Citrus Sinensis ID: 040144

---

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-------29
Protein Sequence
MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL
Secondary Structure (PSIPRED)
cccccEEEccccccEEcccccccccccccEEEccccccccccccHHccccccccEEEcccccccccccHHHHHcccccccEEEcccccccccccccccccccccEEEcccccccccccHHHHcccccccEEEccccccEEcccHHHHcccccccEEccccccccEEEcccccccccccccccccEEEcccccccccccccccccccccEEEccccccEEccccccEEEccccccEEEEccccccccccccEEEccccEEEEEccccccccccccEEEcccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEEccccccccccHHHcccccccEEEcccccccccccHHHHcccccccEEEEccccccccccccHHHcccccccEEEEccccccccccHHHccccccEEEEcccccccccccHHHHcccccccEEEEccccccccccHHHHcccccccEEEccccccccccccHHHccccHHccccccEEEcccccccccccHHHcccccccEEEcccccccccccHHccEEcccccccccccHHHHcccccccEEEcccccccccccHHHccccccEEEEcccccccccccc
Coil and Loop (DISEMBL)
mgnlrylnfsktricgiipqqlgnlsnlqfldlssKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLsncqlqhfsplatvnfssLTMLDlshnqfdnSFILSWVFAlshlpfldlgfnnfqgtidlealgnltsinrldlslntgltgriprsmalcnlksinlqesldmrsssiyghltdQLGQFRNLVTFNlvnnsivgfipwsfelhiydnkLNVTLFELHFANLIEmswfrvggnqltlevkhdwiphFQLVALGLhscyigsrfpl
Flexible Loop (DISEMBL)
mgnlrylnfSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL
Low Complexity Region (SEG)
MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL
Disordered region (IsUnstruct)
***LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS****
Disordered Region (DISOPRED)
MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL
Disordered Region (DISEMBL)
MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL
Disordered Region (DISPRO)
*GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFP*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	289	2.2.26 [Sep-21-2011]
P47735	999	Receptor-like protein kin	no	no	0.712	0.206	0.318	3e-12
Q9LP24	1120	Probable leucine-rich rep	no	no	0.868	0.224	0.295	1e-11
Q9FIZ3	1252	LRR receptor-like serine/	no	no	0.747	0.172	0.303	4e-11
C0LGW6	966	LRR receptor-like serine/	no	no	0.830	0.248	0.248	4e-11
C0LGX3	993	LRR receptor-like serine/	no	no	0.705	0.205	0.322	1e-10
Q6XAT2	967	LRR receptor-like serine/	no	no	0.889	0.265	0.258	2e-10
Q9LHP4	1141	Receptor-like protein kin	no	no	0.640	0.162	0.316	3e-10
Q9FRS6	1029	Leucine-rich repeat recep	no	no	0.875	0.245	0.253	5e-10
Q9SHI2	1101	Leucine-rich repeat recep	no	no	0.740	0.194	0.312	9e-10
C0LGS2	1136	Probable LRR receptor-lik	no	no	0.847	0.215	0.276	1e-09

>sp|P47735|RLK5_ARATH Receptor-like protein kinase 5 OS=Arabidopsis thaliana GN=RLK5 PE=1 SV=1

 Score = 72.4 bits (176), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 71/223 (31%), Positives = 116/223 (52%), Gaps = 17/223 (7%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           NL++L  S   +   IP   G    L+ L+L+  +L        L  ++ L+ L L Y N
Sbjct: 140 NLKFLEISGNNLSDTIPSSFGEFRKLESLNLAGNFLSGTIP-ASLGNVTTLKELKLAY-N 197

Query: 63  LSIAFDWLMVANKLLSLVELR---LSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
           L   F    + ++L +L EL+   L+ C L    P +    +SL  LDL+ NQ   S I 
Sbjct: 198 L---FSPSQIPSQLGNLTELQVLWLAGCNLVGPIPPSLSRLTSLVNLDLTFNQLTGS-IP 253

Query: 120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
           SW+  L  +  ++L  N+F G +  E++GN+T++ R D S+N  LTG+IP ++ L NL+S
Sbjct: 254 SWITQLKTVEQIELFNNSFSGELP-ESMGNMTTLKRFDASMNK-LTGKIPDNLNLLNLES 311

Query: 180 INLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
           +NL E++      + G L + + + + L    L NN + G +P
Sbjct: 312 LNLFENM------LEGPLPESITRSKTLSELKLFNNRLTGVLP 348

Receptor with a dual specificity kinase activity acting on both serine/threonine- and tyrosine-containing substrates that controls floral organ abscission. May interact with the 'INFLORESCENCE DEFICIENT IN ABSCISSION' (IDA) ligands family.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 7EC: .EC: 1EC: 1EC: .EC: 1

>sp|Q9LP24|Y1571_ARATH Probable leucine-rich repeat receptor-like protein kinase At1g35710 OS=Arabidopsis thaliana GN=At1g35710 PE=2 SV=1

 Score = 70.9 bits (172), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 85/288 (29%), Positives = 125/288 (43%), Gaps = 37/288 (12%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL----------LYVDNFLWLSGI 50
           + NL Y++ S   + G IP Q GNLS L + DLS+ +L          L     L+L   
Sbjct: 101 LSNLAYVDLSMNLLSGTIPPQFGNLSKLIYFDLSTNHLTGEISPSLGNLKNLTVLYLHQN 160

Query: 51  SLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQ-----------LQHFSPLATVN 99
            L   +     N+    D  +  NKL   +   L N +           L    P    N
Sbjct: 161 YLTSVIPSELGNMESMTDLALSQNKLTGSIPSSLGNLKNLMVLYLYENYLTGVIPPELGN 220

Query: 100 FSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLS 159
             S+T L LS N+   S I S +  L +L  L L  N   G I  E +GN+ S+  L LS
Sbjct: 221 MESMTDLALSQNKLTGS-IPSTLGNLKNLMVLYLYENYLTGVIPPE-IGNMESMTNLALS 278

Query: 160 LNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVG 219
            N  LTG IP S+   NLK++ L   L +  + + G +  +LG   +++   L NN + G
Sbjct: 279 QNK-LTGSIPSSLG--NLKNLTL---LSLFQNYLTGGIPPKLGNIESMIDLELSNNKLTG 332

Query: 220 FIPWSFE-------LHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
            IP S         L++Y+N L   +      N+  M   ++  N+LT
Sbjct: 333 SIPSSLGNLKNLTILYLYENYL-TGVIPPELGNMESMIDLQLNNNKLT 379

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q9FIZ3|GSO2_ARATH LRR receptor-like serine/threonine-protein kinase GSO2 OS=Arabidopsis thaliana GN=GSO2 PE=2 SV=2

 Score = 68.9 bits (167), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 74/244 (30%), Positives = 113/244 (46%), Gaps = 28/244 (11%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYV-DNFLWLSGISLLEHLDLRYV 61
           +++YLN    ++ G+IP++L  L+NLQ LDLSS  L  V     W   ++ LE L L   
Sbjct: 265 SIQYLNLIGNQLQGLIPKRLTELANLQTLDLSSNNLTGVIHEEFWR--MNQLEFLVLAKN 322

Query: 62  NLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
            LS +    + +N   SL +L LS  QL    P    N  SL +LDLS+N      I   
Sbjct: 323 RLSGSLPKTICSNN-TSLKQLFLSETQLSGEIPAEISNCQSLKLLDLSNNTLTGQ-IPDS 380

Query: 122 VFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSI- 180
           +F L  L  L L  N+ +GT+   ++ NLT++    L  N  L G++P+ +       I 
Sbjct: 381 LFQLVELTNLYLNNNSLEGTLS-SSISNLTNLQEFTLYHNN-LEGKVPKEIGFLGKLEIM 438

Query: 181 -------------------NLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFI 221
                               LQE +D   + + G +   +G+ ++L   +L  N +VG I
Sbjct: 439 YLYENRFSGEMPVEIGNCTRLQE-IDWYGNRLSGEIPSSIGRLKDLTRLHLRENELVGNI 497

Query: 222 PWSF 225
           P S 
Sbjct: 498 PASL 501

Together with GSO1, receptor-like serine/threonine-kinase required during the development of the epidermal surface in embryos and cotyledons. Involved in the nuclear division phase of megagametogenesis.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|C0LGW6|ERL1_ARATH LRR receptor-like serine/threonine-protein kinase ERL1 OS=Arabidopsis thaliana GN=ERL1 PE=2 SV=1

 Score = 68.9 bits (167), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 76/306 (24%), Positives = 130/306 (42%), Gaps = 66/306 (21%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           NL+ ++    ++ G IP ++GN ++L +LDLS   LLY D    +S +  LE L+L+   
Sbjct: 96  NLQSIDLQGNKLAGQIPDEIGNCASLVYLDLSEN-LLYGDIPFSISKLKQLETLNLK--- 151

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN--SFILS 120
                                  N QL    P       +L  LDL+ N      S +L 
Sbjct: 152 -----------------------NNQLTGPVPATLTQIPNLKRLDLAGNHLTGEISRLLY 188

Query: 121 WVFALSHLP---------------------FLDLGFNNFQGTIDLEALGNLTSINRLDLS 159
           W   L +L                      + D+  NN  GTI  E++GN TS   LD+S
Sbjct: 189 WNEVLQYLGLRGNMLTGTLSSDMCQLTGLWYFDVRGNNLTGTIP-ESIGNCTSFQILDIS 247

Query: 160 LNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVG 219
            N  +TG IP ++    + +++LQ       + + G + + +G  + L   +L +N +VG
Sbjct: 248 YNQ-ITGEIPYNIGFLQVATLSLQ------GNRLTGRIPEVIGLMQALAVLDLSDNELVG 300

Query: 220 FIP-------WSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQ 272
            IP       ++ +L+++ N L   +      N+  +S+ ++  N+L   +  +     Q
Sbjct: 301 PIPPILGNLSFTGKLYLHGNMLTGPIPS-ELGNMSRLSYLQLNDNKLVGTIPPELGKLEQ 359

Query: 273 LVALGL 278
           L  L L
Sbjct: 360 LFELNL 365

Receptor kinase that regulates inflorescence architecture and organ shape as well as stomatal patterning, including density and clustering, together with ER and ERL2.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|C0LGX3|HSL2_ARATH LRR receptor-like serine/threonine-protein kinase HSL2 OS=Arabidopsis thaliana GN=HSL2 PE=2 SV=1

 Score = 67.0 bits (162), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 72/223 (32%), Positives = 103/223 (46%), Gaps = 19/223 (8%)

Query: 4   LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLL-YVDNFLWLSGISLLEHLDLRYVN 62
           LR L        G IPQ  G L+ LQ L+L+   L   V  FL    ++ L  LDL Y  
Sbjct: 149 LRVLELESNLFTGEIPQSYGRLTALQVLNLNGNPLSGIVPAFLGY--LTELTRLDLAY-- 204

Query: 63  LSIAFDWLMVANKL---LSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
             I+FD   + + L    +L +LRL++  L    P + +N   L  LDL+ N      I 
Sbjct: 205 --ISFDPSPIPSTLGNLSNLTDLRLTHSNLVGEIPDSIMNLVLLENLDLAMNSLTGE-IP 261

Query: 120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
             +  L  +  ++L  N   G +  E++GNLT +   D+S N  LTG +P  +A   L S
Sbjct: 262 ESIGRLESVYQIELYDNRLSGKLP-ESIGNLTELRNFDVSQNN-LTGELPEKIAALQLIS 319

