhccccEEEEecCC
Q 040122          222 AFPQLGNLRLSGLHKVQHLWKENDE-SNKAFANLERLEISECS  263 (388)
Q Consensus       222 ~~~~L~~L~l~~~~~l~~~~~~~~~-~~~~~~~L~~L~i~~~~  263 (388)
                      .+++|++|+++. +.+++.....+. .+..+++|+.|++++|.
T Consensus       277 ~~~~L~~LdLs~-n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~  318 (362)
T 2ra8_A          277 ILPQLETMDISA-GVLTDEGARLLLDHVDKIKHLKFINMKYNY  318 (362)
T ss_dssp             SGGGCSEEECCS-SCCBHHHHHHHHTTHHHHTTCSEEECCSBB
T ss_pred             cCCCCCEEECCC-CCCChHHHHHHHhhcccCCcceEEECCCCc
Confidence            467788888865 345442111100 11456788888887774

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.10  E-value=2.2e-06  Score=78.94  Aligned_cols=171  Identities=16%  Similarity=0.073  Sum_probs=76.6

Q ss_pred             cccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEeccc-ccccccccCCCCcceEEecCCCCcce
Q 040122          161 IIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQI-QHLFDEKVAFPQLGNLRLSGLHKVQH  239 (388)
Q Consensus       161 ~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~-~~~~~~~~~~~~L~~L~l~~~~~l~~  239 (388)
                      +..+++|+.|.+.+.. .......-..   ...-..-+..+|+|+.|++.+.. ..++. + ..++|++|++..|. +..
T Consensus       135 ~~~l~~L~~L~l~~~~-~e~~~is~~~---~~~L~~ll~~~P~L~~L~L~g~~~l~l~~-~-~~~~L~~L~L~~~~-l~~  207 (362)
T 2ra8_A          135 KEKFAHFEGLFWGDID-FEEQEISWIE---QVDLSPVLDAMPLLNNLKIKGTNNLSIGK-K-PRPNLKSLEIISGG-LPD  207 (362)
T ss_dssp             HHHHTTCSEEEECCCC-TTTCCGGGCB---CCBCHHHHHTCTTCCEEEEECCBTCBCCS-C-BCTTCSEEEEECSB-CCH
T ss_pred             hhhcchhhheeecCcc-hhhccccccc---ccCHHHHHhcCCCCcEEEEeCCCCceecc-c-cCCCCcEEEEecCC-CCh
Confidence            4568899999886631 1110000000   00000014566788888877631 12222 2 26777777776543 222


Q ss_pred             ecccCchhHhhhccccEEEEecCC-------CcccccCCc--cccCCCCEEeeccCcCcccccchhh--hcCccccceee
Q 040122          240 LWKENDESNKAFANLERLEISECS-------KLQKLVPPS--WHLENLEALKVSKCHELINVLTLSA--SKNLVNLGRMM  308 (388)
Q Consensus       240 ~~~~~~~~~~~~~~L~~L~i~~~~-------~~~~~~~~~--~~~~~L~~L~l~~c~~l~~~~~~~~--~~~l~~L~~L~  308 (388)
                      -....+ ....+++|+.|+++.+.       .+..+...+  ..+|+|+.|++.+|. +.+.....+  ...+++|+.|+
T Consensus       208 ~~l~~l-~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~-i~~~~~~~la~a~~~~~L~~Ld  285 (362)
T 2ra8_A          208 SVVEDI-LGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAE-EQNVVVEMFLESDILPQLETMD  285 (362)
T ss_dssp             HHHHHH-HHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCT-THHHHHHHHHHCSSGGGCSEEE
T ss_pred             HHHHHH-HHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCC-CchHHHHHHHhCccCCCCCEEE
Confidence            110000 00245777777775311       111111111  346777777777653 222111111  13456777777


Q ss_pred             EccccccchhhcccccccCCccccccccceEecccC
Q 040122          309 IADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCL  344 (388)
Q Consensus       309 l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  344 (388)
                      ++.|. +++....  .+ ......+++|+.|++++|
T Consensus       286 Ls~n~-L~d~G~~--~L-~~~L~~l~~L~~L~L~~n  317 (362)
T 2ra8_A          286 ISAGV-LTDEGAR--LL-LDHVDKIKHLKFINMKYN  317 (362)
T ss_dssp             CCSSC-CBHHHHH--HH-HTTHHHHTTCSEEECCSB
T ss_pred             CCCCC-CChHHHH--HH-HhhcccCCcceEEECCCC
Confidence            76543 3321000  00 001124567777777665

>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=98.05  E-value=1.5e-05  Score=65.02  Aligned_cols=60  Identities=22%  Similarity=0.252  Sum_probs=25.3

Q ss_pred             hhccccEEEEecCCCcccccCC-ccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          250 AFANLERLEISECSKLQKLVPP-SWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       250 ~~~~L~~L~i~~~~~~~~~~~~-~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      .+++|++|+++++. +..++.. +..+++|++|+++++ .++.++.. ....+++|++|++++|
T Consensus        52 ~l~~L~~L~Ls~N~-l~~l~~~~f~~l~~L~~L~L~~N-~l~~~~~~-~~~~l~~L~~L~L~~N  112 (170)
T 3g39_A           52 RLTQLTRLDLDNNQ-LTVLPAGVFDKLTQLTQLSLNDN-QLKSIPRG-AFDNLKSLTHIWLLNN  112 (170)
T ss_dssp             TCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTT-TTTTCTTCCEEECCSS
T ss_pred             CcccCCEEECCCCC-cCccChhhccCCCCCCEEECCCC-ccCEeCHH-HhcCCCCCCEEEeCCC
Confidence            34444444444442 2222222 244455555555543 33333222 1234455555555544

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.03  E-value=1.9e-05  Score=64.78  Aligned_cols=60  Identities=20%  Similarity=0.209  Sum_probs=25.3

Q ss_pred             hhccccEEEEecCCCcccccCC-ccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          250 AFANLERLEISECSKLQKLVPP-SWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       250 ~~~~L~~L~i~~~~~~~~~~~~-~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      .+++|++|+++++. +..++.. +..+++|++|+++++ .++.++.. ....+++|++|++++|
T Consensus        55 ~l~~L~~L~Ls~N~-l~~i~~~~~~~l~~L~~L~L~~N-~l~~l~~~-~~~~l~~L~~L~L~~N  115 (174)
T 2r9u_A           55 HLVNLQQLYFNSNK-LTAIPTGVFDKLTQLTQLDLNDN-HLKSIPRG-AFDNLKSLTHIYLYNN  115 (174)
T ss_dssp             TCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTT-TTTTCTTCSEEECCSS
T ss_pred             CCcCCCEEECCCCC-CCccChhHhCCcchhhEEECCCC-ccceeCHH-HhccccCCCEEEeCCC
Confidence            34444444444442 2333322 234455555555443 33333221 1234455555555544

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.98  E-value=0.00042  Score=64.54  Aligned_cols=259  Identities=11%  Similarity=0.085  Sum_probs=117.8

Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccC------
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDL------  148 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~------  148 (388)
                      ..|.+|+++.+..  +++.+ +...+.+|++|+.+++..  .+..+++..         +..+.+|+.+.+...      
T Consensus        68 ~~c~~L~~i~lp~--~i~~I-~~~aF~~c~~L~~i~lp~--~l~~I~~~a---------F~~c~~L~~i~~p~~l~~i~~  133 (394)
T 4fs7_A           68 QGCRKVTEIKIPS--TVREI-GEFAFENCSKLEIINIPD--SVKMIGRCT---------FSGCYALKSILLPLMLKSIGV  133 (394)
T ss_dssp             TTCTTEEEEECCT--TCCEE-CTTTTTTCTTCCEECCCT--TCCEECTTT---------TTTCTTCCCCCCCTTCCEECT
T ss_pred             hCCCCceEEEeCC--CccCc-chhHhhCCCCCcEEEeCC--CceEccchh---------hcccccchhhcccCceeeecc
Confidence            3467777777753  35553 333367777777777754  244443321         233444444433211      


Q ss_pred             --------------cccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecccc
Q 040122          149 --------------PKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQ  214 (388)
Q Consensus       149 --------------~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~  214 (388)
                                    .....+  +..+...|++|+.+.+.+  .+..++...            +.++++|+.+.+.....
T Consensus       134 ~aF~~~~~~~~~~~~~~~~i--~~~aF~~c~~L~~i~l~~--~~~~I~~~~------------F~~c~~L~~i~l~~~~~  197 (394)
T 4fs7_A          134 EAFKGCDFKEITIPEGVTVI--GDEAFATCESLEYVSLPD--SMETLHNGL------------FSGCGKLKSIKLPRNLK  197 (394)
T ss_dssp             TTTTTCCCSEEECCTTCCEE--CTTTTTTCTTCCEEECCT--TCCEECTTT------------TTTCTTCCBCCCCTTCC
T ss_pred             eeeecccccccccCcccccc--chhhhcccCCCcEEecCC--ccceecccc------------ccCCCCceEEEcCCCce
Confidence                          011111  112234556666665543  223333222            55666677666655322


Q ss_pred             ccc-ccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCccccc-CCccccCCCCEEeeccCcCcccc
Q 040122          215 HLF-DEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLV-PPSWHLENLEALKVSKCHELINV  292 (388)
Q Consensus       215 ~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~-~~~~~~~~L~~L~l~~c~~l~~~  292 (388)
                      .+. .....++.|+.+.+..  .+..+....    .....|+.+.+...  ...+. ..+..+..++.+.+...  ...+
T Consensus       198 ~I~~~~F~~~~~L~~i~~~~--~~~~i~~~~----~~~~~l~~i~ip~~--~~~i~~~~f~~~~~l~~~~~~~~--~~~i  267 (394)
T 4fs7_A          198 IIRDYCFAECILLENMEFPN--SLYYLGDFA----LSKTGVKNIIIPDS--FTELGKSVFYGCTDLESISIQNN--KLRI  267 (394)
T ss_dssp             EECTTTTTTCTTCCBCCCCT--TCCEECTTT----TTTCCCCEEEECTT--CCEECSSTTTTCSSCCEEEECCT--TCEE
T ss_pred             EeCchhhccccccceeecCC--CceEeehhh----cccCCCceEEECCC--ceecccccccccccceeEEcCCC--ccee
Confidence            221 2233455555555543  122222211    34466777777542  22221 23445567777766532  1111


Q ss_pred             cch--------------------hhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecC
Q 040122          293 LTL--------------------SASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCL  352 (388)
Q Consensus       293 ~~~--------------------~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  352 (388)
                      ...                    .....+.+|+.+.+...  ++.+..       .....+.+|+.+.+..  +++.+..
T Consensus       268 ~~~~F~~~~~l~~~~~~~~~i~~~~F~~~~~L~~i~l~~~--i~~I~~-------~aF~~c~~L~~i~lp~--~v~~I~~  336 (394)
T 4fs7_A          268 GGSLFYNCSGLKKVIYGSVIVPEKTFYGCSSLTEVKLLDS--VKFIGE-------EAFESCTSLVSIDLPY--LVEEIGK  336 (394)
T ss_dssp             CSCTTTTCTTCCEEEECSSEECTTTTTTCTTCCEEEECTT--CCEECT-------TTTTTCTTCCEECCCT--TCCEECT
T ss_pred             eccccccccccceeccCceeeccccccccccccccccccc--cceech-------hhhcCCCCCCEEEeCC--cccEEhH
Confidence            110                    01123444555444321  222211       0113456777777642  3555544


Q ss_pred             CCccccCCCcceEEeccCCCccccc-CCCCCCCCCC
Q 040122          353 GNYALEFPSLKQVVVRQCPKMKIFS-QGLLDTPMLN  387 (388)
Q Consensus       353 ~~~~~~~~~L~~L~l~~c~~l~~lp-~~~~~~~~L~  387 (388)
                      .+. ..|.+|+.+.+...  ++.+. ....++++|+
T Consensus       337 ~aF-~~c~~L~~i~lp~~--l~~I~~~aF~~C~~L~  369 (394)
T 4fs7_A          337 RSF-RGCTSLSNINFPLS--LRKIGANAFQGCINLK  369 (394)
T ss_dssp             TTT-TTCTTCCEECCCTT--CCEECTTTBTTCTTCC
T ss_pred             Hhc-cCCCCCCEEEECcc--ccEehHHHhhCCCCCC
Confidence            431 13678888877542  55554 2344455554

>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=97.89  E-value=2.7e-05  Score=71.27  Aligned_cols=95  Identities=19%  Similarity=0.181  Sum_probs=67.4

Q ss_pred             hHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEecccccc
Q 040122           38 TIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSL  117 (388)
Q Consensus        38 ~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l  117 (388)
                      .+..+|. +..+++|++|+++++..+..++... +  ..+++|+.|+|++| .+..+++.. +.++++|++|+|++| .+
T Consensus        20 ~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~-~--~~l~~L~~L~l~~N-~l~~~~~~~-~~~l~~L~~L~l~~N-~l   92 (347)
T 2ifg_A           20 ALDSLHH-LPGAENLTELYIENQQHLQHLELRD-L--RGLGELRNLTIVKS-GLRFVAPDA-FHFTPRLSRLNLSFN-AL   92 (347)
T ss_dssp             CCTTTTT-SCSCSCCSEEECCSCSSCCEECGGG-S--CSCCCCSEEECCSS-CCCEECTTG-GGSCSCCCEEECCSS-CC
T ss_pred             CCCccCC-CCCCCCeeEEEccCCCCCCCcChhH-h--ccccCCCEEECCCC-ccceeCHHH-hcCCcCCCEEeCCCC-cc
Confidence            3455777 8888899999998644577655433 2  56899999999988 677765544 789999999999985 55


Q ss_pred             ceecccccccccccccCCcCccccEeecccCc
Q 040122          118 EEVLHLEELSAKEEHIGPLFPRLLSLKLIDLP  149 (388)
Q Consensus       118 ~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  149 (388)
                      ..++...         +..++ |+.|++.+++
T Consensus        93 ~~~~~~~---------~~~~~-L~~l~l~~N~  114 (347)
T 2ifg_A           93 ESLSWKT---------VQGLS-LQELVLSGNP  114 (347)
T ss_dssp             SCCCSTT---------TCSCC-CCEEECCSSC
T ss_pred             ceeCHHH---------cccCC-ceEEEeeCCC
Confidence            5654421         12233 8888888653

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.84  E-value=0.0023  Score=59.44  Aligned_cols=104  Identities=13%  Similarity=0.200  Sum_probs=50.0

Q ss_pred             hhhccccEEEEecCCCcccc-cCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccC
Q 040122          249 KAFANLERLEISECSKLQKL-VPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEA  327 (388)
Q Consensus       249 ~~~~~L~~L~i~~~~~~~~~-~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~  327 (388)
                      ..+..|+.+.+.+.  ...+ ...+..+++|+.+.+..  .+..+.... ..+|.+|+.+.+..  .++.+..   .   
T Consensus       262 ~~c~~L~~i~lp~~--~~~I~~~aF~~c~~L~~i~l~~--~i~~I~~~a-F~~c~~L~~i~lp~--~v~~I~~---~---  328 (394)
T 4gt6_A          262 DSCAYLASVKMPDS--VVSIGTGAFMNCPALQDIEFSS--RITELPESV-FAGCISLKSIDIPE--GITQILD---D---  328 (394)
T ss_dssp             TTCSSCCEEECCTT--CCEECTTTTTTCTTCCEEECCT--TCCEECTTT-TTTCTTCCEEECCT--TCCEECT---T---
T ss_pred             eecccccEEecccc--cceecCcccccccccccccCCC--cccccCcee-ecCCCCcCEEEeCC--cccEehH---h---
Confidence            34455555555332  1111 12334556666666642  344443322 24567777777643  1222211   0   


Q ss_pred             CccccccccceEecccCCCcceecCCCccccCCCcceEEecc
Q 040122          328 KDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQ  369 (388)
Q Consensus       328 ~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~  369 (388)
                       ....|.+|+.+.+-.  +++.+...+. ..|.+|+.+++.+
T Consensus       329 -aF~~C~~L~~i~ip~--sv~~I~~~aF-~~C~~L~~i~~~~  366 (394)
T 4gt6_A          329 -AFAGCEQLERIAIPS--SVTKIPESAF-SNCTALNNIEYSG  366 (394)
T ss_dssp             -TTTTCTTCCEEEECT--TCCBCCGGGG-TTCTTCCEEEESS
T ss_pred             -HhhCCCCCCEEEECc--ccCEEhHhHh-hCCCCCCEEEECC
Confidence             113456777777632  3444443331 2367888877765

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.81  E-value=7.8e-07  Score=82.52  Aligned_cols=66  Identities=14%  Similarity=0.021  Sum_probs=29.5