Query: 180 INLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
            NL ++         G L D +    NLV F + NNS  G +P
Sbjct: 320 FNLNDNF------FTGGLPDVVALNPNLVEFKIFNNSFTGTLP 356

Receptor-like serine/threonine-kinase acting on substrates that controls floral organ abscission. Regulated by the 'INFLORESCENCE DEFICIENT IN ABSCISSION' (IDA) family of ligands.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q6XAT2|ERL2_ARATH LRR receptor-like serine/threonine-protein kinase ERL2 OS=Arabidopsis thaliana GN=ERL2 PE=2 SV=1

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 81/313 (25%), Positives = 131/313 (41%), Gaps = 56/313 (17%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHL----DL 58
           N+  LN S   + G I   LG+L NLQ +DL    L          G  + + +     L
Sbjct: 74  NVVSLNLSNLNLGGEISSALGDLMNLQSIDLQGNKL----------GGQIPDEIGNCVSL 123

Query: 59  RYVNLSIAF---DWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN 115
            YV+ S      D     +KL  L  L L N QL    P       +L  LDL+ NQ   
Sbjct: 124 AYVDFSTNLLFGDIPFSISKLKQLEFLNLKNNQLTGPIPATLTQIPNLKTLDLARNQLTG 183

Query: 116 SF--ILSWVFALSHLP---------------------FLDLGFNNFQGTIDLEALGNLTS 152
               +L W   L +L                      + D+  NN  GTI  E++GN TS
Sbjct: 184 EIPRLLYWNEVLQYLGLRGNMLTGTLSPDMCQLTGLWYFDVRGNNLTGTIP-ESIGNCTS 242

Query: 153 INRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNL 212
              LD+S N  +TG IP ++    + +++LQ       + + G + + +G  + L   +L
Sbjct: 243 FEILDVSYNQ-ITGVIPYNIGFLQVATLSLQ------GNKLTGRIPEVIGLMQALAVLDL 295

Query: 213 VNNSIVGFIP-------WSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKH 265
            +N + G IP       ++ +L+++ NKL   +      N+  +S+ ++  N+L  ++  
Sbjct: 296 SDNELTGPIPPILGNLSFTGKLYLHGNKLTGQI-PPELGNMSRLSYLQLNDNELVGKIPP 354

Query: 266 DWIPHFQLVALGL 278
           +     QL  L L
Sbjct: 355 ELGKLEQLFELNL 367

Receptor kinase that regulates inflorescence architecture and organ shape as well as stomatal patterning, including density and clustering, together with ERL1 and ER.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q9LHP4|RCH2_ARATH Receptor-like protein kinase 2 OS=Arabidopsis thaliana GN=RCH2 PE=1 SV=1

 Score = 66.2 bits (160), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 70/221 (31%), Positives = 107/221 (48%), Gaps = 36/221 (16%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           NL  L      + G IPQ++GN S+L  L L    +         SGI  L+ ++  +++
Sbjct: 443 NLTKLLLISNSLSGFIPQEIGNCSSLVRLRLGFNRI----TGEIPSGIGSLKKIN--FLD 496

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
            S        +N+L   V   + +C             S L M+DLS+N  + S + + V
Sbjct: 497 FS--------SNRLHGKVPDEIGSC-------------SELQMIDLSNNSLEGS-LPNPV 534

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
            +LS L  LD+  N F G I   +LG L S+N+L LS N   +G IP S+ +C+     L
Sbjct: 535 SSLSGLQVLDVSANQFSGKIP-ASLGRLVSLNKLILSKNL-FSGSIPTSLGMCS----GL 588

Query: 183 QESLDMRSSSIYGHLTDQLGQFRNL-VTFNLVNNSIVGFIP 222
           Q  LD+ S+ + G +  +LG   NL +  NL +N + G IP
Sbjct: 589 Q-LLDLGSNELSGEIPSELGDIENLEIALNLSSNRLTGKIP 628

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q9FRS6|PXL1_ARATH Leucine-rich repeat receptor-like protein kinase PXL1 OS=Arabidopsis thaliana GN=PXL1 PE=2 SV=1

 Score = 65.5 bits (158), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 73/288 (25%), Positives = 127/288 (44%), Gaps = 35/288 (12%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISL-LEHLDLRYV 61
           +L+ L+ S       +P+ L NL++L+ +D+S     +   F +  G++  L H++    
Sbjct: 102 SLQALDLSNNAFESSLPKSLSNLTSLKVIDVSVNS--FFGTFPYGLGMATGLTHVNASSN 159

Query: 62  NLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
           N S      +     L +++ R      +   P +  N  +L  L LS N F    +   
Sbjct: 160 NFSGFLPEDLGNATTLEVLDFR--GGYFEGSVPSSFKNLKNLKFLGLSGNNFGGK-VPKV 216

Query: 122 VFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSI 180
           +  LS L  + LG+N F G I  E  G LT +  LDL++   LTG+IP S+  L  L ++
Sbjct: 217 IGELSSLETIILGYNGFMGEIP-EEFGKLTRLQYLDLAVGN-LTGQIPSSLGQLKQLTTV 274

Query: 181 NLQES------------------LDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
            L ++                  LD+  + I G +  ++G+ +NL   NL+ N + G IP
Sbjct: 275 YLYQNRLTGKLPRELGGMTSLVFLDLSDNQITGEIPMEVGELKNLQLLNLMRNQLTGIIP 334

Query: 223 WSFE-------LHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEV 263
                      L ++ N L  +L  +H      + W  V  N+L+ ++
Sbjct: 335 SKIAELPNLEVLELWQNSLMGSL-PVHLGKNSPLKWLDVSSNKLSGDI 381

Involved in the regulation of procambium maintenance and polarity during vascular-tissue development.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q9SHI2|Y1723_ARATH Leucine-rich repeat receptor-like serine/threonine-protein kinase At1g17230 OS=Arabidopsis thaliana GN=At1g17230 PE=2 SV=2

 Score = 64.3 bits (155), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 76/243 (31%), Positives = 110/243 (45%), Gaps = 29/243 (11%)

Query: 4   LRYLNFSKTRICGIIPQQL---GNLSNLQFLD--LSSKY---LLYVDNF--LWLSGISLL 53
           L  L+ S  R+ G IPQ+L     L +LQ  D  L  K    + +  NF  L +S  SL 
Sbjct: 357 LEKLDLSINRLNGTIPQELQFLPYLVDLQLFDNQLEGKIPPLIGFYSNFSVLDMSANSLS 416

Query: 54  EHLDLRYVNLSIAFDWLMVANKL-----------LSLVELRLSNCQLQHFSPLATVNFSS 102
             +   +          + +NKL            SL +L L + QL    P+   N  +
Sbjct: 417 GPIPAHFCRFQTLILLSLGSNKLSGNIPRDLKTCKSLTKLMLGDNQLTGSLPIELFNLQN 476

Query: 103 LTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT 162
           LT L+L  N    + I + +  L +L  L L  NNF G I  E +GNLT I   ++S N 
Sbjct: 477 LTALELHQNWLSGN-ISADLGKLKNLERLRLANNNFTGEIPPE-IGNLTKIVGFNISSNQ 534

Query: 163 GLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
            LTG IP+ +  C    + +Q  LD+  +   G++  +LGQ   L    L +N + G IP
Sbjct: 535 -LTGHIPKELGSC----VTIQR-LDLSGNKFSGYIAQELGQLVYLEILRLSDNRLTGEIP 588

Query: 223 WSF 225
            SF
Sbjct: 589 HSF 591

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|C0LGS2|Y4361_ARATH Probable LRR receptor-like serine/threonine-protein kinase At4g36180 OS=Arabidopsis thaliana GN=At4g36180 PE=1 SV=1

 Score = 63.9 bits (154), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 79/286 (27%), Positives = 121/286 (42%), Gaps = 41/286 (14%)

Query: 10  SKTRICGIIPQQLGNLSNLQFL---------DLSSK--------YLLYVDNFLW------ 46
           S  ++ G IP  LGNL +LQ+L          L S         +L   +N +       
Sbjct: 194 SYNQLTGEIPASLGNLQSLQYLWLDFNLLQGTLPSAISNCSSLVHLSASENEIGGVIPAA 253

Query: 47  LSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNF-SSLTM 105
              +  LE L L   N S    + +  N  L++V+L   N       P  T N  + L +
Sbjct: 254 YGALPKLEVLSLSNNNFSGTVPFSLFCNTSLTIVQLGF-NAFSDIVRPETTANCRTGLQV 312

Query: 106 LDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLT 165
           LDL  N+    F L W+  +  L  LD+  N F G I  + +GNL  +  L L+ N  LT
Sbjct: 313 LDLQENRISGRFPL-WLTNILSLKNLDVSGNLFSGEIPPD-IGNLKRLEELKLA-NNSLT 369

Query: 166 GRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF 225
           G IP  +  C    +     LD   +S+ G + + LG  + L   +L  NS  G++P S 
Sbjct: 370 GEIPVEIKQCGSLDV-----LDFEGNSLKGQIPEFLGYMKALKVLSLGRNSFSGYVPSSM 424

Query: 226 -------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVK 264
                   L++ +N LN + F +    L  +S   + GN+ +  V 
Sbjct: 425 VNLQQLERLNLGENNLNGS-FPVELMALTSLSELDLSGNRFSGAVP 469

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

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	289
255543957	889	serine-threonine protein kinase, plant-t	0.989	0.321	0.394	3e-45
209970622	965	HB06p [Malus floribunda]	0.968	0.290	0.4	3e-44
350284761	915	receptor-like protein [Malus micromalus]	0.982	0.310	0.406	5e-44
350284753	915	receptor-like protein [Malus micromalus]	0.982	0.310	0.406	5e-44
209970631	962	HcrVf4 [Malus floribunda]	0.982	0.295	0.406	6e-44
350284745	976	receptor-like protein [Malus x domestica	0.986	0.292	0.359	9e-44
350284747	978	receptor-like protein [Malus x domestica	0.986	0.291	0.359	1e-43
350284743	978	receptor-like protein [Malus x domestica	0.986	0.291	0.359	1e-43
14330718	915	HcrVf3 protein [Malus floribunda]	0.982	0.310	0.406	2e-43
350284771	978	receptor-like protein [Malus x domestica	0.986	0.291	0.357	3e-43

>gi|255543957|ref|XP_002513041.1| serine-threonine protein kinase, plant-type, putative [Ricinus communis] gi|223548052|gb|EEF49544.1| serine-threonine protein kinase, plant-type, putative [Ricinus communis]

 Score =  187 bits (476), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 138/350 (39%), Positives = 187/350 (53%), Gaps = 64/350 (18%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDL-----SSKYLLYVDNFLWLSGISLLEH 55
           MG+LR+L+ S     G+IP QLGNLSNLQ+L++      + Y LYV++  W+SG++ LE 
Sbjct: 141 MGSLRFLDLSSAGFGGMIPHQLGNLSNLQYLNINVDQFENNYTLYVESLNWVSGLASLEF 200

Query: 56  LDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHF--SPLATVNFSSLTMLDLSHNQF 113
           L L  V+LS A DW  V N L SLVEL LS CQL     +PL + NFSSL +LDLS N  
Sbjct: 201 LALSGVDLSKAIDWFDVLNTLPSLVELHLSLCQLYQVNPAPLPSANFSSLAILDLSRNNL 260

Query: 114 DNSFILSWVFALSHLPFLDLGFNNFQGTIDL-----------------------EALGNL 150
             S +  W+F+L  L  L L  N+F   I +                        A+GNL
Sbjct: 261 GLS-VPHWIFSLEKLTSLCLSNNSFVEEIPIHLLNLTSLEKLVLSHNNFNSSIPSAIGNL 319

Query: 151 TSINRLDLSLNTGLTGRIP-RSMALCNLKSINLQ-----------------------ESL 186
           TS+N LDLS N+ L G IP  S  LCNL+ ++L                        + L
Sbjct: 320 TSLNLLDLSGNS-LEGGIPIASKNLCNLRLLDLSFNKLSQEINEVFEILSKCAPERLKLL 378

Query: 187 DMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLF 239
           D+ S+ + GH T++L QF+NLV  ++ +NSI G IP          ++ I  N L   + 
Sbjct: 379 DLSSNHLPGHFTNRLEQFKNLVFLSVYDNSISGPIPEILGELKFLEDIDISKNLLKGDVS 438

Query: 240 ELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQ-LVALGLHSCYIGSRFP 288
           E+HFANL  + +F   GNQL+L V  DW+P FQ L +L L    +G +FP
Sbjct: 439 EIHFANLTNLRYFYAAGNQLSLRVSPDWVPPFQGLTSLHLRYWQVGPQFP 488

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|209970622|gb|ACJ03072.1| HB06p [Malus floribunda]

 Score =  184 bits (468), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 130/325 (40%), Positives = 173/325 (53%), Gaps = 45/325 (13%)

Query: 4   LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNL 63
           LRYLN S+    G+IP QLGNL+NL FL LS    L V+N  W+S +  L++LDL  VN+
Sbjct: 174 LRYLNLSEAGFRGLIPPQLGNLTNLHFLSLSDN--LKVENLEWISSLFHLKYLDLSSVNV 231

Query: 64  SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVF 123
           S A +WL   NKL  LVEL + +CQL H  PL  +NF+SL++LDLS N FD S +  WVF
Sbjct: 232 SKASNWLQAINKLPFLVELHMVDCQLDHIPPLPIINFTSLSVLDLSENSFD-SLMPRWVF 290

Query: 124 ALSHLPFLDLGFNNFQGTIDLE------ALGNLTSINRLDLSLNT--GLTGRIPRSMALC 175
           +L +L  L L    FQGT          +L NL  +  LDLS N   G    I  S+++C
Sbjct: 291 SLRNLTSLYLENCGFQGTFSSHPKEPDLSLDNLCELMDLDLSYNKFNGNASDIFESLSVC 350

Query: 176 NLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFE-------LH 228
               I   +SL +  ++  GHLT+Q+G+FRNL    +  NSI G IP S         L 
Sbjct: 351 GPDRI---KSLSLSKNNFSGHLTEQVGEFRNLSHLEIYGNSISGPIPISLGNLSCLEFLI 407

Query: 229 IYDNKLNVTLFEL------------------------HFANLIEMSWFRVGGNQLTLEVK 264
           I DN+ N TL E+                        HF++L ++  F    N LTL+  
Sbjct: 408 ISDNRFNGTLPEVLGQLKMLSYLEISDNPFEGVVSEAHFSHLTKLKHFIAARNPLTLKTS 467

Query: 265 HDWIPHFQLVALGLHSCYIGSRFPL 289
            DW+P FQL  L L   ++G  FP+
Sbjct: 468 RDWLPPFQLERLWLDYWHLGPEFPV 492

Source: Malus floribunda

Species: Malus floribunda

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350284761|gb|AEQ27752.1| receptor-like protein [Malus micromalus]

 Score =  184 bits (466), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 122/300 (40%), Positives = 174/300 (58%), Gaps = 16/300 (5%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL-LYVDNFLWLSGISLLEHLDLR 59
           M +L +LN + +R  GIIP +LGNLS+L++L+LSS  + L V+N  W+SG+SLL+HLDL 
Sbjct: 141 MTSLTHLNLAYSRFGGIIPHKLGNLSSLRYLNLSSNSIYLKVENLQWISGLSLLKHLDLS 200

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
            VNLS A DWL V N L SLV+L +S+CQL    PL T NF+SL +LDLS N F NS + 
Sbjct: 201 GVNLSKASDWLQVTNMLPSLVKLIMSDCQLYQIPPLPTTNFTSLVVLDLSFNNF-NSLMP 259

Query: 120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR---IPRSMALCN 176
            WVF+L +L  + L    FQG I      N+T +  +DLS N     R   I  S++ C 
Sbjct: 260 RWVFSLKNLVSIHLSDCGFQGPIP-SISQNITYLREIDLSDNNFTVQRPSEIFESLSRCG 318

Query: 177 LKSINLQESLDMRSSSIYGHLTDQLGQFRNLVT-------FNLVNNSIVGFIPWSFELHI 229
              I   +SL +R++++ G +   LG   +L         FN     ++G +    +L I
Sbjct: 319 PDGI---KSLSLRNTNVSGPIPMSLGNMSSLEKLDISVNQFNGTFTEVIGQLKMLTDLDI 375

Query: 230 YDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL 289
             N L   + E+ F+NL ++  F   GN LTL+   DW+P FQL  L L S ++G ++P+
Sbjct: 376 SYNSLEGAVSEVSFSNLTKLKHFIANGNSLTLKTSRDWVPPFQLEILQLDSWHLGPKWPM 435

Source: Malus micromalus

Species: Malus micromalus

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350284753|gb|AEQ27748.1| receptor-like protein [Malus micromalus]

 Score =  184 bits (466), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 122/300 (40%), Positives = 174/300 (58%), Gaps = 16/300 (5%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL-LYVDNFLWLSGISLLEHLDLR 59
           M +L +LN + +R  GIIP +LGNLS+L++L+LSS  + L V+N  W+SG+SLL+HLDL 
Sbjct: 141 MTSLTHLNLAYSRFGGIIPHKLGNLSSLRYLNLSSNSIYLKVENLQWISGLSLLKHLDLS 200

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
            VNLS A DWL V N L SLV+L +S+CQL    PL T NF+SL +LDLS N F NS + 
Sbjct: 201 GVNLSKASDWLQVTNMLPSLVKLIMSDCQLYQIPPLPTTNFTSLVVLDLSFNNF-NSLMP 259

Query: 120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR---IPRSMALCN 176
            WVF+L +L  + L    FQG I      N+T +  +DLS N     R   I  S++ C 
Sbjct: 260 RWVFSLKNLVSIHLSDCGFQGPIP-SISQNITYLREIDLSDNNFTVQRPSEIFESLSRCG 318

Query: 177 LKSINLQESLDMRSSSIYGHLTDQLGQFRNLVT-------FNLVNNSIVGFIPWSFELHI 229
              I   +SL +R++++ G +   LG   +L         FN     ++G +    +L I
Sbjct: 319 PDGI---KSLSLRNTNVSGPIPMSLGNMSSLEKLDISVNQFNGTFTEVIGQLKMLTDLDI 375

Query: 230 YDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL 289
             N L   + E+ F+NL ++  F   GN LTL+   DW+P FQL  L L S ++G ++P+
Sbjct: 376 SYNSLEGAVSEVSFSNLTKLKHFIANGNSLTLKTSRDWVPPFQLEILQLDSWHLGPKWPM 435

Source: Malus micromalus

Species: Malus micromalus

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|209970631|gb|ACJ03074.1| HcrVf4 [Malus floribunda]

 Score =  183 bits (465), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 122/300 (40%), Positives = 174/300 (58%), Gaps = 16/300 (5%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL-LYVDNFLWLSGISLLEHLDLR 59
           M +L +LN + +R  GIIP +LGNLS+L++L+LSS  + L V+N  W+SG+SLL+HLDL 
Sbjct: 188 MTSLTHLNLAYSRFGGIIPHKLGNLSSLRYLNLSSNSIYLKVENLQWISGLSLLKHLDLS 247

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
            VNLS A DWL V N L SLV+L +S+CQL    PL T NF+SL +LDLS N F NS + 
Sbjct: 248 GVNLSKASDWLQVTNMLPSLVKLIMSDCQLYQIPPLPTTNFTSLVVLDLSFNNF-NSLMP 306

Query: 120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR---IPRSMALCN 176
            WVF+L +L  + L    FQG I      N+T +  +DLS N     R   I  S++ C 
Sbjct: 307 RWVFSLKNLVSIHLSDCGFQGPIP-SISQNITYLREIDLSDNNFTVQRPSEIFESLSRCG 365

Query: 177 LKSINLQESLDMRSSSIYGHLTDQLGQFRNLVT-------FNLVNNSIVGFIPWSFELHI 229
              I   +SL +R++++ G +   LG   +L         FN     ++G +    +L I
Sbjct: 366 PDGI---KSLSLRNTNVSGPIPMSLGNMSSLEKLDISVNQFNGTFTEVIGQLKMLTDLDI 422

Query: 230 YDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL 289
             N L   + E+ F+NL ++  F   GN LTL+   DW+P FQL  L L S ++G ++P+
Sbjct: 423 SYNSLEGAVSEVSFSNLTKLKHFIANGNSLTLKTSRDWVPPFQLEILQLDSWHLGPKWPM 482

Source: Malus floribunda

Species: Malus floribunda

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350284745|gb|AEQ27744.1| receptor-like protein [Malus x domestica]

 Score =  183 bits (464), Expect = 9e-44,   Method: Compositional matrix adjust.
 Identities = 131/364 (35%), Positives = 187/364 (51%), Gaps = 79/364 (21%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           M +L +LN   +   G+IP +LGNL++L++L+LS  Y L V+N  W+SG+SLL+HLDL +
Sbjct: 137 MTSLTHLNLGHSEFGGVIPHKLGNLTSLRYLNLSRLYDLKVENLQWISGLSLLKHLDLSW 196

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
           VNLS A DWL V N L SLVEL +S CQL   +PL T NF+SL +LDLS N F NS +L 
Sbjct: 197 VNLSKASDWLQVTNMLPSLVELDMSYCQLHQITPLPTTNFTSLVVLDLSFNSF-NSLMLR 255

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT------------------ 162
           WVF+L +L  L L F  FQG I      N+TS+  +DLS N+                  
Sbjct: 256 WVFSLKNLVSLHLSFCGFQGLIP-SISQNITSLREIDLSHNSMSLDPIPKWLFNQKNLEL 314

Query: 163 -----GLTGRIPRSMA-LCNLKSINLQESLDMRSSSI--------------------YGH 196
                 LTG++P S+  +  LK +NL+  ++  +S+I                     G 
Sbjct: 315 SLEANQLTGQLPSSIQNMTGLKVLNLE--VNNFNSTIPEWLYSLNNLESLLLSYNYFCGE 372

Query: 197 LTDQLGQFRNLVTFNLVNNSIVGFIPWS-------------------------------F 225
           ++  +G  ++L  F+L +NSI G IP S                                
Sbjct: 373 ISSSIGNLKSLRHFDLSSNSISGPIPMSLGNLSSLEKLDISGNQFNGTFIEVIGQLKMLM 432