Q ss_pred             CCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecC
Q 040122          103 LNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       103 l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c  175 (388)
                      +++|++|++++|. +...... .+.   ..+....++|+.|+++++. ++..... .-...+++|++|++++|
T Consensus        71 ~~~L~~L~Ls~n~-l~~~~~~-~l~---~~L~~~~~~L~~L~Ls~n~-l~~~~~~-~l~~~L~~L~~L~Ls~n  136 (372)
T 3un9_A           71 LSSLRQLNLAGVR-MTPVKCT-VVA---AVLGSGRHALDEVNLASCQ-LDPAGLR-TLLPVFLRARKLGLQLN  136 (372)
T ss_dssp             HTTCCEEECTTSC-CCHHHHH-HHH---HHHSSCSSCEEEEECTTCC-CCHHHHH-HTHHHHHTEEEEECCSS
T ss_pred             HhhCCEEEecCCC-CCHHHHH-HHH---HHHhhCCCCceEEEecCCC-CCHHHHH-HHHHHHHhccHhhcCCC
Confidence            4667777777754 2221110 000   0001123567777777663 2221000 00123456677777766

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.80  E-value=1.5e-06  Score=80.59  Aligned_cols=12  Identities=17%  Similarity=0.119  Sum_probs=6.8

Q ss_pred             CCCcceEeEecC
Q 040122          164 LPKLEYLIIENC  175 (388)
Q Consensus       164 l~~L~~L~l~~c  175 (388)
                      .++|++|++++|
T Consensus       154 ~~~L~~L~Ls~n  165 (372)
T 3un9_A          154 QCQITTLRLSNN  165 (372)
T ss_dssp             TCCCCEEECCSS
T ss_pred             CCccceeeCCCC
Confidence            455666666555

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.67  E-value=0.005  Score=57.15  Aligned_cols=79  Identities=14%  Similarity=0.192  Sum_probs=40.1

Q ss_pred             CCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccC-CccccCCCCEEeeccCcCcccccchhhhcC
Q 040122          222 AFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVP-PSWHLENLEALKVSKCHELINVLTLSASKN  300 (388)
Q Consensus       222 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~-~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~  300 (388)
                      .+.+|+.+.+.+  .+..+....+   ..++.|+.+.+..  .+..++. .+..+.+|+.+.+..  .++.+....+ .+
T Consensus       263 ~c~~L~~i~lp~--~~~~I~~~aF---~~c~~L~~i~l~~--~i~~I~~~aF~~c~~L~~i~lp~--~v~~I~~~aF-~~  332 (394)
T 4gt6_A          263 SCAYLASVKMPD--SVVSIGTGAF---MNCPALQDIEFSS--RITELPESVFAGCISLKSIDIPE--GITQILDDAF-AG  332 (394)
T ss_dssp             TCSSCCEEECCT--TCCEECTTTT---TTCTTCCEEECCT--TCCEECTTTTTTCTTCCEEECCT--TCCEECTTTT-TT
T ss_pred             ecccccEEeccc--ccceecCccc---ccccccccccCCC--cccccCceeecCCCCcCEEEeCC--cccEehHhHh-hC
Confidence            455666666643  2334443332   4556666666643  2333332 344556677776653  3444332222 45


Q ss_pred             ccccceeeEc
Q 040122          301 LVNLGRMMIA  310 (388)
Q Consensus       301 l~~L~~L~l~  310 (388)
                      |.+|+.+.+.
T Consensus       333 C~~L~~i~ip  342 (394)
T 4gt6_A          333 CEQLERIAIP  342 (394)
T ss_dssp             CTTCCEEEEC
T ss_pred             CCCCCEEEEC
Confidence            6667776664

>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=97.65  E-value=0.0001  Score=67.41  Aligned_cols=83  Identities=20%  Similarity=0.187  Sum_probs=44.0

Q ss_pred             ccccCCceEEEec--cccccc-ccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCcccc
Q 040122          199 QKLKSEENLLVAN--QIQHLF-DEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHL  275 (388)
Q Consensus       199 ~~l~~L~~L~l~~--~~~~~~-~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~  275 (388)
                      ..+++|+.|++++  ....++ ..++.+++|+.|+|+++ .++.++...+   ..+++|+.|+++++. +..+|......
T Consensus        28 ~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~---~~l~~L~~L~l~~N~-l~~~~~~~~~~  102 (347)
T 2ifg_A           28 PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAF---HFTPRLSRLNLSFNA-LESLSWKTVQG  102 (347)
T ss_dssp             CSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGG---GSCSCCCEEECCSSC-CSCCCSTTTCS
T ss_pred             CCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCC-ccceeCHHHh---cCCcCCCEEeCCCCc-cceeCHHHccc
Confidence            4556666666653  333333 34556666666666663 4555554432   455666666666653 33444333222


Q ss_pred             CCCCEEeeccC
Q 040122          276 ENLEALKVSKC  286 (388)
Q Consensus       276 ~~L~~L~l~~c  286 (388)
                      ..|+.|++.++
T Consensus       103 ~~L~~l~l~~N  113 (347)
T 2ifg_A          103 LSLQELVLSGN  113 (347)
T ss_dssp             CCCCEEECCSS
T ss_pred             CCceEEEeeCC
Confidence            23666666653

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.89  E-value=0.12  Score=47.43  Aligned_cols=103  Identities=11%  Similarity=0.079  Sum_probs=44.8

Q ss_pred             ccccCCceEEEecccccc-cccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccC-CccccC
Q 040122          199 QKLKSEENLLVANQIQHL-FDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVP-PSWHLE  276 (388)
Q Consensus       199 ~~l~~L~~L~l~~~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~-~~~~~~  276 (388)
                      ..+.+|+.+.+......+ ......+.+|+.+.+-.  .++.+....+   ..+..|+.+.+..  .+..++. .+..+.
T Consensus       214 ~~~~~l~~i~~~~~~~~i~~~~f~~~~~L~~i~lp~--~v~~I~~~aF---~~~~~l~~i~l~~--~i~~i~~~aF~~c~  286 (379)
T 4h09_A          214 SYGKNLKKITITSGVTTLGDGAFYGMKALDEIAIPK--NVTSIGSFLL---QNCTALKTLNFYA--KVKTVPYLLCSGCS  286 (379)
T ss_dssp             TTCSSCSEEECCTTCCEECTTTTTTCSSCCEEEECT--TCCEECTTTT---TTCTTCCEEEECC--CCSEECTTTTTTCT
T ss_pred             ccccccceeeeccceeEEccccccCCccceEEEcCC--CccEeCcccc---ceeehhccccccc--cceecccccccccc
Confidence            344455555544321111 11223345555555543  2444443322   4455556555543  2222222 234555


Q ss_pred             CCCEEeeccCcCcccccchhhhcCccccceeeEc
Q 040122          277 NLEALKVSKCHELINVLTLSASKNLVNLGRMMIA  310 (388)
Q Consensus       277 ~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~  310 (388)
                      +|+.+.+.+. .++.+.... ..+|.+|+.+.+.
T Consensus       287 ~L~~i~l~~~-~i~~I~~~a-F~~c~~L~~i~lp  318 (379)
T 4h09_A          287 NLTKVVMDNS-AIETLEPRV-FMDCVKLSSVTLP  318 (379)
T ss_dssp             TCCEEEECCT-TCCEECTTT-TTTCTTCCEEECC
T ss_pred             cccccccccc-ccceehhhh-hcCCCCCCEEEcC
Confidence            6666666532 233332222 2455666666653

>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=96.31  E-value=0.0048  Score=53.85  Aligned_cols=64  Identities=16%  Similarity=0.098  Sum_probs=34.6

Q ss_pred             ccCCccEEEecCCCCCcccCCh-hhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcc
Q 040122           76 FFNNLAELVVDDSTNMSSAIPA-NLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPK  150 (388)
Q Consensus        76 ~~~~L~~L~l~~~~~l~~~~~~-~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  150 (388)
                      .+++|++|+|++| .+..+.+. ..+..+++|++|++++| .+..+..+..        +..+ +|+.|++.+++-
T Consensus       168 ~l~~L~~L~Ls~N-~l~~l~~l~~~~~~l~~L~~L~Ls~N-~i~~~~~l~~--------l~~l-~L~~L~L~~Npl  232 (267)
T 3rw6_A          168 NIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDK--------IKGL-KLEELWLDGNSL  232 (267)
T ss_dssp             HCTTCCEEECTTS-CCCCCGGGTTHHHHSTTCCEEECTTS-CCCSGGGGGG--------GTTS-CCSEEECTTSTT
T ss_pred             hCCCCCEEECCCC-CCCCCccchhHHhhCCCCCEEECCCC-ccCCchhhhh--------cccC-CcceEEccCCcC
Confidence            4667777777776 45543221 12456777777777764 3333322211        1223 677777766653

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.24  E-value=0.68  Score=42.19  Aligned_cols=126  Identities=13%  Similarity=0.115  Sum_probs=70.0

Q ss_pred             CCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCccccc-CCccccCCCCEEeeccCcCcccccchhhhcC
Q 040122          222 AFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLV-PPSWHLENLEALKVSKCHELINVLTLSASKN  300 (388)
Q Consensus       222 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~-~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~  300 (388)
                      .+.+|+.+.+..  .++.+....+   ..+..|+.+.+...  +..+. ..+..+.+|+.+.+..  .+..+... ....
T Consensus       215 ~~~~l~~i~~~~--~~~~i~~~~f---~~~~~L~~i~lp~~--v~~I~~~aF~~~~~l~~i~l~~--~i~~i~~~-aF~~  284 (379)
T 4h09_A          215 YGKNLKKITITS--GVTTLGDGAF---YGMKALDEIAIPKN--VTSIGSFLLQNCTALKTLNFYA--KVKTVPYL-LCSG  284 (379)
T ss_dssp             TCSSCSEEECCT--TCCEECTTTT---TTCSSCCEEEECTT--CCEECTTTTTTCTTCCEEEECC--CCSEECTT-TTTT
T ss_pred             cccccceeeecc--ceeEEccccc---cCCccceEEEcCCC--ccEeCccccceeehhccccccc--cceecccc-cccc
Confidence            345666666643  3455544333   56677888877653  33332 2345677888888864  34444333 2367


Q ss_pred             ccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEec
Q 040122          301 LVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVR  368 (388)
Q Consensus       301 l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~  368 (388)
                      |.+|+.+.+.++ .++.+..   .    ....+.+|+.+.+-.  +++.+...+. ..|.+|+.+.+.
T Consensus       285 c~~L~~i~l~~~-~i~~I~~---~----aF~~c~~L~~i~lp~--~l~~I~~~aF-~~C~~L~~i~ip  341 (379)
T 4h09_A          285 CSNLTKVVMDNS-AIETLEP---R----VFMDCVKLSSVTLPT--ALKTIQVYAF-KNCKALSTISYP  341 (379)
T ss_dssp             CTTCCEEEECCT-TCCEECT---T----TTTTCTTCCEEECCT--TCCEECTTTT-TTCTTCCCCCCC
T ss_pred             cccccccccccc-ccceehh---h----hhcCCCCCCEEEcCc--cccEEHHHHh-hCCCCCCEEEEC
Confidence            888999888653 2333321   1    113456788777742  3555544331 125677776664

>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=95.97  E-value=0.0076  Score=52.57  Aligned_cols=63  Identities=21%  Similarity=0.227  Sum_probs=29.3

Q ss_pred             hhccccEEEEecCCCcc--cccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccc
Q 040122          250 AFANLERLEISECSKLQ--KLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKM  314 (388)
Q Consensus       250 ~~~~L~~L~i~~~~~~~--~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~  314 (388)
                      .+++|+.|+++++....  .++..+..+++|+.|+++++ .++++........+ +|++|++.+|+.
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N-~i~~~~~l~~l~~l-~L~~L~L~~Npl  232 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGL-KLEELWLDGNSL  232 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTS-CCCSGGGGGGGTTS-CCSEEECTTSTT
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCC-ccCCchhhhhcccC-CcceEEccCCcC
Confidence            34455555555543221  22333345566666666653 34443211111222 666666666653

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=95.82  E-value=0.0041  Score=51.11  Aligned_cols=126  Identities=13%  Similarity=0.068  Sum_probs=71.6

Q ss_pred             HHHhhhccCCCCcceEEecCccccceecccc-ccCccccCCccEEEecCCCCCcccCC---hhhhhcCCCCcEEEecccc
Q 040122           40 QKCYDEKIGFLDINRLQLSHFPRLQEIWHGQ-ALPVRFFNNLAELVVDDSTNMSSAIP---ANLLRCLNNLEWLAVRNCD  115 (388)
Q Consensus        40 ~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~---~~~~~~l~~L~~L~l~~~~  115 (388)
                      +.+...+...++|++|+++++..+.+..... .-.....++|++|++++| .+++.-.   ...+...++|++|++++|.
T Consensus        26 ~~l~~~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n-~i~~~g~~~l~~~L~~n~~L~~L~L~~N~  104 (185)
T 1io0_A           26 ETLKRIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNF  104 (185)
T ss_dssp             HHHHHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSC
T ss_pred             HHHHHHHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCC-CCChHHHHHHHHHHHhCCCcCEEECcCCc
Confidence            3455566677999999999883365321111 000134688999999988 4543111   1125566889999999864


Q ss_pred             ccceec--ccccccccccccCCcCccccEeec--ccCccccccc--CCCCccccCCCcceEeEecC
Q 040122          116 SLEEVL--HLEELSAKEEHIGPLFPRLLSLKL--IDLPKLKRFC--NFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       116 ~l~~i~--~~~~~~~~~~~~~~~~~~L~~L~l--~~~~~l~~~~--~~~~~~~~l~~L~~L~l~~c  175 (388)
                       ++.-.  .+..       .+...++|++|++  +++. ++.-.  .....+...++|++|++.+|
T Consensus       105 -i~~~g~~~l~~-------~L~~n~~L~~L~L~~~~N~-i~~~g~~~l~~~L~~n~~L~~L~L~~n  161 (185)
T 1io0_A          105 -ISGSGILALVE-------ALQSNTSLIELRIDNQSQP-LGNNVEMEIANMLEKNTTLLKFGYHFT  161 (185)
T ss_dssp             -CCHHHHHHHHH-------GGGGCSSCCEEECCCCSSC-CCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             -CCHHHHHHHHH-------HHHhCCCceEEEecCCCCC-CCHHHHHHHHHHHHhCCCcCEEeccCC
Confidence             22210  0000       0345678999999  5443 33210  00011445678888888876

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=95.45  E-value=0.0049  Score=50.68  Aligned_cols=19  Identities=21%  Similarity=0.219  Sum_probs=11.1

Q ss_pred             cccCCCcceEeEecCCCcc
Q 040122          161 IIELPKLEYLIIENCPDME  179 (388)
Q Consensus       161 ~~~l~~L~~L~l~~c~~l~  179 (388)
                      +...++|++|++++|..+.
T Consensus        32 l~~~~~L~~L~L~~n~~i~   50 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIP   50 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCC
T ss_pred             HhcCCCCCEEEecCCCCCC
Confidence            4456667777776653333

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=88.08  E-value=0.56  Score=35.68  Aligned_cols=37  Identities=22%  Similarity=0.212  Sum_probs=25.5

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEecccc
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCD  115 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~  115 (388)
                      .++|++|+|++| .++.++ ...+..+++|++|+|++|+
T Consensus        30 p~~l~~L~Ls~N-~l~~l~-~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           30 PVDTTELVLTGN-NLTALP-PGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             CTTCSEEECTTS-CCSSCC-TTTGGGCTTCCEEECCSSC
T ss_pred             CcCCCEEECCCC-cCCccC-hhhhhhccccCEEEecCCC
Confidence            456788888777 566643 3447777888888887764

---

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	388
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.74
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.66
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.65
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.64
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.63
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.62
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.61
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.56
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.51
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.49
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.49
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.48
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.47
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.46
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.4
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.4
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.39
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.38
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.35
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.33
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.32
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.31
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.92
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.9
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.84
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.79
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.79
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.49
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.42
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.4
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.25
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.22
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.14
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.09
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.09
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.37
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	95.95
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	95.64
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	94.2
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	93.12
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	91.65
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	91.31

>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=99.74  E-value=1.2e-16  Score=147.53  Aligned_cols=159  Identities=14%  Similarity=0.184  Sum_probs=86.6

Q ss_pred             ccCCceEEEecccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCE
Q 040122          201 LKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEA  280 (388)
Q Consensus       201 l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~  280 (388)
                      +++|+.|+++++.-.-+..+..+++|+.++++++ .++.++..     ..+++|++|+++++.. ..++ .+..++.++.
T Consensus       218 ~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n-~l~~~~~~-----~~~~~L~~L~l~~~~l-~~~~-~~~~~~~l~~  289 (384)
T d2omza2         218 LTNLDELSLNGNQLKDIGTLASLTNLTDLDLANN-QISNLAPL-----SGLTKLTELKLGANQI-SNIS-PLAGLTALTN  289 (384)
T ss_dssp             CTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSS-CCCCCGGG-----TTCTTCSEEECCSSCC-CCCG-GGTTCTTCSE
T ss_pred             cCCCCEEECCCCCCCCcchhhcccccchhccccC-ccCCCCcc-----cccccCCEeeccCccc-CCCC-cccccccccc
Confidence            4455555554411111223344555555555553 23333211     3445555555555432 2221 2334455555