Query: 226 ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS 285
           +L I  N L   + E+ F+NL ++  F   GN  TL+   DW+P FQL  L L S ++G 
Sbjct: 433 DLDISYNSLEGAMSEVSFSNLTKLKHFIANGNSFTLKTSRDWVPPFQLEILQLDSWHLGP 492

Query: 286 RFPL 289
           ++P+
Sbjct: 493 KWPM 496

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350284747|gb|AEQ27745.1| receptor-like protein [Malus x domestica]

 Score =  183 bits (464), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 131/364 (35%), Positives = 187/364 (51%), Gaps = 79/364 (21%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           M +L +LN   +   G+IP +LGNL++L++L+LS  Y L V+N  W+SG+SLL+HLDL +
Sbjct: 139 MTSLTHLNLGHSEFGGVIPHKLGNLTSLRYLNLSRLYDLKVENLQWISGLSLLKHLDLSW 198

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
           VNLS A DWL V N L SLVEL +S CQL   +PL T NF+SL +LDLS N F NS +L 
Sbjct: 199 VNLSKASDWLQVTNMLPSLVELDMSYCQLHQITPLPTTNFTSLVVLDLSFNSF-NSLMLR 257

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT------------------ 162
           WVF+L +L  L L F  FQG I      N+TS+  +DLS N+                  
Sbjct: 258 WVFSLKNLVSLHLSFCGFQGLIP-SISQNITSLREIDLSHNSMSLDPIPKWLFNQKNLEL 316

Query: 163 -----GLTGRIPRSMA-LCNLKSINLQESLDMRSSSI--------------------YGH 196
                 LTG++P S+  +  LK +NL+  ++  +S+I                     G 
Sbjct: 317 SLEANQLTGQLPSSIQNMTGLKVLNLE--VNNFNSTIPEWLYSLNNLESLLLSYNYFCGE 374

Query: 197 LTDQLGQFRNLVTFNLVNNSIVGFIPWS-------------------------------F 225
           ++  +G  ++L  F+L +NSI G IP S                                
Sbjct: 375 ISSSIGNLKSLRHFDLSSNSISGPIPMSLGNLSSLEKLDISGNQFNGTFIEVIGQLKMLM 434

Query: 226 ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS 285
           +L I  N L   + E+ F+NL ++  F   GN  TL+   DW+P FQL  L L S ++G 
Sbjct: 435 DLDISYNSLEGAMSEVSFSNLTKLKHFIANGNSFTLKTSRDWVPPFQLEILQLDSWHLGP 494

Query: 286 RFPL 289
           ++P+
Sbjct: 495 KWPM 498

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350284743|gb|AEQ27743.1| receptor-like protein [Malus x domestica]

 Score =  182 bits (463), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 131/364 (35%), Positives = 187/364 (51%), Gaps = 79/364 (21%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           M +L +LN   +   G+IP +LGNL++L++L+LS  Y L V+N  W+SG+SLL+HLDL +
Sbjct: 139 MTSLTHLNLGHSEFGGVIPHKLGNLTSLRYLNLSRLYDLKVENLQWISGLSLLKHLDLSW 198

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
           VNLS A DWL V N L SLVEL +S CQL   +PL T NF+SL +LDLS N F NS +L 
Sbjct: 199 VNLSKASDWLQVTNMLPSLVELDMSYCQLHQITPLPTTNFTSLVVLDLSFNSF-NSLMLR 257

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT------------------ 162
           WVF+L +L  L L F  FQG I      N+TS+  +DLS N+                  
Sbjct: 258 WVFSLKNLVSLHLSFCGFQGLIP-SISQNITSLREIDLSHNSMSLDPIPKWLFNQKNLEL 316

Query: 163 -----GLTGRIPRSMA-LCNLKSINLQESLDMRSSSI--------------------YGH 196
                 LTG++P S+  +  LK +NL+  ++  +S+I                     G 
Sbjct: 317 SLEANQLTGQLPSSIQNMTGLKVLNLE--VNNFNSTIPEWLYSLNNLESLLLSYNYFCGE 374

Query: 197 LTDQLGQFRNLVTFNLVNNSIVGFIPWS-------------------------------F 225
           ++  +G  ++L  F+L +NSI G IP S                                
Sbjct: 375 ISSSIGNLKSLRHFDLSSNSISGPIPMSLGNLSSLEKLDISGNQFNGTFIEVIGQLKMLM 434

Query: 226 ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS 285
           +L I  N L   + E+ F+NL ++  F   GN  TL+   DW+P FQL  L L S ++G 
Sbjct: 435 DLDISYNSLEGAMSEVSFSNLTKLKHFIANGNSFTLKTSRDWVPPFQLEILQLDSWHLGP 494

Query: 286 RFPL 289
           ++P+
Sbjct: 495 KWPM 498

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|14330718|emb|CAC40827.1| HcrVf3 protein [Malus floribunda]

 Score =  182 bits (462), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 122/300 (40%), Positives = 173/300 (57%), Gaps = 16/300 (5%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL-LYVDNFLWLSGISLLEHLDLR 59
           M +L +LN + +R  GIIP +LGNLS+L++L+LSS  + L V+N  W+SG+SLL+HLDL 
Sbjct: 141 MTSLTHLNLAYSRFGGIIPHKLGNLSSLRYLNLSSNSIYLKVENLQWISGLSLLKHLDLS 200

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
            VNLS A DWL V N L SLV+L +S+CQL    PL T NF+SL +LDLS N F NS + 
Sbjct: 201 GVNLSKASDWLQVTNMLPSLVKLIMSDCQLYQIPPLPTTNFTSLVVLDLSFNNF-NSLMP 259

Query: 120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR---IPRSMALCN 176
            WVF+L +L  + L    FQG I      N+T +  +DLS N     R   I  S++ C 
Sbjct: 260 RWVFSLKNLVSIHLSDCGFQGPIP-SISQNITYLREIDLSDNNFTVQRPSEIFESLSRCG 318

Query: 177 LKSINLQESLDMRSSSIYGHLTDQLGQFRNLVT-------FNLVNNSIVGFIPWSFELHI 229
              I   +SL +R++++ GH+   L    +L         FN     ++G +     L I
Sbjct: 319 PDGI---KSLSLRNTNVSGHIPMSLRNLSSLEKLDISVNQFNGTFTEVIGQLKMLTYLDI 375

Query: 230 YDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL 289
             N L   + E+ F+NL ++  F   GN LTL+   DW+P FQL  L L S ++G ++P+
Sbjct: 376 SYNSLESAMSEVTFSNLTKLKNFVAKGNSLTLKTSRDWVPPFQLEILHLDSWHLGPKWPM 435

Source: Malus floribunda

Species: Malus floribunda

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350284771|gb|AEQ27757.1| receptor-like protein [Malus x domestica]

 Score =  181 bits (460), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 130/364 (35%), Positives = 186/364 (51%), Gaps = 79/364 (21%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           M +L +LN   +   G+IP +LGNL++L++L+LS  Y L V+N  W+SG+SLL+HLDL +
Sbjct: 139 MTSLTHLNLGHSEFGGVIPHKLGNLTSLRYLNLSRLYDLKVENLQWISGLSLLKHLDLSW 198

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
           VNLS A DWL V N L SLVEL +S CQL   +PL T NF+SL +LDLS N F NS +L 
Sbjct: 199 VNLSKASDWLQVTNMLPSLVELDMSYCQLHQITPLPTTNFTSLVVLDLSFNSF-NSLMLR 257

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT------------------ 162
           WVF+L +L  L L F  FQG I      N+TS+  +DLS N+                  
Sbjct: 258 WVFSLKNLVSLHLSFCGFQGLIP-SISQNITSLREIDLSHNSMSLDPIPKWLFNQKNLEL 316

Query: 163 -----GLTGRIPRSMA-LCNLKSINLQESLDMRSSSI--------------------YGH 196
                  TG++P S+  +  LK +NL+  ++  +S+I                     G 
Sbjct: 317 SLEANQFTGQLPSSIQNMTGLKVLNLE--VNNFNSTIPEWLYSLNNLESLLLSYNYFCGE 374

Query: 197 LTDQLGQFRNLVTFNLVNNSIVGFIPWS-------------------------------F 225
           ++  +G  ++L  F+L +NSI G IP S                                
Sbjct: 375 ISSSIGNLKSLRHFDLSSNSISGPIPMSLGNLSSLEKLDISGNQFNGTFIEVIGQLKMLM 434

Query: 226 ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS 285
           +L I  N L   + E+ F+NL ++  F   GN  TL+   DW+P FQL  L L S ++G 
Sbjct: 435 DLDISYNSLEGAMSEVSFSNLTKLKHFIANGNSFTLKTSRDWVPPFQLEILQLDSWHLGP 494

Query: 286 RFPL 289
           ++P+
Sbjct: 495 KWPM 498

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

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	289
TAIR|locus:2044767	905	AT2G34930 "AT2G34930" [Arabido	0.750	0.239	0.368	5.2e-23
TAIR|locus:2005540	999	HAE "HAESA" [Arabidopsis thali	0.712	0.206	0.318	3.4e-19
TAIR|locus:2074633	943	RLP35 "AT3G11080" [Arabidopsis	0.826	0.253	0.310	3e-16
TAIR|locus:2120362	1249	GSO1 "GASSHO1" [Arabidopsis th	0.730	0.168	0.331	1.9e-15
TAIR|locus:2037308	976	RLP14 "AT1G74180" [Arabidopsis	0.802	0.237	0.315	3.4e-15
TAIR|locus:2055772	983	RLP19 "receptor like protein 1	0.833	0.245	0.324	1.4e-14
TAIR|locus:2156349	1252	GSO2 "GASSHO 2" [Arabidopsis t	0.923	0.213	0.301	2e-14
TAIR|locus:2182855	967	ERL2 "ERECTA-like 2" [Arabidop	0.723	0.216	0.339	2e-14
TAIR|locus:2167948	966	ERL1 "ERECTA-like 1" [Arabidop	0.719	0.215	0.306	3.2e-14
TAIR|locus:2144392	957	RLP53 "receptor like protein 5	0.733	0.221	0.318	2.4e-13

TAIR|locus:2044767 AT2G34930 "AT2G34930" [Arabidopsis thaliana (taxid:3702)]

 Score = 277 (102.6 bits), Expect = 5.2e-23, P = 5.2e-23
 Identities = 87/236 (36%), Positives = 128/236 (54%)

Query:     3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDL-------SSKYLLYVDNFLWLSGISL-LE 54
             +LRYLN S +   G IP  LGNLS L+ LDL       S    L   N  WLS +S  L+
Sbjct:   138 SLRYLNLSSSSFSGEIPTSLGNLSKLESLDLYAESFGDSGTLSLRASNLRWLSSLSSSLK 197

Query:    55 HLDLRYVNLSIAFD-WLMVANKLLSLVELRLSNCQLQHFSPL--ATVNFSSLTMLDLSHN 111
             +L++ YVNLS A + WL   +++ +L EL L N +L++  P   ++ +   L +LDLS N
Sbjct:   198 YLNMGYVNLSGAGETWLQDFSRISALKELHLFNSELKNLPPTLSSSADLKLLEVLDLSEN 257

Query:   112 QFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRS 171
                NS I +W+F L++L  L L ++  QG+I      NL  +  LDLS N  L G IP  
Sbjct:   258 SL-NSPIPNWLFGLTNLRKLFLRWDFLQGSIPT-GFKNLKLLETLDLSNNLALQGEIPSV 315

Query:   172 MA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFR--NLVTFNLVNNSIVGFIPWS 224
             +  L  LK ++L  S +  +  I+G L D   + +  +LV  +L +N + G +P S
Sbjct:   316 LGDLPQLKFLDL--SANELNGQIHGFL-DAFSRNKGNSLVFLDLSSNKLAGTLPES 368

GO:0006952 "defense response" evidence=ISS

GO:0007165 "signal transduction" evidence=IC

GO:0005618 "cell wall" evidence=IDA

GO:0050832 "defense response to fungus" evidence=IEP;IMP

TAIR|locus:2005540 HAE "HAESA" [Arabidopsis thaliana (taxid:3702)]

 Score = 242 (90.2 bits), Expect = 3.4e-19, P = 3.4e-19
 Identities = 71/223 (31%), Positives = 116/223 (52%)

Query:     3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
             NL++L  S   +   IP   G    L+ L+L+  +L        L  ++ L+ L L Y N
Sbjct:   140 NLKFLEISGNNLSDTIPSSFGEFRKLESLNLAGNFLSGTIPAS-LGNVTTLKELKLAY-N 197

Query:    63 LSIAFDWLMVANKLLSLVELR---LSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
             L   F    + ++L +L EL+   L+ C L    P +    +SL  LDL+ NQ   S I 
Sbjct:   198 L---FSPSQIPSQLGNLTELQVLWLAGCNLVGPIPPSLSRLTSLVNLDLTFNQLTGS-IP 253

Query:   120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
             SW+  L  +  ++L  N+F G +  E++GN+T++ R D S+N  LTG+IP ++ L NL+S
Sbjct:   254 SWITQLKTVEQIELFNNSFSGELP-ESMGNMTTLKRFDASMNK-LTGKIPDNLNLLNLES 311

Query:   180 INLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
             +NL E++      + G L + + + + L    L NN + G +P
Sbjct:   312 LNLFENM------LEGPLPESITRSKTLSELKLFNNRLTGVLP 348

GO:0004672 "protein kinase activity" evidence=IEA;IDA

GO:0004674 "protein serine/threonine kinase activity" evidence=IEA;ISS

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=ISM

GO:0006468 "protein phosphorylation" evidence=IEA;ISS

GO:0007169 "transmembrane receptor protein tyrosine kinase signaling pathway" evidence=ISS

GO:0016301 "kinase activity" evidence=ISS

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IEA

GO:0046777 "protein autophosphorylation" evidence=IDA

GO:0002237 "response to molecule of bacterial origin" evidence=RCA

GO:0007165 "signal transduction" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

TAIR|locus:2074633 RLP35 "AT3G11080" [Arabidopsis thaliana (taxid:3702)]

 Score = 214 (80.4 bits), Expect = 3.0e-16, P = 3.0e-16
 Identities = 83/267 (31%), Positives = 129/267 (48%)

Query:     3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLS-SKYLLYVDNFLW-LSGISLLEHLDLRY 60
             NLR L+ ++  + G IP  +GNLS+L  L LS +++L  + + +  LS ++ L HL    
Sbjct:   126 NLRVLDLTQNDLDGEIPSSIGNLSHLTSLHLSYNQFLGLIPSSIENLSRLTSL-HLSSNQ 184

Query:    61 VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
              +  I      + N L  L  L LS+ Q     P +  N S+LT L L  N F    I S
Sbjct:   185 FSGQIPSS---IGN-LSHLTSLELSSNQFSGQIPSSIGNLSNLTFLSLPSNDFFGQ-IPS 239

Query:   121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSI 180
              +  L+ L +L L +NNF G I   + GNL  +  L +  N  L+G +P  ++L NL  +
Sbjct:   240 SIGNLARLTYLYLSYNNFVGEIP-SSFGNLNQLIVLQVDSNK-LSGNVP--ISLLNLTRL 295

Query:   181 NLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNK 233
             +   +L +  +   G + + +    NL+ F   NN+  G +P S         L + DN+
Sbjct:   296 S---ALLLSHNQFTGTIPNNISLLSNLMDFEASNNAFTGTLPSSLFNIPPLIRLDLSDNQ 352

Query:   234 LNVTLFELHFANLIEMS---WFRVGGN 257
             LN TL   HF N+   S   +  +G N
Sbjct:   353 LNGTL---HFGNISSPSNLQYLIIGSN 376

GO:0006952 "defense response" evidence=ISS

GO:0016301 "kinase activity" evidence=ISS

GO:0007165 "signal transduction" evidence=IC

TAIR|locus:2120362 GSO1 "GASSHO1" [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 1.9e-15, P = 1.9e-15
 Identities = 74/223 (33%), Positives = 107/223 (47%)

Query:     3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
             NL  L   K ++ G IP  LG +  L  LD+SS  L      L L     L H+DL    
Sbjct:   600 NLDRLRLGKNQLTGKIPWTLGKIRELSLLDMSSNALTGTIP-LQLVLCKKLTHIDLNNNF 658

Query:    63 LSIAFD-WLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
             LS     WL    KL  L EL+LS+ Q     P    N + L +L L  N  + S I   
Sbjct:   659 LSGPIPPWL---GKLSQLGELKLSSNQFVESLPTELFNCTKLLVLSLDGNSLNGS-IPQE 714

Query:   122 VFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
             +  L  L  L+L  N F G++  +A+G L+ +  L LS N+ LTG IP  + +  L+  +
Sbjct:   715 IGNLGALNVLNLDKNQFSGSLP-QAMGKLSKLYELRLSRNS-LTGEIP--VEIGQLQ--D 768

Query:   182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWS 224
             LQ +LD+  ++  G +   +G    L T +L +N + G +P S
Sbjct:   769 LQSALDLSYNNFTGDIPSTIGTLSKLETLDLSHNQLTGEVPGS 811

GO:0004672 "protein kinase activity" evidence=IEA

GO:0004674 "protein serine/threonine kinase activity" evidence=IEA;ISS

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0006468 "protein phosphorylation" evidence=IEA;ISS

GO:0007169 "transmembrane receptor protein tyrosine kinase signaling pathway" evidence=ISS

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IEA

GO:0008544 "epidermis development" evidence=IGI

GO:0009790 "embryo development" evidence=IGI

TAIR|locus:2037308 RLP14 "AT1G74180" [Arabidopsis thaliana (taxid:3702)]

 Score = 210 (79.0 bits), Expect = 3.4e-15, P = 3.4e-15
 Identities = 81/257 (31%), Positives = 124/257 (48%)

Query:    41 VDNFLWLSGISLLEHLDL--RYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATV 98
             V+ +  L  +  LE LDL     N SI F +L   N   SL  L + +  +    P+  +
Sbjct:   128 VEGYESLRRLRNLEILDLSSNSFNNSI-FPFL---NAATSLTTLFIQSNYIGGPLPIKEL 183

Query:    99 -NFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLD 157
              N + L +LDLS + ++ S I  +   L  L  LDL  N+F   ++L+ L  LT++  L 
Sbjct:   184 KNLTKLELLDLSRSGYNGS-IPEFTH-LEKLKALDLSANDFSSLVELQELKVLTNLEVLG 241

Query:   158 LSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSI 217
             L+ N  L G IP+ +  C +K  NL++ LD+R +   G L   LG    L   +L +N +
Sbjct:   242 LAWNH-LDGPIPKEV-FCEMK--NLRQ-LDLRGNYFEGQLPVCLGNLNKLRVLDLSSNQL 296

Query:   218 VGFIPWSFE-------LHIYDNKLNVTLFELH-FANLIEMSWFRVGGNQ--LTLEVKHDW 267
              G +P SF        L + DN      F L+  ANL ++  FR+      L +E + +W
Sbjct:   297 SGNLPASFNSLESLEYLSLSDNNFE-GFFSLNPLANLTKLKVFRLSSTSEMLQVETESNW 355

Query:   268 IPHFQLVALGLHSCYIG 284
             +P FQL    L  C +G
Sbjct:   356 LPKFQLTVAALPFCSLG 372

GO:0007165 "signal transduction" evidence=IC

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2055772 RLP19 "receptor like protein 19" [Arabidopsis thaliana (taxid:3702)]

 Score = 207 (77.9 bits), Expect = 1.4e-14, P = 1.4e-14
 Identities = 88/271 (32%), Positives = 123/271 (45%)

Query:     1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWL--SGISLLEHL-- 56
             + NL  L+ S+    G IP  +GNLS+L F+D S       +NF     S +  L HL  
Sbjct:   135 LSNLTTLDLSRNHFSGRIPSSIGNLSHLIFVDFSH------NNFSGQIPSSLGYLSHLTS 188

Query:    57 -DLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN 115
              +L Y N S       + N L  L  LRLS        P +  +   LT L L  N F  
Sbjct:   189 FNLSYNNFSGRVP-SSIGN-LSYLTTLRLSRNSFFGELPSSLGSLFHLTDLILDTNHFVG 246

Query:   116 SFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALC 175
               I S +  LSHL  +DL  NNF G I   +LGNL+ +    LS N  + G IP S    
Sbjct:   247 K-IPSSLGNLSHLTSIDLHKNNFVGEIPF-SLGNLSCLTSFILSDNN-IVGEIPSSFG-- 301

Query:   176 NLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLN 235
             NL  +++   L+++S+ + G     L   R L T +L NN + G +P +       +  N
Sbjct:   302 NLNQLDI---LNVKSNKLSGSFPIALLNLRKLSTLSLFNNRLTGTLPSNMS-----SLSN 353

Query:   236 VTLF---ELHFANLIEMSWFRVGG-NQLTLE 262
             + LF   E HF   +  S F +     +TLE
Sbjct:   354 LKLFDATENHFTGPLPSSLFNIPSLKTITLE 384

GO:0005576 "extracellular region" evidence=ISM

GO:0006952 "defense response" evidence=ISS

GO:0016301 "kinase activity" evidence=ISS

GO:0007165 "signal transduction" evidence=IC

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

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

GO:0009617 "response to bacterium" evidence=RCA

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

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

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

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

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

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

TAIR|locus:2156349 GSO2 "GASSHO 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 207 (77.9 bits), Expect = 2.0e-14, P = 2.0e-14
 Identities = 88/292 (30%), Positives = 135/292 (46%)

Query:     3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYV--DNFLWLSGISLLEHLDLRY 60
             +++YLN    ++ G+IP++L  L+NLQ LDLSS  L  V  + F W   ++ LE L L  
Sbjct:   265 SIQYLNLIGNQLQGLIPKRLTELANLQTLDLSSNNLTGVIHEEF-WR--MNQLEFLVLAK 321

Query:    61 VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
               LS +    + +N   SL +L LS  QL    P    N  SL +LDLS+N      I  
Sbjct:   322 NRLSGSLPKTICSNNT-SLKQLFLSETQLSGEIPAEISNCQSLKLLDLSNNTLTGQ-IPD 379

Query:   121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSI 180
              +F L  L  L L  N+ +GT+   ++ NLT++    L  N  L G++P+ +    L  +
Sbjct:   380 SLFQLVELTNLYLNNNSLEGTLS-SSISNLTNLQEFTLYHNN-LEGKVPKEIGF--LGKL 435

Query:   181 NLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNK 233
              +    + R S   G +  ++G    L   +   N + G IP S         LH+ +N+
Sbjct:   436 EIMYLYENRFS---GEMPVEIGNCTRLQEIDWYGNRLSGEIPSSIGRLKDLTRLHLRENE 492