Q ss_pred             EeeccCcCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCC
Q 040122          281 LKVSKCHELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFP  360 (388)
Q Consensus       281 L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~  360 (388)
                      +.+.++ .+.++.   ....+++++.|+++++. +++++.         ...+++|++|++++| .++.++ +..  .++
T Consensus       290 l~~~~n-~l~~~~---~~~~~~~l~~L~ls~n~-l~~l~~---------l~~l~~L~~L~L~~n-~l~~l~-~l~--~l~  351 (384)
T d2omza2         290 LELNEN-QLEDIS---PISNLKNLTYLTLYFNN-ISDISP---------VSSLTKLQRLFFANN-KVSDVS-SLA--NLT  351 (384)
T ss_dssp             EECCSS-CCSCCG---GGGGCTTCSEEECCSSC-CSCCGG---------GGGCTTCCEEECCSS-CCCCCG-GGG--GCT
T ss_pred             cccccc-cccccc---ccchhcccCeEECCCCC-CCCCcc---------cccCCCCCEEECCCC-CCCCCh-hHc--CCC
Confidence            555543 233322   23556778888887764 333321         245789999999988 566665 222  389


Q ss_pred             CcceEEeccCCCcccccCCCCCCCCCC
Q 040122          361 SLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       361 ~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                      +|++|++++| +++.++. +.++++|+
T Consensus       352 ~L~~L~l~~N-~l~~l~~-l~~l~~L~  376 (384)
T d2omza2         352 NINWLSAGHN-QISDLTP-LANLTRIT  376 (384)
T ss_dssp             TCCEEECCSS-CCCBCGG-GTTCTTCS
T ss_pred             CCCEEECCCC-cCCCChh-hccCCCCC
Confidence            9999999876 5777764 77778776

>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=99.66  E-value=2.6e-15  Score=138.24  Aligned_cols=269  Identities=16%  Similarity=0.240  Sum_probs=174.5

Q ss_pred             hccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccc
Q 040122           45 EKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLE  124 (388)
Q Consensus        45 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~  124 (388)
                      .+..+++|++|+++++. ++.++. .    ..+++|++|++++| .+..+++   ++++++|+.|+++++. +..+....
T Consensus        61 gl~~L~nL~~L~Ls~N~-l~~l~~-l----~~L~~L~~L~L~~n-~i~~i~~---l~~l~~L~~L~~~~~~-~~~~~~~~  129 (384)
T d2omza2          61 GVEYLNNLTQINFSNNQ-LTDITP-L----KNLTKLVDILMNNN-QIADITP---LANLTNLTGLTLFNNQ-ITDIDPLK  129 (384)
T ss_dssp             TGGGCTTCCEEECCSSC-CCCCGG-G----TTCTTCCEEECCSS-CCCCCGG---GTTCTTCCEEECCSSC-CCCCGGGT
T ss_pred             ccccCCCCCEEeCcCCc-CCCCcc-c----cCCccccccccccc-ccccccc---cccccccccccccccc-cccccccc
Confidence            45567889999998875 765542 2    46889999999888 5665444   6888899999887642 22111110


Q ss_pred             ccc------------------------------------------------------ccccccCCcCccccEeecccCcc
Q 040122          125 ELS------------------------------------------------------AKEEHIGPLFPRLLSLKLIDLPK  150 (388)
Q Consensus       125 ~~~------------------------------------------------------~~~~~~~~~~~~L~~L~l~~~~~  150 (388)
                      ...                                                      .........+++++.++++++. 
T Consensus       130 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~l~~n~-  208 (384)
T d2omza2         130 NLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQ-  208 (384)
T ss_dssp             TCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSC-
T ss_pred             ccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccccceeeccCCc-
Confidence            000                                                      0000112335556666665542 


Q ss_pred             cccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecccccccccccCCCCcceEE
Q 040122          151 LKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLR  230 (388)
Q Consensus       151 l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~  230 (388)
                      +..+.   . ...+++|++|++.++ .++.++              .+..+++|+.++++++.-.-...++.+++|+.|+
T Consensus       209 i~~~~---~-~~~~~~L~~L~l~~n-~l~~~~--------------~l~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~  269 (384)
T d2omza2         209 ISDIT---P-LGILTNLDELSLNGN-QLKDIG--------------TLASLTNLTDLDLANNQISNLAPLSGLTKLTELK  269 (384)
T ss_dssp             CCCCG---G-GGGCTTCCEEECCSS-CCCCCG--------------GGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEE
T ss_pred             cCCCC---c-ccccCCCCEEECCCC-CCCCcc--------------hhhcccccchhccccCccCCCCcccccccCCEee
Confidence            23321   1 345667777777775 444443              2678899999999983222223467789999999


Q ss_pred             ecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEc
Q 040122          231 LSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIA  310 (388)
Q Consensus       231 l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~  310 (388)
                      ++++ .+..++..     ..++.++.+.+..+.. ..+ ..+..+++++.|+++++ ++++++.   ...+++|++|+++
T Consensus       270 l~~~-~l~~~~~~-----~~~~~l~~l~~~~n~l-~~~-~~~~~~~~l~~L~ls~n-~l~~l~~---l~~l~~L~~L~L~  337 (384)
T d2omza2         270 LGAN-QISNISPL-----AGLTALTNLELNENQL-EDI-SPISNLKNLTYLTLYFN-NISDISP---VSSLTKLQRLFFA  337 (384)
T ss_dssp             CCSS-CCCCCGGG-----TTCTTCSEEECCSSCC-SCC-GGGGGCTTCSEEECCSS-CCSCCGG---GGGCTTCCEEECC
T ss_pred             ccCc-ccCCCCcc-----cccccccccccccccc-ccc-cccchhcccCeEECCCC-CCCCCcc---cccCCCCCEEECC
Confidence            9875 45544321     5678889998888643 333 34677899999999987 6776642   3678999999999


Q ss_pred             cccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEeccC
Q 040122          311 DCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQC  370 (388)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c  370 (388)
                      +|. ++.++.         ...+++|++|+++++ .+++++. .  ..+++|++|+++++
T Consensus       338 ~n~-l~~l~~---------l~~l~~L~~L~l~~N-~l~~l~~-l--~~l~~L~~L~L~~N  383 (384)
T d2omza2         338 NNK-VSDVSS---------LANLTNINWLSAGHN-QISDLTP-L--ANLTRITQLGLNDQ  383 (384)
T ss_dssp             SSC-CCCCGG---------GGGCTTCCEEECCSS-CCCBCGG-G--TTCTTCSEEECCCE
T ss_pred             CCC-CCCChh---------HcCCCCCCEEECCCC-cCCCChh-h--ccCCCCCEeeCCCC
Confidence            984 554432         245799999999886 5666542 2  22799999999864

>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=99.65  E-value=5.7e-15  Score=131.90  Aligned_cols=240  Identities=18%  Similarity=0.165  Sum_probs=122.8

Q ss_pred             cceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCC
Q 040122           25 GELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLN  104 (388)
Q Consensus        25 ~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~  104 (388)
                      ++..+|.+    ..+..+|..+  ++++++|+++++. ++.++... .  ..+++|++|++++|. +..+.+.. +.+++
T Consensus        12 ~~~~~C~~----~~L~~lP~~l--~~~l~~L~Ls~N~-i~~l~~~~-f--~~l~~L~~L~l~~n~-~~~i~~~~-f~~l~   79 (305)
T d1xkua_          12 LRVVQCSD----LGLEKVPKDL--PPDTALLDLQNNK-ITEIKDGD-F--KNLKNLHTLILINNK-ISKISPGA-FAPLV   79 (305)
T ss_dssp             TTEEECTT----SCCCSCCCSC--CTTCCEEECCSSC-CCCBCTTT-T--TTCTTCCEEECCSSC-CCCBCTTT-TTTCT
T ss_pred             CCEEEecC----CCCCccCCCC--CCCCCEEECcCCc-CCCcChhH-h--hcccccccccccccc-ccccchhh-hhCCC
Confidence            34455665    3344455544  3678888888764 66555433 1  457888888888874 44544433 77888


Q ss_pred             CCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCC
Q 040122          105 NLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSN  184 (388)
Q Consensus       105 ~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~  184 (388)
                      +|++|++++| .++.++.            ..+..++.|.+.++. +..+  ..........+..+....+.........
T Consensus        80 ~L~~L~l~~n-~l~~l~~------------~~~~~l~~L~~~~n~-l~~l--~~~~~~~~~~~~~l~~~~n~~~~~~~~~  143 (305)
T d1xkua_          80 KLERLYLSKN-QLKELPE------------KMPKTLQELRVHENE-ITKV--RKSVFNGLNQMIVVELGTNPLKSSGIEN  143 (305)
T ss_dssp             TCCEEECCSS-CCSBCCS------------SCCTTCCEEECCSSC-CCBB--CHHHHTTCTTCCEEECCSSCCCGGGBCT
T ss_pred             ccCEecccCC-ccCcCcc------------chhhhhhhhhccccc-hhhh--hhhhhhccccccccccccccccccCCCc
Confidence            8888888885 4555543            235567777776542 3333  1111223445555555543322111111


Q ss_pred             cceeeecccCCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCC
Q 040122          185 STFVLHMTADNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECS  263 (388)
Q Consensus       185 ~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~  263 (388)
                      .           .+..+++|+.+++.+ ....++..  .+++|+.|++.++.. .......+   ..++.+++|.++++.
T Consensus       144 ~-----------~~~~l~~L~~l~l~~n~l~~l~~~--~~~~L~~L~l~~n~~-~~~~~~~~---~~~~~l~~L~~s~n~  206 (305)
T d1xkua_         144 G-----------AFQGMKKLSYIRIADTNITTIPQG--LPPSLTELHLDGNKI-TKVDAASL---KGLNNLAKLGLSFNS  206 (305)
T ss_dssp             T-----------GGGGCTTCCEEECCSSCCCSCCSS--CCTTCSEEECTTSCC-CEECTGGG---TTCTTCCEEECCSSC
T ss_pred             c-----------ccccccccCccccccCCccccCcc--cCCccCEEECCCCcC-CCCChhHh---hcccccccccccccc
Confidence            1           144555666666555 22222221  245666666655432 22221111   444555566555553


Q ss_pred             CcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          264 KLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       264 ~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      .....+..+..+++|++|+++++ +++.++.  ....+++|++|++++|
T Consensus       207 l~~~~~~~~~~l~~L~~L~L~~N-~L~~lp~--~l~~l~~L~~L~Ls~N  252 (305)
T d1xkua_         207 ISAVDNGSLANTPHLRELHLNNN-KLVKVPG--GLADHKYIQVVYLHNN  252 (305)
T ss_dssp             CCEECTTTGGGSTTCCEEECCSS-CCSSCCT--TTTTCSSCCEEECCSS
T ss_pred             ccccccccccccccceeeecccc-ccccccc--ccccccCCCEEECCCC
Confidence            33222334445556666666554 4444432  1234555555555554

>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=99.64  E-value=1.7e-14  Score=128.80  Aligned_cols=254  Identities=13%  Similarity=0.065  Sum_probs=176.6

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .+++++|++++| .++.+++.. +.++++|++|++++|... .+++..         +..+++|+.|++.++ .++.+  
T Consensus        30 ~~~l~~L~Ls~N-~i~~l~~~~-f~~l~~L~~L~l~~n~~~-~i~~~~---------f~~l~~L~~L~l~~n-~l~~l--   94 (305)
T d1xkua_          30 PPDTALLDLQNN-KITEIKDGD-FKNLKNLHTLILINNKIS-KISPGA---------FAPLVKLERLYLSKN-QLKEL--   94 (305)
T ss_dssp             CTTCCEEECCSS-CCCCBCTTT-TTTCTTCCEEECCSSCCC-CBCTTT---------TTTCTTCCEEECCSS-CCSBC--
T ss_pred             CCCCCEEECcCC-cCCCcChhH-hhcccccccccccccccc-ccchhh---------hhCCCccCEecccCC-ccCcC--
Confidence            478999999998 788755533 889999999999997543 432211         466899999999887 46666  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec----ccccccccccCCCCcceEEec
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN----QIQHLFDEKVAFPQLGNLRLS  232 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~----~~~~~~~~~~~~~~L~~L~l~  232 (388)
                      +..   ..+.++.|+..++ .+..++...            +.....+..+....    ........+..+++|+.+.+.
T Consensus        95 ~~~---~~~~l~~L~~~~n-~l~~l~~~~------------~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~  158 (305)
T d1xkua_          95 PEK---MPKTLQELRVHEN-EITKVRKSV------------FNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIA  158 (305)
T ss_dssp             CSS---CCTTCCEEECCSS-CCCBBCHHH------------HTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECC
T ss_pred             ccc---hhhhhhhhhcccc-chhhhhhhh------------hhccccccccccccccccccCCCccccccccccCccccc
Confidence            222   4567888888775 444443221            34455666666554    222333445567899999998


Q ss_pred             CCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          233 GLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       233 ~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      ++ .+..++.      ..+++|++|+++++......+..+..++.++.|+++++ .+..++.. ...++++|++|++++|
T Consensus       159 ~n-~l~~l~~------~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n-~l~~~~~~-~~~~l~~L~~L~L~~N  229 (305)
T d1xkua_         159 DT-NITTIPQ------GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFN-SISAVDNG-SLANTPHLRELHLNNN  229 (305)
T ss_dssp             SS-CCCSCCS------SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSS-CCCEECTT-TGGGSTTCCEEECCSS
T ss_pred             cC-CccccCc------ccCCccCEEECCCCcCCCCChhHhhccccccccccccc-cccccccc-cccccccceeeecccc
Confidence            86 4555543      34689999999998877776777888899999999987 66666543 3467899999999998


Q ss_pred             cccchhhcccccccCCccccccccceEecccCCCcceecCCCc-----cccCCCcceEEeccCCC-cccccCCC
Q 040122          313 KMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNY-----ALEFPSLKQVVVRQCPK-MKIFSQGL  380 (388)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~-----~~~~~~L~~L~l~~c~~-l~~lp~~~  380 (388)
                      . ++.++.        ....+++|++|+++++ +++.++....     ....++|+.+++.++|- ...++.+.
T Consensus       230 ~-L~~lp~--------~l~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~~~~~~~~~~  293 (305)
T d1xkua_         230 K-LVKVPG--------GLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPST  293 (305)
T ss_dssp             C-CSSCCT--------TTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCGGG
T ss_pred             c-cccccc--------ccccccCCCEEECCCC-ccCccChhhccCcchhcccCCCCEEECCCCcCccCcCCHhH
Confidence            4 555543        2245799999999996 5877754331     11357899999999873 23454444

>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=99.63  E-value=1.8e-16  Score=140.33  Aligned_cols=191  Identities=16%  Similarity=0.180  Sum_probs=115.4

Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      ....+|++|++++| .++......++.++++|++|++++|..-...+..          +..+++|++|++++|..++..
T Consensus        43 ~~~~~L~~LdLs~~-~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~----------l~~~~~L~~L~Ls~c~~itd~  111 (284)
T d2astb2          43 FSPFRVQHMDLSNS-VIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNT----------LAKNSNLVRLNLSGCSGFSEF  111 (284)
T ss_dssp             CCCBCCCEEECTTC-EECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHH----------HTTCTTCSEEECTTCBSCCHH
T ss_pred             ccCCCCCEEECCCC-ccCHHHHHHHHHhCCCcccccccccCCCcHHHHH----------HhcCCCCcCcccccccccccc
Confidence            34678999999988 4443223334788999999999998422111111          245789999999998877643


Q ss_pred             cCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecccccccccccCCCCcceEEecCC
Q 040122          155 CNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  234 (388)
                      ..... ...+++|++|++++|..++.......           +.                     ..+++|+.|++++|
T Consensus       112 ~l~~l-~~~~~~L~~L~ls~c~~~~~~~~~~~-----------~~---------------------~~~~~L~~L~l~~~  158 (284)
T d2astb2         112 ALQTL-LSSCSRLDELNLSWCFDFTEKHVQVA-----------VA---------------------HVSETITQLNLSGY  158 (284)
T ss_dssp             HHHHH-HHHCTTCCEEECCCCTTCCHHHHHHH-----------HH---------------------HSCTTCCEEECCSC
T ss_pred             ccchh-hHHHHhccccccccccccccccchhh-----------hc---------------------ccccccchhhhccc
Confidence            11111 34689999999999877654322110           11                     12345666666654


Q ss_pred             C-CcceecccCchhHhhhccccEEEEecCCCcc-cccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          235 H-KVQHLWKENDESNKAFANLERLEISECSKLQ-KLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       235 ~-~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~-~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      . .+++....  .....+++|++|++++|..++ ..+..+..+++|++|++++|..+++.....+ .++++|+.|++.+|
T Consensus       159 ~~~i~~~~l~--~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l~~L-~~~~~L~~L~l~~~  235 (284)
T d2astb2         159 RKNLQKSDLS--TLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLEL-GEIPTLKTLQVFGI  235 (284)
T ss_dssp             GGGSCHHHHH--HHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGG-GGCTTCCEEECTTS
T ss_pred             cccccccccc--ccccccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHHHHHH-hcCCCCCEEeeeCC
Confidence            2 22221110  112456677777777766554 2334456677888888888777766544333 46778888888776

>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=99.62  E-value=2.3e-15  Score=135.05  Aligned_cols=253  Identities=15%  Similarity=0.113  Sum_probs=121.5