Query:   234 LNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS 285
             L V        N  +M+   +  NQL+  +   +   F L AL L   Y  S
Sbjct:   493 L-VGNIPASLGNCHQMTVIDLADNQLSGSIPSSF--GF-LTALELFMIYNNS 540

GO:0004672 "protein kinase activity" evidence=IEA

GO:0004674 "protein serine/threonine kinase activity" evidence=IEA;ISS

GO:0004713 "protein tyrosine kinase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0006468 "protein phosphorylation" evidence=IEA;ISS

GO:0007169 "transmembrane receptor protein tyrosine kinase signaling pathway" evidence=ISS

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IEA

GO:0009553 "embryo sac development" evidence=IMP

GO:0008544 "epidermis development" evidence=IGI

GO:0009790 "embryo development" evidence=IGI

TAIR|locus:2182855 ERL2 "ERECTA-like 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 206 (77.6 bits), Expect = 2.0e-14, P = 2.0e-14
 Identities = 76/224 (33%), Positives = 109/224 (48%)

Query:     1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL--LYVDNFLWLSGISLLEHLDL 58
             M  L YL  +   + G IP +LG L  L  L+L++  L  L   N   +S  + L   ++
Sbjct:   335 MSRLSYLQLNDNELVGKIPPELGKLEQLFELNLANNNLVGLIPSN---ISSCAALNQFNV 391

Query:    59 RYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFI 118
                 LS A   L   N L SL  L LS+   +   P    +  +L  LDLS N F  S  
Sbjct:   392 HGNFLSGAVP-LEFRN-LGSLTYLNLSSNSFKGKIPAELGHIINLDTLDLSGNNFSGSIP 449

Query:   119 LSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLK 178
             L+ +  L HL  L+L  N+  GT+  E  GNL SI  +D+S N  L G IP  +    L+
Sbjct:   450 LT-LGDLEHLLILNLSRNHLNGTLPAE-FGNLRSIQIIDVSFNF-LAGVIPTELG--QLQ 504

Query:   179 SINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
             +IN   SL + ++ I+G + DQL    +L   N+  N++ G IP
Sbjct:   505 NIN---SLILNNNKIHGKIPDQLTNCFSLANLNISFNNLSGIIP 545

GO:0004672 "protein kinase activity" evidence=IEA

GO:0004674 "protein serine/threonine kinase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0016301 "kinase activity" evidence=ISS

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IEA

GO:0010103 "stomatal complex morphogenesis" evidence=IGI;RCA

GO:0009553 "embryo sac development" evidence=IGI

GO:0048481 "ovule development" evidence=IGI;RCA

GO:0002237 "response to molecule of bacterial origin" evidence=RCA

GO:0007165 "signal transduction" evidence=RCA

GO:0009686 "gibberellin biosynthetic process" evidence=RCA

GO:0009740 "gibberellic acid mediated signaling pathway" evidence=RCA

GO:0009845 "seed germination" evidence=RCA

GO:0009886 "post-embryonic morphogenesis" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

GO:0048507 "meristem development" evidence=RCA

GO:0048608 "reproductive structure development" evidence=RCA

TAIR|locus:2167948 ERL1 "ERECTA-like 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 205 (77.2 bits), Expect = 3.2e-14, P = 3.2e-14
 Identities = 69/225 (30%), Positives = 111/225 (49%)

Query:     1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLL--YVDNFLWLSGISLLE-HLD 57
             M  L YL  +  ++ G IP +LG L  L  L+L++  L+     N    + ++    H +
Sbjct:   333 MSRLSYLQLNDNKLVGTIPPELGKLEQLFELNLANNRLVGPIPSNISSCAALNQFNVHGN 392

Query:    58 LRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSF 117
             L   ++ +AF        L SL  L LS+   +   P+   +  +L  LDLS N F  S 
Sbjct:   393 LLSGSIPLAF------RNLGSLTYLNLSSNNFKGKIPVELGHIINLDKLDLSGNNFSGSI 446

Query:   118 ILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNL 177
              L+ +  L HL  L+L  N+  G +  E  GNL SI  +D+S N  L+G IP  +    L
Sbjct:   447 PLT-LGDLEHLLILNLSRNHLSGQLPAE-FGNLRSIQMIDVSFNL-LSGVIPTELG--QL 501

Query:   178 KSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
             +++N   SL + ++ ++G + DQL     LV  N+  N++ G +P
Sbjct:   502 QNLN---SLILNNNKLHGKIPDQLTNCFTLVNLNVSFNNLSGIVP 543

GO:0004672 "protein kinase activity" evidence=IEA

GO:0004674 "protein serine/threonine kinase activity" evidence=IEA

GO:0004713 "protein tyrosine kinase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005576 "extracellular region" evidence=ISM

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0016301 "kinase activity" evidence=ISS

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IEA

GO:0010103 "stomatal complex morphogenesis" evidence=IGI;RCA

GO:0009553 "embryo sac development" evidence=IGI

GO:0048481 "ovule development" evidence=IGI;RCA

GO:0016020 "membrane" evidence=IDA

GO:0001708 "cell fate specification" evidence=RCA

GO:0002237 "response to molecule of bacterial origin" evidence=RCA

GO:0007165 "signal transduction" evidence=RCA

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

GO:0009886 "post-embryonic morphogenesis" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0048441 "petal development" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

GO:0048507 "meristem development" evidence=RCA

TAIR|locus:2144392 RLP53 "receptor like protein 53" [Arabidopsis thaliana (taxid:3702)]

 Score = 199 (75.1 bits), Expect = 2.4e-13, P = 2.4e-13
 Identities = 72/226 (31%), Positives = 106/226 (46%)

Query:     1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDL-SSKYLLYVDNFLWLSGISLLEHLDLR 59
             + +L YL+ S     G I   +GNLS L +L+L  +++     + +    +S L  LDL 
Sbjct:   144 LSHLTYLDLSSNHFSGQILNSIGNLSRLTYLNLFDNQFSGQAPSSI--CNLSHLTFLDLS 201

Query:    60 YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
             Y      F   +    L  L  L L + +     P +  N S+LT LDLS+N F    I 
Sbjct:   202 YNRFFGQFPSSI--GGLSHLTTLSLFSNKFSGQIPSSIGNLSNLTTLDLSNNNFSGQ-IP 258

Query:   120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
             S++  LS L FL L  NNF G I   + GNL  + RL +  N  L+G  P    L NL  
Sbjct:   259 SFIGNLSQLTFLGLFSNNFVGEIP-SSFGNLNQLTRLYVDDNK-LSGNFPN--VLLNLTG 314

Query:   180 INLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF 225
             ++L   L + ++   G L   +    NL+ F+  +N+  G  P SF
Sbjct:   315 LSL---LSLSNNKFTGTLPPNITSLSNLMDFDASDNAFTGTFP-SF 356

GO:0005576 "extracellular region" evidence=ISM

GO:0006952 "defense response" evidence=ISS

GO:0016301 "kinase activity" evidence=ISS

GO:0007165 "signal transduction" evidence=IC

---

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: eugene3.00101000 hypothetical protein (995 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	289
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	2e-11
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	1e-08
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	3e-07
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	9e-07
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	4e-04
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	9e-04
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.003

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 64.1 bits (156), Expect = 2e-11
 Identities = 82/296 (27%), Positives = 132/296 (44%), Gaps = 51/296 (17%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL---LYVDNFLWLSGISLLEHLDLR 59
           +LRYLN S     G IP+  G++ NL+ LDLS+  L   +  D    +   S L+ LDL 
Sbjct: 119 SLRYLNLSNNNFTGSIPR--GSIPNLETLDLSNNMLSGEIPND----IGSFSSLKVLDLG 172

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
                         N L+  +             P +  N +SL  L L+ NQ     I 
Sbjct: 173 -------------GNVLVGKI-------------PNSLTNLTSLEFLTLASNQLVGQ-IP 205

Query: 120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
             +  +  L ++ LG+NN  G I  E +G LTS+N LDL  N  LTG IP S  L NLK+
Sbjct: 206 RELGQMKSLKWIYLGYNNLSGEIPYE-IGGLTSLNHLDLVYNN-LTGPIPSS--LGNLKN 261

Query: 180 INLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP------WSFE-LHIYDN 232
           +   + L +  + + G +   +   + L++ +L +NS+ G IP       + E LH++ N
Sbjct: 262 L---QYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSN 318

Query: 233 KLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFP 288
                +  +   +L  +   ++  N+ + E+  +   H  L  L L +  +    P
Sbjct: 319 NFTGKI-PVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIP 373

Length = 968

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 55.2 bits (133), Expect = 1e-08
 Identities = 65/235 (27%), Positives = 96/235 (40%), Gaps = 38/235 (16%)

Query: 4   LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLL-YVDNFLWLSGISLLEHLDLRYVN 62
           L+ L     +  G IP+ LG  +NL  LDLS+  L   +   L  SG     +L      
Sbjct: 334 LQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSG-----NL------ 382

Query: 63  LSIAFDWLMVANKLLSLVELRLSNC--------QLQHFSPLATVNFSSLTM---LDLSHN 111
               F  ++ +N L   +   L  C        Q   FS      F+ L +   LD+S+N
Sbjct: 383 ----FKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNN 438

Query: 112 QFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRS 171
                 I S  + +  L  L L  N F G   L        +  LDLS N   +G +PR 
Sbjct: 439 NLQGR-INSRKWDMPSLQMLSLARNKFFG--GLPDSFGSKRLENLDLSRNQ-FSGAVPRK 494

Query: 172 -MALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF 225
             +L  L  + L E+       + G + D+L   + LV+ +L +N + G IP SF
Sbjct: 495 LGSLSELMQLKLSEN------KLSGEIPDELSSCKKLVSLDLSHNQLSGQIPASF 543

Length = 968

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 51.0 bits (122), Expect = 3e-07
 Identities = 44/168 (26%), Positives = 72/168 (42%), Gaps = 27/168 (16%)

Query: 99  NFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL 158
           N S +  +DLS        I S +F L ++  ++L  N   G I  +     +S+  L+L
Sbjct: 67  NSSRVVSIDLSGKNISGK-ISSAIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNL 125

Query: 159 SLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV 218
           S N   TG IPR        SI   E+LD+ ++ + G + + +G F +L   +L  N +V
Sbjct: 126 S-NNNFTGSIPRG-------SIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLV 177

Query: 219 GFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHD 266
           G IP S                    NL  + +  +  NQL  ++  +
Sbjct: 178 GKIPNS------------------LTNLTSLEFLTLASNQLVGQIPRE 207

Length = 968

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 49.8 bits (119), Expect = 9e-07
 Identities = 78/249 (31%), Positives = 110/249 (44%), Gaps = 34/249 (13%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLW------LSGISLLE 54
           M +L+++      + G IP ++G L++L  LDL       V N L       L  +  L+
Sbjct: 211 MKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDL-------VYNNLTGPIPSSLGNLKNLQ 263

Query: 55  HLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD 114
           +L L    LS      + +  L  L+ L LS+  L    P   +   +L +L L  N F 
Sbjct: 264 YLFLYQNKLSGPIPPSIFS--LQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFT 321