Q ss_pred             CcceEEecCccccc---eeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccc
Q 040122           51 DINRLQLSHFPRLQ---EIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELS  127 (388)
Q Consensus        51 ~L~~L~l~~~~~l~---~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~  127 (388)
                      ++++|+++++. +.   .++...    +.+++|++|++++|+++....|.. ++++++|++|++++|......+..    
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~~~~~~~----  120 (313)
T d1ogqa_          51 RVNNLDLSGLN-LPKPYPIPSSL----ANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPDF----  120 (313)
T ss_dssp             CEEEEEEECCC-CSSCEECCGGG----GGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCGG----
T ss_pred             EEEEEECCCCC-CCCCCCCChHH----hcCccccccccccccccccccccc-cccccccchhhhcccccccccccc----
Confidence            46677776653 22   223333    567777777776654555333433 667777777777775322222211    


Q ss_pred             ccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceE
Q 040122          128 AKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENL  207 (388)
Q Consensus       128 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L  207 (388)
                            ...+.+|+.++++.+.....+  +.. +..+++++++++.++.....+                          
T Consensus       121 ------~~~~~~L~~l~l~~N~~~~~~--p~~-l~~l~~L~~l~l~~n~l~~~i--------------------------  165 (313)
T d1ogqa_         121 ------LSQIKTLVTLDFSYNALSGTL--PPS-ISSLPNLVGITFDGNRISGAI--------------------------  165 (313)
T ss_dssp             ------GGGCTTCCEEECCSSEEESCC--CGG-GGGCTTCCEEECCSSCCEEEC--------------------------
T ss_pred             ------ccchhhhcccccccccccccC--chh-hccCcccceeecccccccccc--------------------------
Confidence                  244666667766665433332  222 556666666666665322222                          


Q ss_pred             EEecccccccccccCCCCc-ceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          208 LVANQIQHLFDEKVAFPQL-GNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       208 ~l~~~~~~~~~~~~~~~~L-~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                               +..++.++++ +.+.+++ ..+.......+   ..+ ....+++..+.....++.....+++++.+++.++
T Consensus       166 ---------p~~~~~l~~l~~~l~~~~-n~l~~~~~~~~---~~l-~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~  231 (313)
T d1ogqa_         166 ---------PDSYGSFSKLFTSMTISR-NRLTGKIPPTF---ANL-NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKN  231 (313)
T ss_dssp             ---------CGGGGCCCTTCCEEECCS-SEEEEECCGGG---GGC-CCSEEECCSSEEEECCGGGCCTTSCCSEEECCSS
T ss_pred             ---------cccccccccccccccccc-ccccccccccc---ccc-cccccccccccccccccccccccccccccccccc
Confidence                     2222333333 3333333 23333222111   111 2234444444444444545555566666666554


Q ss_pred             cCcccccchhhhcCccccceeeEccccccchhhcccccccCCccccccccceEecccCCCcc-eecCCCccccCCCcceE
Q 040122          287 HELINVLTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLT-SFCLGNYALEFPSLKQV  365 (388)
Q Consensus       287 ~~l~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~-~~~~~~~~~~~~~L~~L  365 (388)
                      . +...+.  ....+++|+.|++++|.....+|.        ....+++|++|+++++. ++ .+|...   .+.+|+.+
T Consensus       232 ~-l~~~~~--~~~~~~~L~~L~Ls~N~l~g~iP~--------~l~~L~~L~~L~Ls~N~-l~g~iP~~~---~L~~L~~l  296 (313)
T d1ogqa_         232 S-LAFDLG--KVGLSKNLNGLDLRNNRIYGTLPQ--------GLTQLKFLHSLNVSFNN-LCGEIPQGG---NLQRFDVS  296 (313)
T ss_dssp             E-ECCBGG--GCCCCTTCCEEECCSSCCEECCCG--------GGGGCTTCCEEECCSSE-EEEECCCST---TGGGSCGG
T ss_pred             c-cccccc--ccccccccccccCccCeecccCCh--------HHhCCCCCCEEECcCCc-ccccCCCcc---cCCCCCHH
Confidence            2 222111  124455666666666543333333        22345666666666642 32 444321   14566666


Q ss_pred             EeccCCCccccc
Q 040122          366 VVRQCPKMKIFS  377 (388)
Q Consensus       366 ~l~~c~~l~~lp  377 (388)
                      ++.+++.+...|
T Consensus       297 ~l~~N~~l~g~p  308 (313)
T d1ogqa_         297 AYANNKCLCGSP  308 (313)
T ss_dssp             GTCSSSEEESTT
T ss_pred             HhCCCccccCCC
Confidence            666666555443

>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=99.61  E-value=9.7e-16  Score=137.54  Aligned_cols=248  Identities=15%  Similarity=0.038  Sum_probs=158.1

Q ss_pred             cceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccc-eeccccccCccccCCccEEEecCCCCCcccCChhhhhcC
Q 040122           25 GELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQ-EIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCL  103 (388)
Q Consensus        25 ~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~-~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l  103 (388)
                      ..+++..++++ .....+|..+..+++|++|+++++..+. .++...    +.+++|++|++++| .+...++.. +..+
T Consensus        52 v~~L~L~~~~l-~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i----~~L~~L~~L~Ls~N-~l~~~~~~~-~~~~  124 (313)
T d1ogqa_          52 VNNLDLSGLNL-PKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAI----AKLTQLHYLYITHT-NVSGAIPDF-LSQI  124 (313)
T ss_dssp             EEEEEEECCCC-SSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGG----GGCTTCSEEEEEEE-CCEEECCGG-GGGC
T ss_pred             EEEEECCCCCC-CCCCCCChHHhcCcccccccccccccccccccccc----ccccccchhhhccc-ccccccccc-ccch
Confidence            45566666322 1122477899999999999999876565 455444    77999999999998 566655544 8889


Q ss_pred             CCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCc-ceEeEecCCCccccc
Q 040122          104 NNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKL-EYLIIENCPDMETFT  182 (388)
Q Consensus       104 ~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L-~~L~l~~c~~l~~~~  182 (388)
                      .+|+++++++|.....+|..          +..+++++.++++++.....+  +.. .+.++++ +.+.+.++ +++...
T Consensus       125 ~~L~~l~l~~N~~~~~~p~~----------l~~l~~L~~l~l~~n~l~~~i--p~~-~~~l~~l~~~l~~~~n-~l~~~~  190 (313)
T d1ogqa_         125 KTLVTLDFSYNALSGTLPPS----------ISSLPNLVGITFDGNRISGAI--PDS-YGSFSKLFTSMTISRN-RLTGKI  190 (313)
T ss_dssp             TTCCEEECCSSEEESCCCGG----------GGGCTTCCEEECCSSCCEEEC--CGG-GGCCCTTCCEEECCSS-EEEEEC
T ss_pred             hhhcccccccccccccCchh----------hccCcccceeecccccccccc--ccc-cccccccccccccccc-cccccc
Confidence            99999999998666665543          467899999999987544344  223 5566665 66777664 565544


Q ss_pred             CCcceeeecccCCCccccccCCceEEEec--ccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEe
Q 040122          183 SNSTFVLHMTADNKEPQKLKSEENLLVAN--QIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEIS  260 (388)
Q Consensus       183 ~~~~~~~~l~~~~~~l~~l~~L~~L~l~~--~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~  260 (388)
                      +..            +..+.. ..+++..  .....+...+.+++++.+++.++. +...+...    ..+++|+.|+++
T Consensus       191 ~~~------------~~~l~~-~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~-l~~~~~~~----~~~~~L~~L~Ls  252 (313)
T d1ogqa_         191 PPT------------FANLNL-AFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNS-LAFDLGKV----GLSKNLNGLDLR  252 (313)
T ss_dssp             CGG------------GGGCCC-SEEECCSSEEEECCGGGCCTTSCCSEEECCSSE-ECCBGGGC----CCCTTCCEEECC
T ss_pred             ccc------------cccccc-ccccccccccccccccccccccccccccccccc-cccccccc----ccccccccccCc
Confidence            332            333322 2455444  333445555667777777777653 33222211    455677777777


Q ss_pred             cCCCcccccCCccccCCCCEEeeccCcCcc-cccchhhhcCccccceeeEcccccc
Q 040122          261 ECSKLQKLVPPSWHLENLEALKVSKCHELI-NVLTLSASKNLVNLGRMMIADCKMI  315 (388)
Q Consensus       261 ~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~-~~~~~~~~~~l~~L~~L~l~~~~~~  315 (388)
                      +|...+.+|..+..+++|++|+++++ +++ .+|.   ..++++|+.+++.+|+.+
T Consensus       253 ~N~l~g~iP~~l~~L~~L~~L~Ls~N-~l~g~iP~---~~~L~~L~~l~l~~N~~l  304 (313)
T d1ogqa_         253 NNRIYGTLPQGLTQLKFLHSLNVSFN-NLCGEIPQ---GGNLQRFDVSAYANNKCL  304 (313)
T ss_dssp             SSCCEECCCGGGGGCTTCCEEECCSS-EEEEECCC---STTGGGSCGGGTCSSSEE
T ss_pred             cCeecccCChHHhCCCCCCEEECcCC-cccccCCC---cccCCCCCHHHhCCCccc
Confidence            77665566767777777777777765 344 2221   145666666666666543

>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=99.56  E-value=1.3e-13  Score=121.54  Aligned_cols=205  Identities=18%  Similarity=0.163  Sum_probs=144.1

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .+++++|++++| +++.+++.. +.++++|++|+++++ .+..++...         ...+..++.+.+.....+..+  
T Consensus        31 p~~~~~L~Ls~N-~i~~i~~~~-f~~l~~L~~L~ls~n-~l~~i~~~~---------~~~~~~~~~l~~~~~~~~~~l--   96 (284)
T d1ozna_          31 PAASQRIFLHGN-RISHVPAAS-FRACRNLTILWLHSN-VLARIDAAA---------FTGLALLEQLDLSDNAQLRSV--   96 (284)
T ss_dssp             CTTCSEEECTTS-CCCEECTTT-TTTCTTCCEEECCSS-CCCEECTTT---------TTTCTTCCEEECCSCTTCCCC--
T ss_pred             CCCCCEEECcCC-cCCCCCHHH-hhccccccccccccc-ccccccccc---------ccccccccccccccccccccc--
Confidence            356788888887 677655433 778888888888874 455543321         345677777777666666665  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cccccc-ccccCCCCcceEEecCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLF-DEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~-~~~~~~~~L~~L~l~~~  234 (388)
                      ...++..+++|++|++.++ .+...+...            ...+++|+.+++.+ ....++ ..+..+++|++|++.++
T Consensus        97 ~~~~~~~l~~L~~L~l~~n-~~~~~~~~~------------~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N  163 (284)
T d1ozna_          97 DPATFHGLGRLHTLHLDRC-GLQELGPGL------------FRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGN  163 (284)
T ss_dssp             CTTTTTTCTTCCEEECTTS-CCCCCCTTT------------TTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             cchhhcccccCCEEecCCc-ccccccccc------------cchhcccchhhhccccccccChhHhccccchhhcccccC
Confidence            3333667888888888886 344443332            56677888888887 444443 34557788999999885


Q ss_pred             CCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccccc
Q 040122          235 HKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCKM  314 (388)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~~  314 (388)
                       .++.++...+   ..+++|+.+.++++......|..+..+++|++|+++++ .+..++.. ....+++|++|++++++.
T Consensus       164 -~l~~l~~~~f---~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N-~i~~~~~~-~~~~~~~L~~L~l~~N~l  237 (284)
T d1ozna_         164 -RISSVPERAF---RGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN-NLSALPTE-ALAPLRALQYLRLNDNPW  237 (284)
T ss_dssp             -CCCEECTTTT---TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCSCCCHH-HHTTCTTCCEEECCSSCE
T ss_pred             -cccccchhhh---ccccccchhhhhhccccccChhHhhhhhhccccccccc-cccccccc-ccccccccCEEEecCCCC
Confidence             6777776544   67789999999998766666778888999999999986 56665443 346789999999988753

>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=99.51  E-value=3.8e-13  Score=121.81  Aligned_cols=273  Identities=18%  Similarity=0.150  Sum_probs=154.7

Q ss_pred             CCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccccc
Q 040122           50 LDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAK  129 (388)
Q Consensus        50 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~  129 (388)
                      .++++|+++++. ++.++       ...++|++|++++| +++.+|.     .+.+|++|+++++ .+..+++.      
T Consensus        38 ~~l~~LdLs~~~-L~~lp-------~~~~~L~~L~Ls~N-~l~~lp~-----~~~~L~~L~l~~n-~l~~l~~l------   96 (353)
T d1jl5a_          38 RQAHELELNNLG-LSSLP-------ELPPHLESLVASCN-SLTELPE-----LPQSLKSLLVDNN-NLKALSDL------   96 (353)
T ss_dssp             HTCSEEECTTSC-CSCCC-------SCCTTCSEEECCSS-CCSSCCC-----CCTTCCEEECCSS-CCSCCCSC------
T ss_pred             cCCCEEEeCCCC-CCCCC-------CCCCCCCEEECCCC-CCccccc-----chhhhhhhhhhhc-ccchhhhh------
Confidence            578999999875 66443       23578999999977 7777543     3568999999985 45554322      


Q ss_pred             ccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeeccc------CCCccccccC
Q 040122          130 EEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTA------DNKEPQKLKS  203 (388)
Q Consensus       130 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~------~~~~l~~l~~  203 (388)
                             .+.|++|+++++ .+..++    ..+.+++|++|++.++ .+...+.....+..+..      ....++.++.
T Consensus        97 -------p~~L~~L~L~~n-~l~~lp----~~~~l~~L~~L~l~~~-~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~  163 (353)
T d1jl5a_          97 -------PPLLEYLGVSNN-QLEKLP----ELQNSSFLKIIDVDNN-SLKKLPDLPPSLEFIAAGNNQLEELPELQNLPF  163 (353)
T ss_dssp             -------CTTCCEEECCSS-CCSSCC----CCTTCTTCCEEECCSS-CCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTT
T ss_pred             -------cccccccccccc-cccccc----chhhhccceeeccccc-cccccccccccccchhhcccccccccccccccc
Confidence                   357999999876 456652    1557889999999886 34433332222211111      1124556666


Q ss_pred             CceEEEecc-cc-------------------cccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCC
Q 040122          204 EENLLVANQ-IQ-------------------HLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECS  263 (388)
Q Consensus       204 L~~L~l~~~-~~-------------------~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~  263 (388)
                      ++.+.+... ..                   ........++.|+.++++++. ...++       ....++..+.+.++.
T Consensus       164 l~~L~l~~n~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~l~l~~n~-~~~~~-------~~~~~l~~~~~~~~~  235 (353)
T d1jl5a_         164 LTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNL-LKTLP-------DLPPSLEALNVRDNY  235 (353)
T ss_dssp             CCEEECCSSCCSSCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSC-CSSCC-------SCCTTCCEEECCSSC
T ss_pred             ceeccccccccccccccccccccccccccccccccccccccccccccccccc-ccccc-------ccccccccccccccc
Confidence            666666541 10                   111222344555555555432 22222       112334444444332


Q ss_pred             CcccccCCccccCCCCEEeeccC--cCcccc------------cchhhhcCccccceeeEccccccchhhcccccccCCc
Q 040122          264 KLQKLVPPSWHLENLEALKVSKC--HELINV------------LTLSASKNLVNLGRMMIADCKMIEQIIQLQVGEEAKD  329 (388)
Q Consensus       264 ~~~~~~~~~~~~~~L~~L~l~~c--~~l~~~------------~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~  329 (388)
                      ... .+   .....+...++...  ..+..+            ........+++|++|++++|. +..++.         
T Consensus       236 ~~~-~~---~~~~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N~-l~~lp~---------  301 (353)
T d1jl5a_         236 LTD-LP---ELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNK-LIELPA---------  301 (353)
T ss_dssp             CSC-CC---CCCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSSC-CSCCCC---------
T ss_pred             ccc-cc---cccccccccccccccccccccccchhcccccccCccccccccCCCCCEEECCCCc-cCcccc---------
Confidence            111 11   01122222222210  011111            001112345789999999884 455543         


Q ss_pred             cccccccceEecccCCCcceecCCCccccCCCcceEEeccCCCcccccCCCCCCCCCC
Q 040122          330 CNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVRQCPKMKIFSQGLLDTPMLN  387 (388)
Q Consensus       330 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~L~  387 (388)
                        .+++|++|+++++ .+++++..     +++|++|++++|+ ++.+|....++..|+
T Consensus       302 --~~~~L~~L~L~~N-~L~~l~~~-----~~~L~~L~L~~N~-L~~lp~~~~~L~~L~  350 (353)
T d1jl5a_         302 --LPPRLERLIASFN-HLAEVPEL-----PQNLKQLHVEYNP-LREFPDIPESVEDLR  350 (353)
T ss_dssp             --CCTTCCEEECCSS-CCSCCCCC-----CTTCCEEECCSSC-CSSCCCCCTTCCEEE
T ss_pred             --ccCCCCEEECCCC-cCCccccc-----cCCCCEEECcCCc-CCCCCccccccCeeE
Confidence              3589999999886 57777642     4799999999987 899997666666554

>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=99.49  E-value=1.8e-15  Score=133.75  Aligned_cols=207  Identities=15%  Similarity=0.110  Sum_probs=124.1

Q ss_pred             CCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccc
Q 040122           48 GFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELS  127 (388)
Q Consensus        48 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~  127 (388)
                      ...+|++|++++|. +.......  ....+++|++|++.+| .+++.... .+.++++|++|++++|..++... ..   
T Consensus        44 ~~~~L~~LdLs~~~-i~~~~l~~--l~~~c~~L~~L~L~~~-~l~~~~~~-~l~~~~~L~~L~Ls~c~~itd~~-l~---  114 (284)
T d2astb2          44 SPFRVQHMDLSNSV-IEVSTLHG--ILSQCSKLQNLSLEGL-RLSDPIVN-TLAKNSNLVRLNLSGCSGFSEFA-LQ---  114 (284)
T ss_dssp             CCBCCCEEECTTCE-ECHHHHHH--HHTTBCCCSEEECTTC-BCCHHHHH-HHTTCTTCSEEECTTCBSCCHHH-HH---
T ss_pred             cCCCCCEEECCCCc-cCHHHHHH--HHHhCCCccccccccc-CCCcHHHH-HHhcCCCCcCccccccccccccc-cc---
Confidence            44689999999875 44222111  1256899999999999 45542222 37789999999999997765311 00   


Q ss_pred             ccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCC-CcccccCCcceeeecccCCCccccccCCce
Q 040122          128 AKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCP-DMETFTSNSTFVLHMTADNKEPQKLKSEEN  206 (388)
Q Consensus       128 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~-~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~  206 (388)
                          .+...+++|++|++++|..+.+..........+++|+.|++.+|. .++.......                    
T Consensus       115 ----~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l--------------------  170 (284)
T d2astb2         115 ----TLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTL--------------------  170 (284)
T ss_dssp             ----HHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHH--------------------
T ss_pred             ----hhhHHHHhccccccccccccccccchhhhcccccccchhhhccccccccccccccc--------------------
Confidence                013468999999999987765431111101246899999999873 2332221111                    


Q ss_pred             EEEecccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCccc-ccCCccccCCCCEEeecc
Q 040122          207 LLVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQK-LVPPSWHLENLEALKVSK  285 (388)
Q Consensus       207 L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~-~~~~~~~~~~L~~L~l~~  285 (388)
                                   ...+|+|++|++++|..+++....   ....+++|++|++++|..+.. ....+..+++|+.|++.+
T Consensus       171 -------------~~~~~~L~~L~L~~~~~itd~~~~---~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~  234 (284)
T d2astb2         171 -------------VRRCPNLVHLDLSDSVMLKNDCFQ---EFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFG  234 (284)
T ss_dssp             -------------HHHCTTCSEEECTTCTTCCGGGGG---GGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTT
T ss_pred             -------------ccccccccccccccccCCCchhhh---hhcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeC
Confidence                         123566666666666655543222   124566777777777665532 233456678888888888


Q ss_pred             CcCcccccchhhhcCccccc
Q 040122          286 CHELINVLTLSASKNLVNLG  305 (388)
Q Consensus       286 c~~l~~~~~~~~~~~l~~L~  305 (388)
                      |  +.+-....+...+|+|+
T Consensus       235 ~--~~d~~l~~l~~~lp~L~  252 (284)
T d2astb2         235 I--VPDGTLQLLKEALPHLQ  252 (284)
T ss_dssp             S--SCTTCHHHHHHHSTTSE
T ss_pred             C--CCHHHHHHHHHhCcccc
Confidence            7  33333333444555554

>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=99.49  E-value=7.3e-13  Score=115.57  Aligned_cols=173  Identities=17%  Similarity=0.116  Sum_probs=91.4

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCC
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNF  157 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  157 (388)
                      +++++|+|++| .++.+++. .+.++++|++|++++| .++.++..           ..+++|+.|+++++. +...  +
T Consensus        31 ~~l~~L~Ls~N-~i~~l~~~-~f~~l~~L~~L~L~~N-~l~~l~~~-----------~~l~~L~~L~Ls~N~-l~~~--~   93 (266)
T d1p9ag_          31 KDTTILHLSEN-LLYTFSLA-TLMPYTRLTQLNLDRA-ELTKLQVD-----------GTLPVLGTLDLSHNQ-LQSL--P   93 (266)
T ss_dssp             TTCCEEECTTS-CCSEEEGG-GGTTCTTCCEEECTTS-CCCEEECC-----------SCCTTCCEEECCSSC-CSSC--C
T ss_pred             cCCCEEECcCC-cCCCcCHH-Hhhccccccccccccc-cccccccc-----------ccccccccccccccc-cccc--c
Confidence            45666666666 45553332 2566666777777664 44554332           346666666666552 3333  1


Q ss_pred             CCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cccccc-ccccCCCCcceEEecCCC
Q 040122          158 TGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQHLF-DEKVAFPQLGNLRLSGLH  235 (388)
Q Consensus       158 ~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~~~-~~~~~~~~L~~L~l~~~~  235 (388)
                      .. ...+++|++|+++++. +..++...            ...+++++.|++.+ ....++ .....+++++.++++++ 
T Consensus        94 ~~-~~~l~~L~~L~l~~~~-~~~~~~~~------------~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N-  158 (266)
T d1p9ag_          94 LL-GQTLPALTVLDVSFNR-LTSLPLGA------------LRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANN-  158 (266)
T ss_dssp             CC-TTTCTTCCEEECCSSC-CCCCCSST------------TTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS-
T ss_pred             cc-cccccccccccccccc-cceeeccc------------cccccccccccccccccceeccccccccccchhcccccc-
Confidence            11 4456667777666652 33333221            34455555555554 222222 12234556666666663 


Q ss_pred             CcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccC
Q 040122          236 KVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKC  286 (388)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c  286 (388)
                      +++.++...+   ..+++|++|+++++. ++.+|..+..+++|+.|++++.
T Consensus       159 ~l~~~~~~~~---~~l~~L~~L~Ls~N~-L~~lp~~~~~~~~L~~L~L~~N  205 (266)
T d1p9ag_         159 NLTELPAGLL---NGLENLDTLLLQENS-LYTIPKGFFGSHLLPFAFLHGN  205 (266)
T ss_dssp             CCSCCCTTTT---TTCTTCCEEECCSSC-CCCCCTTTTTTCCCSEEECCSC
T ss_pred             cccccCcccc---ccccccceeecccCC-CcccChhHCCCCCCCEEEecCC
Confidence            4555544332   445666666666654 4466666666666666666654

>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=99.48  E-value=4.3e-13  Score=114.18  Aligned_cols=80  Identities=18%  Similarity=0.250  Sum_probs=52.4

Q ss_pred             ccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCccccccc
Q 040122           76 FFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFC  155 (388)
Q Consensus        76 ~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  155 (388)
                      .+.+|++|++.+| +++++.+   +.++++|++|++++|. +..+.+           +..++++++++++++. ++.+ 
T Consensus        39 ~l~~L~~L~l~~~-~i~~l~~---l~~l~~L~~L~ls~n~-i~~~~~-----------l~~l~~l~~l~~~~n~-~~~i-  100 (227)
T d1h6ua2          39 DLDGITTLSAFGT-GVTTIEG---VQYLNNLIGLELKDNQ-ITDLAP-----------LKNLTKITELELSGNP-LKNV-  100 (227)
T ss_dssp             HHHTCCEEECTTS-CCCCCTT---GGGCTTCCEEECCSSC-CCCCGG-----------GTTCCSCCEEECCSCC-CSCC-
T ss_pred             HcCCcCEEECCCC-CCCcchh---HhcCCCCcEeecCCce-eecccc-----------cccccccccccccccc-cccc-
Confidence            4778888888877 5666432   6778888888888753 444332           2557778888877653 3443 


Q ss_pred             CCCCccccCCCcceEeEecCC
Q 040122          156 NFTGNIIELPKLEYLIIENCP  176 (388)
Q Consensus       156 ~~~~~~~~l~~L~~L~l~~c~  176 (388)
                         ..+..+++|+.+.+.+|.
T Consensus       101 ---~~l~~l~~L~~l~l~~~~  118 (227)
T d1h6ua2         101 ---SAIAGLQSIKTLDLTSTQ  118 (227)
T ss_dssp             ---GGGTTCTTCCEEECTTSC
T ss_pred             ---cccccccccccccccccc
Confidence               125567788888777764

>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=99.47  E-value=4.3e-13  Score=114.17  Aligned_cols=187  Identities=19%  Similarity=0.262  Sum_probs=116.4

Q ss_pred             CCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceeccccccc
Q 040122           48 GFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELS  127 (388)
Q Consensus        48 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~  127 (388)
                      .+.+|++|.+.++. ++.+ .+.    ..+++|++|++++| .+....+   +.++++|+++++++| .++.++..    
T Consensus        39 ~l~~L~~L~l~~~~-i~~l-~~l----~~l~~L~~L~ls~n-~i~~~~~---l~~l~~l~~l~~~~n-~~~~i~~l----  103 (227)
T d1h6ua2          39 DLDGITTLSAFGTG-VTTI-EGV----QYLNNLIGLELKDN-QITDLAP---LKNLTKITELELSGN-PLKNVSAI----  103 (227)
T ss_dssp             HHHTCCEEECTTSC-CCCC-TTG----GGCTTCCEEECCSS-CCCCCGG---GTTCCSCCEEECCSC-CCSCCGGG----
T ss_pred             HcCCcCEEECCCCC-CCcc-hhH----hcCCCCcEeecCCc-eeecccc---ccccccccccccccc-cccccccc----
Confidence            35789999999886 6654 233    67999999999998 5666444   799999999999986 34455432    


Q ss_pred             ccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceE
Q 040122          128 AKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENL  207 (388)
Q Consensus       128 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L  207 (388)
                             ..+++|+.+.++++.. ...    ......+.++.+.+.++. +.....              +..+++|+.|
T Consensus       104 -------~~l~~L~~l~l~~~~~-~~~----~~~~~~~~~~~l~~~~~~-~~~~~~--------------~~~~~~L~~L  156 (227)
T d1h6ua2         104 -------AGLQSIKTLDLTSTQI-TDV----TPLAGLSNLQVLYLDLNQ-ITNISP--------------LAGLTNLQYL  156 (227)
T ss_dssp             -------TTCTTCCEEECTTSCC-CCC----GGGTTCTTCCEEECCSSC-CCCCGG--------------GGGCTTCCEE
T ss_pred             -------cccccccccccccccc-ccc----chhccccchhhhhchhhh-hchhhh--------------hccccccccc
Confidence                   5689999999988743 222    114467788888887763 322211              3344444444


Q ss_pred             EEecccccccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCc
Q 040122          208 LVANQIQHLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCH  287 (388)
Q Consensus       208 ~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~  287 (388)
                                            .+.++ .+.....     .+.+++|++|++++| .+..++ .+..+++|++|++++| 
T Consensus       157 ----------------------~l~~n-~~~~~~~-----l~~l~~L~~L~Ls~n-~l~~l~-~l~~l~~L~~L~Ls~N-  205 (227)
T d1h6ua2         157 ----------------------SIGNA-QVSDLTP-----LANLSKLTTLKADDN-KISDIS-PLASLPNLIEVHLKNN-  205 (227)
T ss_dssp             ----------------------ECCSS-CCCCCGG-----GTTCTTCCEEECCSS-CCCCCG-GGGGCTTCCEEECTTS-
T ss_pred             ----------------------ccccc-ccccchh-----hcccccceecccCCC-ccCCCh-hhcCCCCCCEEECcCC-
Confidence                                  44443 1222111     144555666666555 233333 2556667777777766 


Q ss_pred             CcccccchhhhcCccccceeeEc
Q 040122          288 ELINVLTLSASKNLVNLGRMMIA  310 (388)
Q Consensus       288 ~l~~~~~~~~~~~l~~L~~L~l~  310 (388)
                      ++++++.   .+++++|+.|+++
T Consensus       206 ~lt~i~~---l~~l~~L~~L~ls  225 (227)
T d1h6ua2         206 QISDVSP---LANTSNLFIVTLT  225 (227)
T ss_dssp             CCCBCGG---GTTCTTCCEEEEE
T ss_pred             cCCCCcc---cccCCCCCEEEee
Confidence            4655532   2566777777765

>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=99.46  E-value=1.1e-12  Score=114.48  Aligned_cols=196  Identities=18%  Similarity=0.116  Sum_probs=139.8

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      ...+.+++.+++ +++.+|+ . +.  +++++|+++++ .+..++...         +..+++|++|+++++ .++.+..
T Consensus         9 ~~~~~~v~C~~~-~L~~iP~-~-lp--~~l~~L~Ls~N-~i~~l~~~~---------f~~l~~L~~L~L~~N-~l~~l~~   72 (266)
T d1p9ag_           9 VASHLEVNCDKR-NLTALPP-D-LP--KDTTILHLSEN-LLYTFSLAT---------LMPYTRLTQLNLDRA-ELTKLQV   72 (266)
T ss_dssp             STTCCEEECTTS-CCSSCCS-C-CC--TTCCEEECTTS-CCSEEEGGG---------GTTCTTCCEEECTTS-CCCEEEC
T ss_pred             cCCCeEEEccCC-CCCeeCc-C-cC--cCCCEEECcCC-cCCCcCHHH---------hhccccccccccccc-ccccccc
Confidence            445556676665 6777543 2 21  57999999995 566665421         466899999999987 5666621


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec-cccc-ccccccCCCCcceEEecCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN-QIQH-LFDEKVAFPQLGNLRLSGL  234 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~-~~~~-~~~~~~~~~~L~~L~l~~~  234 (388)
                          .+.+++|++|+++++ .++..+..             +..+++|+.|++++ .... .......+++++.|.+.++
T Consensus        73 ----~~~l~~L~~L~Ls~N-~l~~~~~~-------------~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n  134 (266)
T d1p9ag_          73 ----DGTLPVLGTLDLSHN-QLQSLPLL-------------GQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGN  134 (266)
T ss_dssp             ----CSCCTTCCEEECCSS-CCSSCCCC-------------TTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTS
T ss_pred             ----ccccccccccccccc-cccccccc-------------cccccccccccccccccceeecccccccccccccccccc
Confidence                457999999999997 56655543             67889999999988 2222 3344556789999999874


Q ss_pred             CCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEcccc
Q 040122          235 HKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       235 ~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~~  313 (388)
                       .++.++...+   ..+++|+.++++++......+..+..+++|++|+++++ +++.++...  ..+++|+.|++++++
T Consensus       135 -~l~~l~~~~~---~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N-~L~~lp~~~--~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         135 -ELKTLPPGLL---TPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQEN-SLYTIPKGF--FGSHLLPFAFLHGNP  206 (266)
T ss_dssp             -CCCCCCTTTT---TTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSS-CCCCCCTTT--TTTCCCSEEECCSCC
T ss_pred             -ccceeccccc---cccccchhcccccccccccCccccccccccceeecccC-CCcccChhH--CCCCCCCEEEecCCC
Confidence             5666665433   56788999999998544333445678899999999986 577765432  467889999998875

>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=99.40  E-value=7.6e-12  Score=107.22  Aligned_cols=91  Identities=20%  Similarity=0.249  Sum_probs=52.3

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .+++++|+++++ .++.+++. .+.++++|++|++++|.....++...         +..+++++++.+..+..+..+  
T Consensus        28 ~~~l~~L~Ls~n-~i~~l~~~-~f~~l~~L~~L~ls~n~~~~~i~~~~---------f~~l~~l~~l~~~~~n~l~~~--   94 (242)
T d1xwdc1          28 PRNAIELRFVLT-KLRVIQKG-AFSGFGDLEKIEISQNDVLEVIEADV---------FSNLPKLHEIRIEKANNLLYI--   94 (242)
T ss_dssp             CSCCSEEEEESC-CCCEECTT-TTTTCTTCCEEEEESCTTCCEECSSS---------EESCTTCCEEEEECCTTCCEE--
T ss_pred             CCCCCEEECcCC-cCCccChh-Hhhccchhhhhhhccccccceeeccc---------ccccccccccccccccccccc--
Confidence            356777777776 56554432 36677777777777765444442211         234666677766655555544  


Q ss_pred             CCCccccCCCcceEeEecCCCcccc
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                      ....+..+++|+++++.++ .+...
T Consensus        95 ~~~~~~~l~~L~~l~l~~~-~l~~~  118 (242)
T d1xwdc1          95 NPEAFQNLPNLQYLLISNT-GIKHL  118 (242)
T ss_dssp             CTTSEECCTTCCEEEEESC-CCCSC
T ss_pred             ccccccccccccccccchh-hhccc
Confidence            2233556777777777775 34433

>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=99.40  E-value=1.3e-11  Score=105.67  Aligned_cols=199  Identities=14%  Similarity=0.080  Sum_probs=114.7