Query: 115 NSFILSWVFALSHLPFLDLGFNNFQGTI--DLEALGNLTSINRLDLSLNTGLTGRIPRSM 172
              I   + +L  L  L L  N F G I  +L    NLT    LDLS N  LTG IP   
Sbjct: 322 GK-IPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTV---LDLSTNN-LTGEIPEG- 375

Query: 173 ALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFE------ 226
            LC+  S NL + L + S+S+ G +   LG  R+L    L +NS  G +P  F       
Sbjct: 376 -LCS--SGNLFK-LILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVY 431

Query: 227 -LHIYDNKL 234
            L I +N L
Sbjct: 432 FLDISNNNL 440

Length = 968

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 41.3 bits (97), Expect = 4e-04
 Identities = 28/73 (38%), Positives = 43/73 (58%), Gaps = 3/73 (4%)

Query: 111 NQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPR 170
           NQ    FI + +  L HL  ++L  N+ +G I   +LG++TS+  LDLS N+   G IP 
Sbjct: 427 NQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPP-SLGSITSLEVLDLSYNS-FNGSIPE 484

Query: 171 SMA-LCNLKSINL 182
           S+  L +L+ +NL
Sbjct: 485 SLGQLTSLRILNL 497

Length = 623

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 40.2 bits (94), Expect = 9e-04
 Identities = 29/98 (29%), Positives = 48/98 (48%), Gaps = 27/98 (27%)

Query: 75  KLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLG 134
           KL  L  + LS   ++   P +  + +SL +LDLS+N F+ S           +P     
Sbjct: 440 KLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGS-----------IP----- 483

Query: 135 FNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSM 172
                     E+LG LTS+  L+L+ N+ L+GR+P ++
Sbjct: 484 ----------ESLGQLTSLRILNLNGNS-LSGRVPAAL 510

Length = 623

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 39/120 (32%), Positives = 53/120 (44%), Gaps = 15/120 (12%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYV--DNFLWLSGISLLEHLDLRY 60
            L  L+ S+ +  G +P++LG+LS L  L LS   L     D    LS    L  LDL +
Sbjct: 476 RLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDE---LSSCKKLVSLDLSH 532

Query: 61  VNLS----IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS 116
             LS     +F  + V      L +L LS  QL    P    N  SL  +++SHN    S
Sbjct: 533 NQLSGQIPASFSEMPV------LSQLDLSQNQLSGEIPKNLGNVESLVQVNISHNHLHGS 586

Length = 968

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	289
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.98
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.94
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.94
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.9
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.89
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.85
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.81
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.79
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.78
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.76
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.73
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.71
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.7
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.69
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.69
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.68
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.66
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.65
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.64
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.6
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.55
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.42
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.29
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.21
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.17
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.16
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.15
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.14
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.12
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.09
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	99.04
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	99.0
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.0
PLN03150	623	hypothetical protein; Provisional	98.9
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.83
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.81
PLN03150	623	hypothetical protein; Provisional	98.79
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.78
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.7
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.62
KOG4341	483	consensus F-box protein containing LRR [General fu	98.6
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.57
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.54
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.54
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.53
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.35
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.15
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.14
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.14
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.14
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.08
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.07
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.03
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.02
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.0
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.98
KOG4341	483	consensus F-box protein containing LRR [General fu	97.91
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.76
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.75
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.6
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.45
PRK15386	426	type III secretion protein GogB; Provisional	97.4
PRK15386	426	type III secretion protein GogB; Provisional	97.24
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	97.23
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.09
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.03
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	97.03
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.9
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.12
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.07
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	95.32
KOG1947	482	consensus Leucine rich repeat proteins, some prote	94.84
KOG4308	478	consensus LRR-containing protein [Function unknown	93.04
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	92.8
KOG4308	478	consensus LRR-containing protein [Function unknown	92.73
KOG3864	221	consensus Uncharacterized conserved protein [Funct	91.96
KOG3864	221	consensus Uncharacterized conserved protein [Funct	91.21
smart00370	26	LRR Leucine-rich repeats, outliers.	88.77
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	88.77
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	86.48
smart00368	28	LRR_RI Leucine rich repeat, ribonuclease inhibitor	80.19

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

Probab=100.00  E-value=8.4e-32  Score=253.71  Aligned_cols=280  Identities=26%  Similarity=0.338  Sum_probs=164.3

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|++|++++|.+++..|..++++++|++|++++|.+....+.. +.++++|++|++++|.+....  +..+..+++|++
T Consensus       140 ~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~-~~~l~~L~~L~L~~n~l~~~~--p~~l~~l~~L~~  216 (968)
T PLN00113        140 PNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNS-LTNLTSLEFLTLASNQLVGQI--PRELGQMKSLKW  216 (968)
T ss_pred             CCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChh-hhhCcCCCeeeccCCCCcCcC--ChHHcCcCCccE
Confidence            45556666666655556666666666666666666543222221 455666666666666554431  124555666666


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|.+....+..++.+++|+.|++++|.++ ...+..++.+++|++|++++|.+.+.+ |..+..+++|++|++++|
T Consensus       217 L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~-~~~p~~l~~l~~L~~L~L~~n~l~~~~-p~~l~~l~~L~~L~Ls~n  294 (968)
T PLN00113        217 IYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLT-GPIPSSLGNLKNLQYLFLYQNKLSGPI-PPSIFSLQKLISLDLSDN  294 (968)
T ss_pred             EECcCCccCCcCChhHhcCCCCCEEECcCceec-cccChhHhCCCCCCEEECcCCeeeccC-chhHhhccCcCEEECcCC
Confidence            666666665555555556666666666666554 445555555666666666666555444 445555556666666655


Q ss_pred             CcccCCCCcccc-ccCcceeeccc------------------cccccCCcccccccccccCCCCCcEEEccCCeeeecCC
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQE------------------SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP  222 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~------------------~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  222 (289)
                      . +.+..|..+. +++|+.|+++.                  .+++++|.+.+.+|..++.+++|+.|++++|.+.+.+|
T Consensus       295 ~-l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p  373 (968)
T PLN00113        295 S-LSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIP  373 (968)
T ss_pred             e-eccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEeeCC
Confidence            5 4445555555 55555555422                  23345666666666666666666666666666665554


Q ss_pred             Cce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCccCCC
Q 040144          223 WSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFP  288 (289)
Q Consensus       223 ~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~p  288 (289)
                      ..+       .+++.+|.+.+.+|. .+..+++|+.|++++|++++..|..+..+++|+.+++++|++++.+|
T Consensus       374 ~~~~~~~~L~~L~l~~n~l~~~~p~-~~~~~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~~  445 (968)
T PLN00113        374 EGLCSSGNLFKLILFSNSLEGEIPK-SLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNNLQGRIN  445 (968)
T ss_pred             hhHhCcCCCCEEECcCCEecccCCH-HHhCCCCCCEEECcCCEeeeECChhHhcCCCCCEEECcCCcccCccC
Confidence            433       566666666655665 66666777777777777776666666666666666666666665444

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

Probab=99.98  E-value=1.6e-31  Score=251.89  Aligned_cols=283  Identities=26%  Similarity=0.309  Sum_probs=192.1

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +++|++|++.+|.+++..|..+.++++|++|++++|.+....+.. +.++++|++|++++|.+....+  ..+..+++|+
T Consensus       259 l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~-~~~l~~L~~L~l~~n~~~~~~~--~~~~~l~~L~  335 (968)
T PLN00113        259 LKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPEL-VIQLQNLEILHLFSNNFTGKIP--VALTSLPRLQ  335 (968)
T ss_pred             CCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChh-HcCCCCCcEEECCCCccCCcCC--hhHhcCCCCC
Confidence            356677777777776666666777777777777766544322211 4456666666666665544311  1444555556


Q ss_pred             EEEccCCccCCCCcccccCCCCCcEEeccCCCCCC-----------------------cchhhHhhcCCCCCEEEccCce
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN-----------------------SFILSWVFALSHLPFLDLGFNN  137 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~-----------------------~~~~~~~~~~~~L~~L~l~~n~  137 (289)
                      .|++.+|.+....+..++.+++|+.|++++|.++.                       ...+..+..+++|+.|++.+|.
T Consensus       336 ~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~  415 (968)
T PLN00113        336 VLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNS  415 (968)
T ss_pred             EEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEEECcCCE
Confidence            66665555554444444445555555555444430                       3344455566667777777777


Q ss_pred             eeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccc-----------------cccccCCcccccccc
Q 040144          138 FQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQE-----------------SLDMRSSSIYGHLTD  199 (289)
Q Consensus       138 ~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~-----------------~l~l~~~~~~~~~~~  199 (289)
                      +.+.. |..+..++.|+.+++++|. +.+..|..+. +++|+.|+++.                 .+++++|.+.+..|.
T Consensus       416 l~~~~-p~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p~~~~~~~L~~L~ls~n~l~~~~~~  493 (968)
T PLN00113        416 FSGEL-PSEFTKLPLVYFLDISNNN-LQGRINSRKWDMPSLQMLSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGAVPR  493 (968)
T ss_pred             eeeEC-ChhHhcCCCCCEEECcCCc-ccCccChhhccCCCCcEEECcCceeeeecCcccccccceEEECcCCccCCccCh
Confidence            76555 5666777777777777776 6655555555 66777766653                 466677888777888


Q ss_pred             cccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCcccccc
Q 040144          200 QLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQ  272 (289)
Q Consensus       200 ~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~  272 (289)
                      .+..+++|+.|++++|.+.+.+|..+       .|++++|.+++.+|. .+.++++|+.|++++|++.+.+|..+..+++
T Consensus       494 ~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~-~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~  572 (968)
T PLN00113        494 KLGSLSELMQLKLSENKLSGEIPDELSSCKKLVSLDLSHNQLSGQIPA-SFSEMPVLSQLDLSQNQLSGEIPKNLGNVES  572 (968)
T ss_pred             hhhhhhccCEEECcCCcceeeCChHHcCccCCCEEECCCCcccccCCh-hHhCcccCCEEECCCCcccccCChhHhcCcc
Confidence            88888888888888888887776554       788888888888888 8888888999999999888888888888888


Q ss_pred             ccEEecccccCccCCCC
Q 040144          273 LVALGLHSCYIGSRFPL  289 (289)
Q Consensus       273 L~~l~l~~n~~~~~~p~  289 (289)
                      |+.+++++|++.+.+|.
T Consensus       573 L~~l~ls~N~l~~~~p~  589 (968)
T PLN00113        573 LVQVNISHNHLHGSLPS  589 (968)
T ss_pred             cCEEeccCCcceeeCCC
Confidence            99999999988888874

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

Probab=99.94  E-value=7e-28  Score=201.15  Aligned_cols=271  Identities=24%  Similarity=0.259  Sum_probs=137.4

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +-|+.|+|+.|.|+...-++|..=.++++|++++|.+..+.... |.++..|..|.|++|.++..+.  ..|+++++|+.
T Consensus       149 ~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~-F~~lnsL~tlkLsrNrittLp~--r~Fk~L~~L~~  225 (873)
T KOG4194|consen  149 PALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGH-FDSLNSLLTLKLSRNRITTLPQ--RSFKRLPKLES  225 (873)
T ss_pred             hhhhhhhhhhchhhcccCCCCCCCCCceEEeecccccccccccc-ccccchheeeecccCcccccCH--HHhhhcchhhh
Confidence            44666677776666444444555556677777766666655443 5566666666666666666532  15556666666