Q ss_pred             cEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCc
Q 040122           81 AELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGN  160 (388)
Q Consensus        81 ~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  160 (388)
                      ++++.++. +++.+|+ . +  .+++++|+++++ .+..++...         +..+++|++|+++++.....+  +...
T Consensus        11 ~~i~c~~~-~l~~iP~-~-l--~~~l~~L~Ls~n-~i~~l~~~~---------f~~l~~L~~L~ls~n~~~~~i--~~~~   73 (242)
T d1xwdc1          11 RVFLCQES-KVTEIPS-D-L--PRNAIELRFVLT-KLRVIQKGA---------FSGFGDLEKIEISQNDVLEVI--EADV   73 (242)
T ss_dssp             SEEEEESC-SCSSCCS-C-S--CSCCSEEEEESC-CCCEECTTT---------TTTCTTCCEEEEESCTTCCEE--CSSS
T ss_pred             CEEEEeCC-CCCCcCC-C-C--CCCCCEEECcCC-cCCccChhH---------hhccchhhhhhhcccccccee--eccc
Confidence            57777765 5776443 2 2  258999999995 577775531         356899999999987655544  3333


Q ss_pred             cccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecccccccccccCCCCcceEEec--CCCCcc
Q 040122          161 IIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLS--GLHKVQ  238 (388)
Q Consensus       161 ~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~--~~~~l~  238 (388)
                      +..+++++++.+..+..+...+...            +.++++|+.+++.++.-........+.+++.+...  ....+.
T Consensus        74 f~~l~~l~~l~~~~~n~l~~~~~~~------------~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~  141 (242)
T d1xwdc1          74 FSNLPKLHEIRIEKANNLLYINPEA------------FQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIH  141 (242)
T ss_dssp             EESCTTCCEEEEECCTTCCEECTTS------------EECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCC
T ss_pred             ccccccccccccccccccccccccc------------ccccccccccccchhhhcccccccccccccccccccccccccc
Confidence            6678999999998887887777653            67788888888887221112222333344444321  223455


Q ss_pred             eecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEccc
Q 040122          239 HLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIADC  312 (388)
Q Consensus       239 ~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~~~  312 (388)
                      .++...+.  .....++.+++.++ .+..++......++++.+....+..++.++... ..++++|++|+++++
T Consensus       142 ~i~~~~~~--~~~~~l~~L~l~~n-~l~~i~~~~~~~~~l~~~~~l~~n~l~~l~~~~-f~~l~~L~~L~Ls~N  211 (242)
T d1xwdc1         142 TIERNSFV--GLSFESVILWLNKN-GIQEIHNCAFNGTQLDELNLSDNNNLEELPNDV-FHGASGPVILDISRT  211 (242)
T ss_dssp             EECTTSST--TSBSSCEEEECCSS-CCCEECTTTTTTCCEEEEECTTCTTCCCCCTTT-TTTSCCCSEEECTTS
T ss_pred             cccccccc--cccccceeeecccc-cccccccccccchhhhccccccccccccccHHH-hcCCCCCCEEECCCC
Confidence            55443321  22235555665553 233444444444455555444444555543322 244566666666554

>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=99.39  E-value=5.3e-12  Score=111.05  Aligned_cols=212  Identities=17%  Similarity=0.127  Sum_probs=156.4

Q ss_pred             HHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccc
Q 040122           39 IQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLE  118 (388)
Q Consensus        39 ~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~  118 (388)
                      ++.+|..+  .+++++|+++++. ++.++...   ...+++|++|+++++ .+..+.+. .+..+..++++++..+..+.
T Consensus        23 L~~iP~~i--p~~~~~L~Ls~N~-i~~i~~~~---f~~l~~L~~L~ls~n-~l~~i~~~-~~~~~~~~~~l~~~~~~~~~   94 (284)
T d1ozna_          23 LQAVPVGI--PAASQRIFLHGNR-ISHVPAAS---FRACRNLTILWLHSN-VLARIDAA-AFTGLALLEQLDLSDNAQLR   94 (284)
T ss_dssp             CSSCCTTC--CTTCSEEECTTSC-CCEECTTT---TTTCTTCCEEECCSS-CCCEECTT-TTTTCTTCCEEECCSCTTCC
T ss_pred             CCccCCCC--CCCCCEEECcCCc-CCCCCHHH---hhccccccccccccc-cccccccc-cccccccccccccccccccc
Confidence            34555544  3679999999875 87666543   256899999999988 67764443 37788999999988777777


Q ss_pred             eecccccccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCcc
Q 040122          119 EVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEP  198 (388)
Q Consensus       119 ~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l  198 (388)
                      .++...         +..+++|++|++.++.. ..+  ........++|+.+++.++ .++.++...            +
T Consensus        95 ~l~~~~---------~~~l~~L~~L~l~~n~~-~~~--~~~~~~~~~~L~~l~l~~N-~l~~i~~~~------------f  149 (284)
T d1ozna_          95 SVDPAT---------FHGLGRLHTLHLDRCGL-QEL--GPGLFRGLAALQYLYLQDN-ALQALPDDT------------F  149 (284)
T ss_dssp             CCCTTT---------TTTCTTCCEEECTTSCC-CCC--CTTTTTTCTTCCEEECCSS-CCCCCCTTT------------T
T ss_pred             cccchh---------hcccccCCEEecCCccc-ccc--cccccchhcccchhhhccc-cccccChhH------------h
Confidence            664321         46789999999988743 333  2222567889999999996 677776553            6


Q ss_pred             ccccCCceEEEec-ccccc-cccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccC
Q 040122          199 QKLKSEENLLVAN-QIQHL-FDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLE  276 (388)
Q Consensus       199 ~~l~~L~~L~l~~-~~~~~-~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~  276 (388)
                      ..+++|+.|++++ ....+ +..+..+++|+.+++.++ .+..+.+..+   ..+++|++|+++++......+..+..++
T Consensus       150 ~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N-~l~~i~~~~f---~~l~~L~~L~l~~N~i~~~~~~~~~~~~  225 (284)
T d1ozna_         150 RDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQN-RVAHVHPHAF---RDLGRLMTLYLFANNLSALPTEALAPLR  225 (284)
T ss_dssp             TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTT---TTCTTCCEEECCSSCCSCCCHHHHTTCT
T ss_pred             ccccchhhcccccCcccccchhhhccccccchhhhhhc-cccccChhHh---hhhhhccccccccccccccccccccccc
Confidence            7889999999998 44444 345567899999999985 4666655444   7788999999999876655555677889


Q ss_pred             CCCEEeeccCc
Q 040122          277 NLEALKVSKCH  287 (388)
Q Consensus       277 ~L~~L~l~~c~  287 (388)
                      +|++|++++.+
T Consensus       226 ~L~~L~l~~N~  236 (284)
T d1ozna_         226 ALQYLRLNDNP  236 (284)
T ss_dssp             TCCEEECCSSC
T ss_pred             ccCEEEecCCC
Confidence            99999999853

>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=99.38  E-value=2.5e-12  Score=107.89  Aligned_cols=165  Identities=22%  Similarity=0.312  Sum_probs=90.3

Q ss_pred             ccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCccccccc
Q 040122           76 FFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFC  155 (388)
Q Consensus        76 ~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  155 (388)
                      .+.+|++|++++| .++.+.+   +..+++|++|++++| .+..+++.           ..+++|++|+++++ .++.+.
T Consensus        44 ~L~~L~~L~l~~~-~i~~l~~---l~~l~~L~~L~L~~n-~i~~l~~~-----------~~l~~L~~L~l~~n-~i~~l~  106 (210)
T d1h6ta2          44 ELNSIDQIIANNS-DIKSVQG---IQYLPNVTKLFLNGN-KLTDIKPL-----------ANLKNLGWLFLDEN-KVKDLS  106 (210)
T ss_dssp             HHHTCCEEECTTS-CCCCCTT---GGGCTTCCEEECCSS-CCCCCGGG-----------TTCTTCCEEECCSS-CCCCGG
T ss_pred             HhcCccEEECcCC-CCCCchh---HhhCCCCCEEeCCCc-cccCcccc-----------ccCccccccccccc-cccccc
Confidence            3567777777766 5555433   566777777777775 34444332           44667777777665 344441


Q ss_pred             CCCCccccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecccccccccccCCCCcceEEecCCC
Q 040122          156 NFTGNIIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQIQHLFDEKVAFPQLGNLRLSGLH  235 (388)
Q Consensus       156 ~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~  235 (388)
                          .+..+++|+.|++.+|. +..++                                    .+..+++++.++++++ 
T Consensus       107 ----~l~~l~~L~~L~l~~~~-~~~~~------------------------------------~l~~l~~l~~l~~~~n-  144 (210)
T d1h6ta2         107 ----SLKDLKKLKSLSLEHNG-ISDIN------------------------------------GLVHLPQLESLYLGNN-  144 (210)
T ss_dssp             ----GGTTCTTCCEEECTTSC-CCCCG------------------------------------GGGGCTTCCEEECCSS-
T ss_pred             ----ccccccccccccccccc-ccccc------------------------------------cccccccccccccccc-
Confidence                14556677777776653 22221                                    1223344555555442 


Q ss_pred             CcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhcCccccceeeEc
Q 040122          236 KVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLGRMMIA  310 (388)
Q Consensus       236 ~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~~L~l~  310 (388)
                      .+.+....     ..+++|++++++++. +..++ .+..+++|+.|+++++ .+++++.   ..++++|++|+++
T Consensus       145 ~l~~~~~~-----~~l~~L~~l~l~~n~-l~~i~-~l~~l~~L~~L~Ls~N-~i~~l~~---l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         145 KITDITVL-----SRLTKLDTLSLEDNQ-ISDIV-PLAGLTKLQNLYLSKN-HISDLRA---LAGLKNLDVLELF  208 (210)
T ss_dssp             CCCCCGGG-----GGCTTCSEEECCSSC-CCCCG-GGTTCTTCCEEECCSS-CCCBCGG---GTTCTTCSEEEEE
T ss_pred             cccccccc-----ccccccccccccccc-ccccc-cccCCCCCCEEECCCC-CCCCChh---hcCCCCCCEEEcc
Confidence            23322211     445566666666653 23332 3556677777777765 4555431   2566777777765

>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=99.35  E-value=6.2e-12  Score=104.53  Aligned_cols=78  Identities=19%  Similarity=0.266  Sum_probs=42.7

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      ++++++|++.+| .++++..   +..+++|++|++++| .+..+++.           ..+++|++|+++++. ...+  
T Consensus        39 l~~l~~L~l~~~-~i~~l~~---l~~l~nL~~L~Ls~N-~l~~~~~l-----------~~l~~L~~L~l~~n~-~~~~--   99 (199)
T d2omxa2          39 LDQVTTLQADRL-GIKSIDG---VEYLNNLTQINFSNN-QLTDITPL-----------KNLTKLVDILMNNNQ-IADI--   99 (199)
T ss_dssp             HTTCCEEECTTS-CCCCCTT---GGGCTTCCEEECCSS-CCCCCGGG-----------TTCTTCCEEECCSSC-CCCC--
T ss_pred             hcCCCEEECCCC-CCCCccc---cccCCCcCcCccccc-cccCcccc-----------cCCcccccccccccc-cccc--
Confidence            566666666666 4544322   556666666666664 34443322           446666666666543 2222  


Q ss_pred             CCCccccCCCcceEeEecC
Q 040122          157 FTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c  175 (388)
                        ..+..+++|+.|++.+|
T Consensus       100 --~~l~~l~~L~~L~l~~~  116 (199)
T d2omxa2         100 --TPLANLTNLTGLTLFNN  116 (199)
T ss_dssp             --GGGTTCTTCSEEECCSS
T ss_pred             --ccccccccccccccccc
Confidence              11445666666666665

>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=99.33  E-value=1e-11  Score=103.13  Aligned_cols=105  Identities=17%  Similarity=0.302  Sum_probs=78.0

Q ss_pred             CCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccc
Q 040122           49 FLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSA  128 (388)
Q Consensus        49 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~  128 (388)
                      ++++++|+++++. +..+. +.    ..+++|++|++++| .+++.++   ++++++|++|++++|. +..++.      
T Consensus        39 l~~l~~L~l~~~~-i~~l~-~l----~~l~nL~~L~Ls~N-~l~~~~~---l~~l~~L~~L~l~~n~-~~~~~~------  101 (199)
T d2omxa2          39 LDQVTTLQADRLG-IKSID-GV----EYLNNLTQINFSNN-QLTDITP---LKNLTKLVDILMNNNQ-IADITP------  101 (199)
T ss_dssp             HTTCCEEECTTSC-CCCCT-TG----GGCTTCCEEECCSS-CCCCCGG---GTTCTTCCEEECCSSC-CCCCGG------
T ss_pred             hcCCCEEECCCCC-CCCcc-cc----ccCCCcCcCccccc-cccCccc---ccCCcccccccccccc-cccccc------
Confidence            5789999999876 66432 23    57999999999998 6777554   7899999999999864 444443      


Q ss_pred             cccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccc
Q 040122          129 KEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       129 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                           ...+++|+.|+++++... .+    ..+..+++|+.|+++++ .+..+
T Consensus       102 -----l~~l~~L~~L~l~~~~~~-~~----~~~~~l~~L~~L~l~~n-~l~~~  143 (199)
T d2omxa2         102 -----LANLTNLTGLTLFNNQIT-DI----DPLKNLTNLNRLELSSN-TISDI  143 (199)
T ss_dssp             -----GTTCTTCSEEECCSSCCC-CC----GGGTTCTTCSEEECCSS-CCCCC
T ss_pred             -----cccccccccccccccccc-cc----cccchhhhhHHhhhhhh-hhccc
Confidence                 256899999999887543 22    11567899999999987 34433

>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=99.32  E-value=7.7e-11  Score=106.22  Aligned_cols=274  Identities=20%  Similarity=0.180  Sum_probs=146.2

Q ss_pred             cceeeecCCCCchhHHHHhhhccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCC
Q 040122           25 GELHHWEGNNLNSTIQKCYDEKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLN  104 (388)
Q Consensus        25 ~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~  104 (388)
                      +.+++..++    .+..+|+.   .++|++|+++++ +++.++       ..+.+|+.|++.++ .++.+..   +  .+
T Consensus        40 l~~LdLs~~----~L~~lp~~---~~~L~~L~Ls~N-~l~~lp-------~~~~~L~~L~l~~n-~l~~l~~---l--p~   98 (353)
T d1jl5a_          40 AHELELNNL----GLSSLPEL---PPHLESLVASCN-SLTELP-------ELPQSLKSLLVDNN-NLKALSD---L--PP   98 (353)
T ss_dssp             CSEEECTTS----CCSCCCSC---CTTCSEEECCSS-CCSSCC-------CCCTTCCEEECCSS-CCSCCCS---C--CT
T ss_pred             CCEEEeCCC----CCCCCCCC---CCCCCEEECCCC-CCcccc-------cchhhhhhhhhhhc-ccchhhh---h--cc
Confidence            456666652    23344432   467888888755 466433       23567888888876 4554221   1  14


Q ss_pred             CCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC----------------CCCccccCCCcc
Q 040122          105 NLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN----------------FTGNIIELPKLE  168 (388)
Q Consensus       105 ~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~----------------~~~~~~~l~~L~  168 (388)
                      +|++|++++| .+..++..           ..+++|+.|++.++.. .....                ....+..++.++
T Consensus        99 ~L~~L~L~~n-~l~~lp~~-----------~~l~~L~~L~l~~~~~-~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~  165 (353)
T d1jl5a_          99 LLEYLGVSNN-QLEKLPEL-----------QNSSFLKIIDVDNNSL-KKLPDLPPSLEFIAAGNNQLEELPELQNLPFLT  165 (353)
T ss_dssp             TCCEEECCSS-CCSSCCCC-----------TTCTTCCEEECCSSCC-SCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCC
T ss_pred             cccccccccc-ccccccch-----------hhhccceeeccccccc-cccccccccccchhhccccccccccccccccce
Confidence            5888888875 45555442           4467777777765431 11100                001134566667


Q ss_pred             eEeEecCCCcccccCCcceeeeccc------CCCccccccCCceEEEec-ccccccccccCCCCcceEEecCCCCcceec
Q 040122          169 YLIIENCPDMETFTSNSTFVLHMTA------DNKEPQKLKSEENLLVAN-QIQHLFDEKVAFPQLGNLRLSGLHKVQHLW  241 (388)
Q Consensus       169 ~L~l~~c~~l~~~~~~~~~~~~l~~------~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  241 (388)
                      .+.+.++. ....+........+..      .......++.|+.++++. .....+.   ...++..+.+.+.. +...+
T Consensus       166 ~L~l~~n~-~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~---~~~~l~~~~~~~~~-~~~~~  240 (353)
T d1jl5a_         166 AIYADNNS-LKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPD---LPPSLEALNVRDNY-LTDLP  240 (353)
T ss_dssp             EEECCSSC-CSSCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCCS---CCTTCCEEECCSSC-CSCCC
T ss_pred             eccccccc-cccccccccccccccccccccccccccccccccccccccccccccccc---cccccccccccccc-ccccc
Confidence            77766643 2222211111001100      112356678888888876 2222222   23455666665432 22211


Q ss_pred             ccCchhHhhhccccEEEEecCC--Ccc--------------cccCCccccCCCCEEeeccCcCcccccchhhhcCccccc
Q 040122          242 KENDESNKAFANLERLEISECS--KLQ--------------KLVPPSWHLENLEALKVSKCHELINVLTLSASKNLVNLG  305 (388)
Q Consensus       242 ~~~~~~~~~~~~L~~L~i~~~~--~~~--------------~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~l~~L~  305 (388)
                             .....+....+..+.  .+.              .+......+++|++|++++| +++.++     ..+++|+
T Consensus       241 -------~~~~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N-~l~~lp-----~~~~~L~  307 (353)
T d1jl5a_         241 -------ELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNN-KLIELP-----ALPPRLE  307 (353)
T ss_dssp             -------CCCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSS-CCSCCC-----CCCTTCC
T ss_pred             -------cccccccccccccccccccccccchhcccccccCccccccccCCCCCEEECCCC-ccCccc-----cccCCCC
Confidence                   111122222221110  000              11111234679999999987 566654     3468899


Q ss_pred             eeeEccccccchhhcccccccCCccccccccceEecccCCCcceecCCCccccCCCcceEEec
Q 040122          306 RMMIADCKMIEQIIQLQVGEEAKDCNVFKELEYLGLDCLPSLTSFCLGNYALEFPSLKQVVVR  368 (388)
Q Consensus       306 ~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~  368 (388)
                      +|++++|. +++++.           .+++|++|++++++ +++++...     .+|+.|++.
T Consensus       308 ~L~L~~N~-L~~l~~-----------~~~~L~~L~L~~N~-L~~lp~~~-----~~L~~L~~~  352 (353)
T d1jl5a_         308 RLIASFNH-LAEVPE-----------LPQNLKQLHVEYNP-LREFPDIP-----ESVEDLRMN  352 (353)
T ss_dssp             EEECCSSC-CSCCCC-----------CCTTCCEEECCSSC-CSSCCCCC-----TTCCEEECC
T ss_pred             EEECCCCc-CCcccc-----------ccCCCCEEECcCCc-CCCCCccc-----cccCeeECc
Confidence            99998874 555543           24689999999986 88887532     578888764

>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=99.31  E-value=1.6e-11  Score=102.89  Aligned_cols=104  Identities=21%  Similarity=0.413  Sum_probs=77.7

Q ss_pred             CCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccc
Q 040122           49 FLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSA  128 (388)
Q Consensus        49 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~  128 (388)
                      +.+|++|+++++. +.... +.    ..+++|++|++++| .++++++   ++++++|++|++++| .++.++..     
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-----  108 (210)
T d1h6ta2          45 LNSIDQIIANNSD-IKSVQ-GI----QYLPNVTKLFLNGN-KLTDIKP---LANLKNLGWLFLDEN-KVKDLSSL-----  108 (210)
T ss_dssp             HHTCCEEECTTSC-CCCCT-TG----GGCTTCCEEECCSS-CCCCCGG---GTTCTTCCEEECCSS-CCCCGGGG-----
T ss_pred             hcCccEEECcCCC-CCCch-hH----hhCCCCCEEeCCCc-cccCccc---cccCccccccccccc-cccccccc-----
Confidence            4679999999875 55332 23    57999999999998 6777554   688999999999996 46665443     


Q ss_pred             cccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCccc
Q 040122          129 KEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMET  180 (388)
Q Consensus       129 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~  180 (388)
                            ..+++|+.|++.++.. ..+    ..+..+++++.+++.++ .++.
T Consensus       109 ------~~l~~L~~L~l~~~~~-~~~----~~l~~l~~l~~l~~~~n-~l~~  148 (210)
T d1h6ta2         109 ------KDLKKLKSLSLEHNGI-SDI----NGLVHLPQLESLYLGNN-KITD  148 (210)
T ss_dssp             ------TTCTTCCEEECTTSCC-CCC----GGGGGCTTCCEEECCSS-CCCC
T ss_pred             ------cccccccccccccccc-ccc----ccccccccccccccccc-cccc
Confidence                  5689999999998753 333    22668899999999886 4443

>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=98.92  E-value=1.8e-09  Score=85.98  Aligned_cols=33  Identities=9%  Similarity=0.024  Sum_probs=13.7

Q ss_pred             CCccEEEecCCCCCcccCChhhhhcCCCCcEEEecc
Q 040122           78 NNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRN  113 (388)
Q Consensus        78 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~  113 (388)
                      .++++|++++| +++.++..  +..+++|++|++++
T Consensus        18 ~~lr~L~L~~n-~I~~i~~~--~~~l~~L~~L~Ls~   50 (162)
T d1a9na_          18 VRDRELDLRGY-KIPVIENL--GATLDQFDAIDFSD   50 (162)
T ss_dssp             TSCEEEECTTS-CCCSCCCG--GGGTTCCSEEECCS
T ss_pred             CcCcEEECCCC-CCCccCcc--ccccccCCEEECCC
Confidence            34444444444 33332211  23444444444444

>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=98.90  E-value=1.2e-09  Score=86.98  Aligned_cols=115  Identities=17%  Similarity=0.189  Sum_probs=80.3

Q ss_pred             hccCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccc
Q 040122           45 EKIGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLE  124 (388)
Q Consensus        45 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~  124 (388)
                      ...+...+++|+++++. +..++...    ..+++|++|++++| .+..+..   +..+++|++|++++| .+..+++..
T Consensus        13 ~~~n~~~lr~L~L~~n~-I~~i~~~~----~~l~~L~~L~Ls~N-~i~~l~~---~~~l~~L~~L~ls~N-~i~~l~~~~   82 (162)
T d1a9na_          13 QYTNAVRDRELDLRGYK-IPVIENLG----ATLDQFDAIDFSDN-EIRKLDG---FPLLRRLKTLLVNNN-RICRIGEGL   82 (162)
T ss_dssp             EEECTTSCEEEECTTSC-CCSCCCGG----GGTTCCSEEECCSS-CCCEECC---CCCCSSCCEEECCSS-CCCEECSCH
T ss_pred             hccCcCcCcEEECCCCC-CCccCccc----cccccCCEEECCCC-CCCccCC---cccCcchhhhhcccc-cccCCCccc
Confidence            34566789999999876 77554333    45789999999998 6777543   688899999999996 466654321


Q ss_pred             cccccccccCCcCccccEeecccCcccccccCCCCccccCCCcceEeEecCCCcccc
Q 040122          125 ELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGNIIELPKLEYLIIENCPDMETF  181 (388)
Q Consensus       125 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~  181 (388)
                               ...+++|+.|++.++. +..+... ..+..+++|++|++.+|+ ++..
T Consensus        83 ---------~~~l~~L~~L~L~~N~-i~~~~~l-~~l~~l~~L~~L~l~~N~-i~~~  127 (162)
T d1a9na_          83 ---------DQALPDLTELILTNNS-LVELGDL-DPLASLKSLTYLCILRNP-VTNK  127 (162)
T ss_dssp             ---------HHHCTTCCEEECCSCC-CCCGGGG-GGGGGCTTCCEEECCSSG-GGGS
T ss_pred             ---------cccccccccceecccc-ccccccc-cccccccccchhhcCCCc-cccc
Confidence                     2458899999998763 4444211 226678999999998873 4433

>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=98.84  E-value=5.4e-09  Score=79.13  Aligned_cols=35  Identities=20%  Similarity=0.246  Sum_probs=17.5

Q ss_pred             ccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEecc
Q 040122           76 FFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRN  113 (388)
Q Consensus        76 ~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~  113 (388)
                      .+++|++|++++| .++.+++ . ++.+++|++|++++
T Consensus        18 ~l~~L~~L~ls~N-~l~~lp~-~-~~~l~~L~~L~l~~   52 (124)
T d1dcea3          18 QLLLVTHLDLSHN-RLRALPP-A-LAALRCLEVLQASD   52 (124)
T ss_dssp             GGTTCCEEECCSS-CCCCCCG-G-GGGCTTCCEEECCS
T ss_pred             cCCCCCEEECCCC-ccCcchh-h-hhhhhccccccccc
Confidence            4555555555554 4444322 2 45555555555555

>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=98.79  E-value=1.8e-08  Score=82.46  Aligned_cols=93  Identities=16%  Similarity=0.156  Sum_probs=52.2

Q ss_pred             cCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccC
Q 040122           77 FNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCN  156 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  156 (388)
                      .+++++|+|++| .++...+...+.++++|++|+++++. +..++...         +..+++|++|+++++ ++..+  
T Consensus        28 p~~l~~L~Ls~N-~i~~~~~~~~f~~l~~L~~L~L~~N~-i~~~~~~~---------~~~~~~L~~L~Ls~N-~l~~l--   93 (192)
T d1w8aa_          28 PLHTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRNQ-LTGIEPNA---------FEGASHIQELQLGEN-KIKEI--   93 (192)
T ss_dssp             CTTCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSSC-CCCBCTTT---------TTTCTTCCEEECCSC-CCCEE--
T ss_pred             CCCCCEEEeCCC-CCcccccccccCCCceEeeeeccccc-cccccccc---------cccccccceeeeccc-ccccc--
Confidence            356777777766 44433333336667777777776643 33322211         345666777777655 45555  


Q ss_pred             CCCccccCCCcceEeEecCCCcccccCC
Q 040122          157 FTGNIIELPKLEYLIIENCPDMETFTSN  184 (388)
Q Consensus       157 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~  184 (388)
                      +..++..+++|++|+++++ .++.++..
T Consensus        94 ~~~~F~~l~~L~~L~L~~N-~l~~i~~~  120 (192)
T d1w8aa_          94 SNKMFLGLHQLKTLNLYDN-QISCVMPG  120 (192)
T ss_dssp             CSSSSTTCTTCCEEECCSS-CCCEECTT
T ss_pred             CHHHHhCCCcccccccCCc-cccccCHH
Confidence            3333456677777777764 56655544

>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=98.79  E-value=1.4e-08  Score=76.79  Aligned_cols=99  Identities=15%  Similarity=0.103  Sum_probs=60.8

Q ss_pred             cEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccccCCCCc
Q 040122           81 AELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRFCNFTGN  160 (388)
Q Consensus        81 ~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  160 (388)
                      |.|+++++ +++.++.   +.++++|++|++++| .+..+|+.          +..+++|+.|+++++ .++.+.    .
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 RVLHLAHK-DLTVLCH---LEQLLLVTHLDLSHN-RLRALPPA----------LAALRCLEVLQASDN-ALENVD----G   60 (124)
T ss_dssp             SEEECTTS-CCSSCCC---GGGGTTCCEEECCSS-CCCCCCGG----------GGGCTTCCEEECCSS-CCCCCG----G
T ss_pred             CEEEcCCC-CCCCCcc---cccCCCCCEEECCCC-ccCcchhh----------hhhhhcccccccccc-cccccC----c
Confidence            45677766 5665433   567777777777774 45555432          245677777777764 345541    2


Q ss_pred             cccCCCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEec
Q 040122          161 IIELPKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVAN  211 (388)
Q Consensus       161 ~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~  211 (388)
                      +..+++|++|++.++ .++.++....           +..+++|+.|++++
T Consensus        61 ~~~l~~L~~L~l~~N-~i~~~~~~~~-----------l~~~~~L~~L~l~~   99 (124)
T d1dcea3          61 VANLPRLQELLLCNN-RLQQSAAIQP-----------LVSCPRLVLLNLQG   99 (124)
T ss_dssp             GTTCSSCCEEECCSS-CCCSSSTTGG-----------GGGCTTCCEEECTT
T ss_pred             cccccccCeEECCCC-ccCCCCCchh-----------hcCCCCCCEEECCC
Confidence            556777777777775 5555543222           56677777777776

>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=98.49  E-value=1.5e-09  Score=89.50  Aligned_cols=81  Identities=17%  Similarity=0.226  Sum_probs=44.5

Q ss_pred             cccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccccceecccccccccccccCCcCccccEeecccCcccccc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDSLEEVLHLEELSAKEEHIGPLFPRLLSLKLIDLPKLKRF  154 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  154 (388)
                      ..+++|++|++++| .++.+.+   +.++++|++|++++| .++.++..          ...+++|+.|+++++ .++.+
T Consensus        45 ~~L~~L~~L~Ls~n-~I~~i~~---l~~l~~L~~L~Ls~N-~i~~i~~~----------~~~~~~L~~L~l~~N-~i~~l  108 (198)
T d1m9la_          45 STLKACKHLALSTN-NIEKISS---LSGMENLRILSLGRN-LIKKIENL----------DAVADTLEELWISYN-QIASL  108 (198)
T ss_dssp             HHTTTCCEEECSEE-EESCCCC---HHHHTTCCEEECCEE-EECSCSSH----------HHHHHHCCEEECSEE-ECCCH
T ss_pred             hcccccceeECccc-CCCCccc---ccCCccccChhhccc-cccccccc----------ccccccccccccccc-ccccc
Confidence            34666777777665 4555332   566677777777664 34444332          122456666666654 34443


Q ss_pred             cCCCCccccCCCcceEeEecC
Q 040122          155 CNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       155 ~~~~~~~~~l~~L~~L~l~~c  175 (388)
                          ..+..+++|++|+++++
T Consensus       109 ----~~~~~l~~L~~L~L~~N  125 (198)
T d1m9la_         109 ----SGIEKLVNLRVLYMSNN  125 (198)
T ss_dssp             ----HHHHHHHHSSEEEESEE
T ss_pred             ----ccccccccccccccccc
Confidence                11445666666666664

>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=98.42  E-value=1.2e-06  Score=71.13  Aligned_cols=62  Identities=15%  Similarity=0.181  Sum_probs=35.9

Q ss_pred             ccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccc-cCCccccCCCCEEeeccC
Q 040122          220 KVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKL-VPPSWHLENLEALKVSKC  286 (388)
Q Consensus       220 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~-~~~~~~~~~L~~L~l~~c  286 (388)
                      +..+++|++|++++. .++.++...|   ..+++|++|+++++. ++.+ +..+..+++|++|++++.
T Consensus        74 ~~~~~~L~~L~Ls~N-~l~~l~~~~F---~~l~~L~~L~L~~N~-l~~i~~~~f~~l~~L~~l~L~~N  136 (192)
T d1w8aa_          74 FEGASHIQELQLGEN-KIKEISNKMF---LGLHQLKTLNLYDNQ-ISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             TTTCTTCCEEECCSC-CCCEECSSSS---TTCTTCCEEECCSSC-CCEECTTSSTTCTTCCEEECTTC
T ss_pred             cccccccceeeeccc-cccccCHHHH---hCCCcccccccCCcc-ccccCHHHhcCCccccccccccc
Confidence            334566666666663 5566655443   456666666666654 3333 333556677777777664

>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=98.40  E-value=9.2e-09  Score=84.67  Aligned_cols=87  Identities=21%  Similarity=0.165  Sum_probs=48.2

Q ss_pred             ccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccccCCccccCCCCEEeeccCcCcccccchhhhc
Q 040122          220 KVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKLVPPSWHLENLEALKVSKCHELINVLTLSASK  299 (388)
Q Consensus       220 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~  299 (388)
                      +..+++|+.|+++++ .++.++..    ...++.|++|++++|. +..++ .+..+++|+.|+++++ .+++++......
T Consensus        66 l~~l~~L~~L~Ls~N-~i~~i~~~----~~~~~~L~~L~l~~N~-i~~l~-~~~~l~~L~~L~L~~N-~i~~~~~~~~l~  137 (198)
T d1m9la_          66 LSGMENLRILSLGRN-LIKKIENL----DAVADTLEELWISYNQ-IASLS-GIEKLVNLRVLYMSNN-KITNWGEIDKLA  137 (198)
T ss_dssp             HHHHTTCCEEECCEE-EECSCSSH----HHHHHHCCEEECSEEE-CCCHH-HHHHHHHSSEEEESEE-ECCCHHHHHHHT
T ss_pred             ccCCccccChhhccc-cccccccc----cccccccccccccccc-ccccc-cccccccccccccccc-hhcccccccccc
Confidence            344556666666553 34443321    1344567777777653 33332 3556677777777764 455443323345


Q ss_pred             CccccceeeEccccc
Q 040122          300 NLVNLGRMMIADCKM  314 (388)
Q Consensus       300 ~l~~L~~L~l~~~~~  314 (388)
                      .+++|++|++++|+.
T Consensus       138 ~l~~L~~L~L~~N~l  152 (198)
T d1m9la_         138 ALDKLEDLLLAGNPL  152 (198)
T ss_dssp             TTTTCSEEEECSSHH
T ss_pred             CCCccceeecCCCcc
Confidence            677777777777653

>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=98.25  E-value=2.6e-07  Score=85.44  Aligned_cols=76  Identities=14%  Similarity=0.016  Sum_probs=41.9

Q ss_pred             hhHHHHhhhccCCCCcceEEecCccccceec---cccccCccccCCccEEEecCCCCCcccCC---hhhhhcCCCCcEEE
Q 040122           37 STIQKCYDEKIGFLDINRLQLSHFPRLQEIW---HGQALPVRFFNNLAELVVDDSTNMSSAIP---ANLLRCLNNLEWLA  110 (388)
Q Consensus        37 ~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~---~~~~~~~~~~~~L~~L~l~~~~~l~~~~~---~~~~~~l~~L~~L~  110 (388)
                      ..++.+...+...++|++|+++++. +.+..   ... .......+|++|++++| .+++..-   ...+..+++|++|+
T Consensus        42 ~~~~~l~~~L~~~~~L~~LdLs~N~-i~~~~~~~l~~-~l~~~~~~L~~L~L~~n-~it~~~~~~l~~~l~~~~~L~~L~  118 (460)
T d1z7xw1          42 ARCKDISSALRVNPALAELNLRSNE-LGDVGVHCVLQ-GLQTPSCKIQKLSLQNC-CLTGAGCGVLSSTLRTLPTLQELH  118 (460)
T ss_dssp             HHHHHHHHHHHTCTTCCEEECTTCC-CHHHHHHHHHH-TTCSTTCCCCEEECTTS-CCBGGGHHHHHHHTTSCTTCCEEE
T ss_pred             HHHHHHHHHHhcCCCCCEEECcCCc-CChHHHHHHHH-HHhcCCCCCCEEECCCC-Cccccccccccchhhccccccccc
Confidence            3455666666677778888887654 54211   111 00012346778888777 4543211   11245677788888


Q ss_pred             ecccc
Q 040122          111 VRNCD  115 (388)
Q Consensus       111 l~~~~  115 (388)
                      +++|.
T Consensus       119 L~~N~  123 (460)
T d1z7xw1         119 LSDNL  123 (460)
T ss_dssp             CCSSB
T ss_pred             ccccc
Confidence            77753

>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=98.22  E-value=7.8e-08  Score=86.13  Aligned_cols=76  Identities=11%  Similarity=-0.008  Sum_probs=39.6

Q ss_pred             hHHHHhhhccCCCCcceEEecCccccceec-cccccCccccCCccEEEecCCCCCc--ccCCh------hhhhcCCCCcE
Q 040122           38 TIQKCYDEKIGFLDINRLQLSHFPRLQEIW-HGQALPVRFFNNLAELVVDDSTNMS--SAIPA------NLLRCLNNLEW  108 (388)
Q Consensus        38 ~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~-~~~~~~~~~~~~L~~L~l~~~~~l~--~~~~~------~~~~~l~~L~~  108 (388)
                      .++.+...+....+|++|+++++. +.+.. ....-.....++|+.++++++....  ...+.      ..+..+++|++
T Consensus        19 ~~~~l~~~L~~~~~l~~L~Ls~n~-i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~   97 (344)
T d2ca6a1          19 DEKSVFAVLLEDDSVKEIVLSGNT-IGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHT   97 (344)
T ss_dssp             HHHTTSHHHHHCSCCCEEECTTSE-ECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCE
T ss_pred             HHHHHHHHHhhCCCCCEEECcCCc-CCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccc
Confidence            345555556666778888887653 43211 0000011346777888877653211  10111      12445677888


Q ss_pred             EEeccc
Q 040122          109 LAVRNC  114 (388)
Q Consensus       109 L~l~~~  114 (388)
                      |++++|
T Consensus        98 L~L~~n  103 (344)
T d2ca6a1          98 VRLSDN  103 (344)
T ss_dssp             EECCSC
T ss_pred             cccccc
Confidence            887775

>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=98.14  E-value=7.9e-08  Score=86.13  Aligned_cols=99  Identities=13%  Similarity=0.031  Sum_probs=51.3

Q ss_pred             cccCCccEEEecCCCCCcccCChh---hhhcCCCCcEEEeccccccceeccccccccc-ccccCCcCccccEeecccCcc
Q 040122           75 RFFNNLAELVVDDSTNMSSAIPAN---LLRCLNNLEWLAVRNCDSLEEVLHLEELSAK-EEHIGPLFPRLLSLKLIDLPK  150 (388)
Q Consensus        75 ~~~~~L~~L~l~~~~~l~~~~~~~---~~~~l~~L~~L~l~~~~~l~~i~~~~~~~~~-~~~~~~~~~~L~~L~l~~~~~  150 (388)
                      ....+++.|++++| .+.......   .+...++|+.++++++..- ...+....... -......+++|+.|+++++..
T Consensus        28 ~~~~~l~~L~Ls~n-~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~-~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i  105 (344)
T d2ca6a1          28 LEDDSVKEIVLSGN-TIGTEAARWLSENIASKKDLEIAEFSDIFTG-RVKDEIPEALRLLLQALLKCPKLHTVRLSDNAF  105 (344)
T ss_dssp             HHCSCCCEEECTTS-EECHHHHHHHHHTTTTCTTCCEEECCSCCTT-SCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCC
T ss_pred             hhCCCCCEEECcCC-cCCHHHHHHHHHHHHhCCCCCEEECCCCccc-ccccccchHHHHHHHHHhhCCCccccccccccc
Confidence            34678889999877 333211111   2456788999998875321 11000000000 000024578888888887642


Q ss_pred             cccc--cCCCCccccCCCcceEeEecCC
Q 040122          151 LKRF--CNFTGNIIELPKLEYLIIENCP  176 (388)
Q Consensus       151 l~~~--~~~~~~~~~l~~L~~L~l~~c~  176 (388)
                       +..  ......+..+++|++|++.+|.
T Consensus       106 -~~~~~~~l~~~l~~~~~L~~L~l~~n~  132 (344)
T d2ca6a1         106 -GPTAQEPLIDFLSKHTPLEHLYLHNNG  132 (344)
T ss_dssp             -CTTTHHHHHHHHHHCTTCCEEECCSSC
T ss_pred             -ccccccchhhhhcccccchheeccccc
Confidence             221  0001113457888888888873

>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=98.09  E-value=7.7e-06  Score=63.85  Aligned_cols=92  Identities=15%  Similarity=0.157  Sum_probs=57.0

Q ss_pred             cccccccCCCCcceEEecCCCCcceecccCchhHhhhccccEEEEecCCCcccc-cCCccccCCCCEEeeccCcCccccc
Q 040122          215 HLFDEKVAFPQLGNLRLSGLHKVQHLWKENDESNKAFANLERLEISECSKLQKL-VPPSWHLENLEALKVSKCHELINVL  293 (388)
Q Consensus       215 ~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~i~~~~~~~~~-~~~~~~~~~L~~L~l~~c~~l~~~~  293 (388)
                      ..+..+..+++|++|++.+.+.++.++...+   ..+++|+.|+++++. ++.+ +..+..+++|++|+++++ +++.++
T Consensus        22 ~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f---~~l~~L~~L~Ls~N~-l~~i~~~~f~~l~~L~~L~Ls~N-~l~~l~   96 (156)
T d2ifga3          22 DSLHHLPGAENLTELYIENQQHLQHLELRDL---RGLGELRNLTIVKSG-LRFVAPDAFHFTPRLSRLNLSFN-ALESLS   96 (156)
T ss_dssp             TTTTTSCSCSCCSEEECCSCSSCCEECGGGS---CSCCCCSEEECCSSC-CCEECTTGGGSCSCCCEEECCSS-CCSCCC
T ss_pred             cCcccccCccccCeeecCCCccccccCchhh---ccccccCcceeeccc-cCCcccccccccccccceeccCC-CCcccC
Confidence            3344455567777777776566777665543   556777777777764 4444 344667777888888764 566554


Q ss_pred             chhhhcCccccceeeEcccc
Q 040122          294 TLSASKNLVNLGRMMIADCK  313 (388)
Q Consensus       294 ~~~~~~~l~~L~~L~l~~~~  313 (388)
                      ...+ . ..+|++|++++++
T Consensus        97 ~~~~-~-~~~l~~L~L~~Np  114 (156)
T d2ifga3          97 WKTV-Q-GLSLQELVLSGNP  114 (156)
T ss_dssp             STTT-C-SCCCCEEECCSSC
T ss_pred             hhhh-c-cccccccccCCCc
Confidence            4322 2 2357777777664

>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=98.09  E-value=1.1e-05  Score=63.00  Aligned_cols=10  Identities=30%  Similarity=0.395  Sum_probs=3.7

Q ss_pred             CCCCcEEEec
Q 040122          103 LNNLEWLAVR  112 (388)
Q Consensus       103 l~~L~~L~l~  112 (388)
                      +++|++|+++
T Consensus        55 l~~L~~L~Ls   64 (156)
T d2ifga3          55 LGELRNLTIV   64 (156)
T ss_dssp             CCCCSEEECC
T ss_pred             ccccCcceee
Confidence            3333333333

>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=96.37  E-value=0.00043  Score=53.81  Aligned_cols=36  Identities=14%  Similarity=0.211  Sum_probs=17.4

Q ss_pred             cCCccEEEecCCCCCcccCC-hhhhhcCCCCcEEEecc
Q 040122           77 FNNLAELVVDDSTNMSSAIP-ANLLRCLNNLEWLAVRN  113 (388)
Q Consensus        77 ~~~L~~L~l~~~~~l~~~~~-~~~~~~l~~L~~L~l~~  113 (388)
                      +++|++|++++| .++.+.+ ...+..+++|++|++++
T Consensus        64 ~~~L~~L~Ls~N-~i~~l~~~~~~~~~l~~L~~L~Ls~  100 (162)
T d1koha1          64 IPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSG  100 (162)
T ss_dssp             CTTCCCCCCCSS-CCCCCSGGGTHHHHSTTCCCCCCTT
T ss_pred             CCCCCEeeCCCc-cccCCchhHHHHhhCCccccccccc
Confidence            455555555555 3443222 11244555555555555

>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=95.95  E-value=0.00063  Score=52.83  Aligned_cols=66  Identities=18%  Similarity=0.029  Sum_probs=46.7

Q ss_pred             cCCCCcceEEecCccccceeccccccCccccCCccEEEecCCCCCcccCChhhhhcCCCCcEEEeccccc
Q 040122           47 IGFLDINRLQLSHFPRLQEIWHGQALPVRFFNNLAELVVDDSTNMSSAIPANLLRCLNNLEWLAVRNCDS  116 (388)
Q Consensus        47 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~~~~  116 (388)
                      ..+++|++|+++++. ++.+.... .....+++|+.|++++| .+.++.+...+ +..+|++|++++++.
T Consensus        62 ~~~~~L~~L~Ls~N~-i~~l~~~~-~~~~~l~~L~~L~Ls~N-~i~~l~~l~~l-~~~~L~~L~L~~Npl  127 (162)
T d1koha1          62 ENIPELLSLNLSNNR-LYRLDDMS-SIVQKAPNLKILNLSGN-ELKSERELDKI-KGLKLEELWLDGNSL  127 (162)
T ss_dssp             HHCTTCCCCCCCSSC-CCCCSGGG-THHHHSTTCCCCCCTTS-CCCCGGGHHHH-TTCCCSSCCCTTSTT
T ss_pred             HhCCCCCEeeCCCcc-ccCCchhH-HHHhhCCcccccccccC-ccccchhhhhh-hccccceeecCCCCc
Confidence            457999999999876 66543211 11246899999999998 67775554433 445799999999753

>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=95.64  E-value=0.0013  Score=59.51  Aligned_cols=113  Identities=13%  Similarity=0.114  Sum_probs=69.8

Q ss_pred             CCcceEeEecCCCcccccCCcceeeecccCCCccccccCCceEEEecc------cccccccccCCCCcceEEecCCCCcc
Q 040122          165 PKLEYLIIENCPDMETFTSNSTFVLHMTADNKEPQKLKSEENLLVANQ------IQHLFDEKVAFPQLGNLRLSGLHKVQ  238 (388)
Q Consensus       165 ~~L~~L~l~~c~~l~~~~~~~~~~~~l~~~~~~l~~l~~L~~L~l~~~------~~~~~~~~~~~~~L~~L~l~~~~~l~  238 (388)
                      ++|+.|++++ .+++.......           +..++++++|++.++      ...+...+..+++|++|+++++ .++
T Consensus         2 ~~l~~ld~~~-~~i~~~~~~~l-----------~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N-~i~   68 (460)
T d1z7xw1           2 LDIQSLDIQC-EELSDARWAEL-----------LPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSN-ELG   68 (460)
T ss_dssp             EEEEEEEEES-CCCCHHHHHHH-----------HHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTC-CCH
T ss_pred             CCCCEEEeeC-CcCChHHHHHH-----------HHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCC-cCC
Confidence            4688999966 57776654444           677888999998871      1233445567888999999875 454


Q ss_pred             eecccCch-hH-hhhccccEEEEecCCCcc----cccCCccccCCCCEEeeccCcCccc
Q 040122          239 HLWKENDE-SN-KAFANLERLEISECSKLQ----KLVPPSWHLENLEALKVSKCHELIN  291 (388)
Q Consensus       239 ~~~~~~~~-~~-~~~~~L~~L~i~~~~~~~----~~~~~~~~~~~L~~L~l~~c~~l~~  291 (388)
                      +....... .+ ....+|++|++++|..-.    .++..+..+++|++|+++++ .+.+
T Consensus        69 ~~~~~~l~~~l~~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N-~i~~  126 (460)
T d1z7xw1          69 DVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDN-LLGD  126 (460)
T ss_dssp             HHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSS-BCHH
T ss_pred             hHHHHHHHHHHhcCCCCCCEEECCCCCccccccccccchhhccccccccccccc-cchh
Confidence            31110000 00 123478888888875321    12334556788888888876 3443

>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=94.20  E-value=0.012  Score=45.34  Aligned_cols=65  Identities=9%  Similarity=0.086  Sum_probs=27.1

Q ss_pred             ccCCCCcceEEecCCCCcceecccCc-hhHhhhccccEEEEecCCCcc----cccCCccccCCCCEEeecc
Q 040122          220 KVAFPQLGNLRLSGLHKVQHLWKEND-ESNKAFANLERLEISECSKLQ----KLVPPSWHLENLEALKVSK  285 (388)
Q Consensus       220 ~~~~~~L~~L~l~~~~~l~~~~~~~~-~~~~~~~~L~~L~i~~~~~~~----~~~~~~~~~~~L~~L~l~~  285 (388)
                      +...++|++|++++| .+++-....+ ..+...+.|++|++++|..-.    .+...+...++|++|++++
T Consensus        40 L~~n~~L~~L~Ls~n-~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~  109 (167)
T d1pgva_          40 ACNSKHIEKFSLANT-AISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADN  109 (167)
T ss_dssp             HTTCSCCCEEECTTS-CCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCC
T ss_pred             HhhCCccceeecccc-ccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCC
Confidence            334456666666654 2332111110 112334455555555553211    1112233345555665554

>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=93.12  E-value=0.018  Score=44.30  Aligned_cols=64  Identities=14%  Similarity=0.055  Sum_probs=27.1

Q ss_pred             cCCCCcceEEecCCCCcceeccc-CchhHhhhccccEEEEecCCCcc----cccCCccccCCCCEEeecc
Q 040122          221 VAFPQLGNLRLSGLHKVQHLWKE-NDESNKAFANLERLEISECSKLQ----KLVPPSWHLENLEALKVSK  285 (388)
Q Consensus       221 ~~~~~L~~L~l~~~~~l~~~~~~-~~~~~~~~~~L~~L~i~~~~~~~----~~~~~~~~~~~L~~L~l~~  285 (388)
                      ...++|++|+++++ .++.-... ....+...+.++.+++++|..-.    .+...+...++|+.++|..
T Consensus        43 ~~n~~L~~L~Ls~n-~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l  111 (166)
T d1io0a_          43 KTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDN  111 (166)
T ss_dssp             TTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCC
T ss_pred             hcCCccCeeeccCC-cccHHHHHHHHHHHhhcccchhhhhccccccchhHHHHHHHHHhCccccEEeecc
Confidence            34556666666664 22221100 00111334555555555543221    1222334445566555543

>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=91.65  E-value=0.012  Score=45.38  Aligned_cols=41  Identities=7%  Similarity=0.082  Sum_probs=24.9

Q ss_pred             CcCccccEeecccCcccccc--cCCCCccccCCCcceEeEecC
Q 040122          135 PLFPRLLSLKLIDLPKLKRF--CNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       135 ~~~~~L~~L~l~~~~~l~~~--~~~~~~~~~l~~L~~L~l~~c  175 (388)
                      ...++|+.|+++++..++.-  ......+...++|++|++++|
T Consensus        12 ~n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n   54 (167)
T d1pgva_          12 EDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANT   54 (167)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTS
T ss_pred             hCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeecccc
Confidence            45688888888765443321  101112456778888888886

>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=91.31  E-value=0.011  Score=45.63  Aligned_cols=41  Identities=10%  Similarity=-0.012  Sum_probs=23.6

Q ss_pred             CcCccccEeecccCcccccc--cCCCCccccCCCcceEeEecC
Q 040122          135 PLFPRLLSLKLIDLPKLKRF--CNFTGNIIELPKLEYLIIENC  175 (388)
Q Consensus       135 ~~~~~L~~L~l~~~~~l~~~--~~~~~~~~~l~~L~~L~l~~c  175 (388)
                      ...++|++|+++++..++.-  ......+...++|++|++++|
T Consensus        14 ~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n   56 (166)
T d1io0a_          14 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT   56 (166)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS
T ss_pred             hcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCC
Confidence            44678888888765444322  111222335677777877776