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++..|.+...-...|.++++|+.|.+.+|.+. ...-..|..+.++++|++..|++.. +....+.+++.|+.|++++|
T Consensus       226 LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~-kL~DG~Fy~l~kme~l~L~~N~l~~-vn~g~lfgLt~L~~L~lS~N  303 (873)
T KOG4194|consen  226 LDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDIS-KLDDGAFYGLEKMEHLNLETNRLQA-VNEGWLFGLTSLEQLDLSYN  303 (873)
T ss_pred             hhccccceeeehhhhhcCchhhhhhhhhhcCcc-cccCcceeeecccceeecccchhhh-hhcccccccchhhhhccchh
Confidence            666666655443344555555555555555553 1111223345555555555555542 21334445555555555555


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecce
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNK  233 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~  233 (289)
                      . +....++.|. ++.|+.|++      +.|.++...+.+|..+..|+.|+++.|.+.-.-...+       .|||++|.
T Consensus       304 a-I~rih~d~WsftqkL~~LdL------s~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~  376 (873)
T KOG4194|consen  304 A-IQRIHIDSWSFTQKLKELDL------SSNRITRLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNE  376 (873)
T ss_pred             h-hheeecchhhhcccceeEec------cccccccCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCe
Confidence            5 4434444455 555555554      4444444444444444445555554444431111111       44444444


Q ss_pred             eeeeecc--ccccccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          234 LNVTLFE--LHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       234 ~~~~~~~--~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      ++..+-+  ..|.++++|+.|++-+|++....-..|..+..|++||+.+|.|.
T Consensus       377 ls~~IEDaa~~f~gl~~LrkL~l~gNqlk~I~krAfsgl~~LE~LdL~~Naia  429 (873)
T KOG4194|consen  377 LSWCIEDAAVAFNGLPSLRKLRLTGNQLKSIPKRAFSGLEALEHLDLGDNAIA  429 (873)
T ss_pred             EEEEEecchhhhccchhhhheeecCceeeecchhhhccCcccceecCCCCcce
Confidence            4322221  13344555555555555555433334455555555555555443

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

Probab=99.94  E-value=2.3e-27  Score=198.10  Aligned_cols=273  Identities=23%  Similarity=0.239  Sum_probs=164.7

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      |+|+++++..|.++ .+|.......+++.|++..|.+..+.... ++.++.|+.|||+.|.+...+.  ..+..-.++++
T Consensus       102 ~nLq~v~l~~N~Lt-~IP~f~~~sghl~~L~L~~N~I~sv~se~-L~~l~alrslDLSrN~is~i~~--~sfp~~~ni~~  177 (873)
T KOG4194|consen  102 PNLQEVNLNKNELT-RIPRFGHESGHLEKLDLRHNLISSVTSEE-LSALPALRSLDLSRNLISEIPK--PSFPAKVNIKK  177 (873)
T ss_pred             Ccceeeeeccchhh-hcccccccccceeEEeeeccccccccHHH-HHhHhhhhhhhhhhchhhcccC--CCCCCCCCceE
Confidence            55666666665554 34443333344555555555444443322 3444555555555554444321  02223334555


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeee---------------------
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQG---------------------  140 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~---------------------  140 (289)
                      |++++|.++.+....|..+.+|..|.+++|+++ ..-+..|.++++|+.|++..|.+..                     
T Consensus       178 L~La~N~It~l~~~~F~~lnsL~tlkLsrNrit-tLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~  256 (873)
T KOG4194|consen  178 LNLASNRITTLETGHFDSLNSLLTLKLSRNRIT-TLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRND  256 (873)
T ss_pred             EeeccccccccccccccccchheeeecccCccc-ccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcC
Confidence            555555554444444444444444555555444 2222333344445555444444431                     


Q ss_pred             --eeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCee
Q 040144          141 --TIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSI  217 (289)
Q Consensus       141 --~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~  217 (289)
                        .+...+|..+.++++|+++.|. +...-..++. ++.|+.|+      ++.|.+..+-++++.-+++|++|+++.|.+
T Consensus       257 I~kL~DG~Fy~l~kme~l~L~~N~-l~~vn~g~lfgLt~L~~L~------lS~NaI~rih~d~WsftqkL~~LdLs~N~i  329 (873)
T KOG4194|consen  257 ISKLDDGAFYGLEKMEHLNLETNR-LQAVNEGWLFGLTSLEQLD------LSYNAIQRIHIDSWSFTQKLKELDLSSNRI  329 (873)
T ss_pred             cccccCcceeeecccceeecccch-hhhhhcccccccchhhhhc------cchhhhheeecchhhhcccceeEecccccc
Confidence              2223445555555666665555 4433333444 55555555      589999888888888999999999999999


Q ss_pred             eecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCC---CccccccccEEecccccCccCC
Q 040144          218 VGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKH---DWIPHFQLVALGLHSCYIGSRF  287 (289)
Q Consensus       218 ~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~---~~~~~~~L~~l~l~~n~~~~~~  287 (289)
                      +..-+..+       +|.|+.|.+. .+.+..|..+++|++|+|++|.+...+-+   .|..+++|+.|.+.||++. .|
T Consensus       330 ~~l~~~sf~~L~~Le~LnLs~Nsi~-~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~gNqlk-~I  407 (873)
T KOG4194|consen  330 TRLDEGSFRVLSQLEELNLSHNSID-HLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTGNQLK-SI  407 (873)
T ss_pred             ccCChhHHHHHHHhhhhcccccchH-HHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecCceee-ec
Confidence            86555555       8999999998 56655888999999999999998876555   4667899999999999995 55


Q ss_pred             C
Q 040144          288 P  288 (289)
Q Consensus       288 p  288 (289)
                      |
T Consensus       408 ~  408 (873)
T KOG4194|consen  408 P  408 (873)
T ss_pred             c
Confidence            5

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

Probab=99.90  E-value=8.6e-26  Score=190.63  Aligned_cols=263  Identities=25%  Similarity=0.290  Sum_probs=217.1

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      |..|+.|+|+.|++. ..|..+...+++-.|++++|++..++... +.++..|-.|+|++|.+...|+   ..+++.+|+
T Consensus       102 l~dLt~lDLShNqL~-EvP~~LE~AKn~iVLNLS~N~IetIPn~l-finLtDLLfLDLS~NrLe~LPP---Q~RRL~~Lq  176 (1255)
T KOG0444|consen  102 LKDLTILDLSHNQLR-EVPTNLEYAKNSIVLNLSYNNIETIPNSL-FINLTDLLFLDLSNNRLEMLPP---QIRRLSMLQ  176 (1255)
T ss_pred             cccceeeecchhhhh-hcchhhhhhcCcEEEEcccCccccCCchH-HHhhHhHhhhccccchhhhcCH---HHHHHhhhh
Confidence            346778888888876 47777788888888888888887777554 5678888899999999888877   788899999


Q ss_pred             EEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCC
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSL  160 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~  160 (289)
                      +|.+++|.+.......+-.+.+|+.|.+++++-+-..+|..+..+.+|..++++.|++. .+ |+.+.++.+|+.|++++
T Consensus       177 tL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp-~v-Pecly~l~~LrrLNLS~  254 (1255)
T KOG0444|consen  177 TLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLP-IV-PECLYKLRNLRRLNLSG  254 (1255)
T ss_pred             hhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccccCCC-cc-hHHHhhhhhhheeccCc
Confidence            99999998876544445556677788888876664567888888999999999999987 55 89999999999999999


Q ss_pred             CCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeee-cCCCce-------EEEeec
Q 040144          161 NTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVG-FIPWSF-------ELHIYD  231 (289)
Q Consensus       161 n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~-~~~~~~-------~L~l~~  231 (289)
                      |. ++ ++..... ..+|++|++      +.|+++ .+|+++..+++|+.|-..+|++.- -+|..+       .+...+
T Consensus       255 N~-it-eL~~~~~~W~~lEtLNl------SrNQLt-~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aan  325 (1255)
T KOG0444|consen  255 NK-IT-ELNMTEGEWENLETLNL------SRNQLT-VLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAAN  325 (1255)
T ss_pred             Cc-ee-eeeccHHHHhhhhhhcc------ccchhc-cchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhc
Confidence            98 54 4555555 778888876      899998 788899999999999999998863 467766       678888


Q ss_pred             ceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEeccccc
Q 040144          232 NKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCY  282 (289)
Q Consensus       232 n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~  282 (289)
                      |.+. -.|. .++.|.+|+.|.++.|++-. +|+.+.-++.|..||++.|.
T Consensus       326 N~LE-lVPE-glcRC~kL~kL~L~~NrLiT-LPeaIHlL~~l~vLDlreNp  373 (1255)
T KOG0444|consen  326 NKLE-LVPE-GLCRCVKLQKLKLDHNRLIT-LPEAIHLLPDLKVLDLRENP  373 (1255)
T ss_pred             cccc-cCch-hhhhhHHHHHhcccccceee-chhhhhhcCCcceeeccCCc
Confidence            8886 6787 99999999999999999985 89999999999999999883

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

Probab=99.89  E-value=2.2e-25  Score=188.14  Aligned_cols=266  Identities=21%  Similarity=0.260  Sum_probs=164.8

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      .+|++|.+..|+++. +-..+..++.|+.+.+..|+....+.+..+..+..|+.|+|++|++...|.   .+....++.+
T Consensus        55 qkLEHLs~~HN~L~~-vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF~l~dLt~lDLShNqL~EvP~---~LE~AKn~iV  130 (1255)
T KOG0444|consen   55 QKLEHLSMAHNQLIS-VHGELSDLPRLRSVIVRDNNLKNSGIPTDIFRLKDLTILDLSHNQLREVPT---NLEYAKNSIV  130 (1255)
T ss_pred             hhhhhhhhhhhhhHh-hhhhhccchhhHHHhhhccccccCCCCchhcccccceeeecchhhhhhcch---hhhhhcCcEE
Confidence            345556666665542 334455566666666666554433333335566666666666666666554   5556666666


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|++..++...+.++..|-.|+++.|++.  .+|..+..+..|+.|.+++|.+. .+-...+-.+++|+.|.+++.
T Consensus       131 LNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe--~LPPQ~RRL~~LqtL~Ls~NPL~-hfQLrQLPsmtsL~vLhms~T  207 (1255)
T KOG0444|consen  131 LNLSYNNIETIPNSLFINLTDLLFLDLSNNRLE--MLPPQIRRLSMLQTLKLSNNPLN-HFQLRQLPSMTSLSVLHMSNT  207 (1255)
T ss_pred             EEcccCccccCCchHHHhhHhHhhhccccchhh--hcCHHHHHHhhhhhhhcCCChhh-HHHHhcCccchhhhhhhcccc
Confidence            666666666665555556666666666666663  45555566666666666666654 211223334455556666554


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecce
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNK  233 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~  233 (289)
                      +.-...+|..+. +.+|..++      ++.|.+. ..|..+-.+++|+.|++++|+++. +....       +|+++.|+
T Consensus       208 qRTl~N~Ptsld~l~NL~dvD------lS~N~Lp-~vPecly~l~~LrrLNLS~N~ite-L~~~~~~W~~lEtLNlSrNQ  279 (1255)
T KOG0444|consen  208 QRTLDNIPTSLDDLHNLRDVD------LSENNLP-IVPECLYKLRNLRRLNLSGNKITE-LNMTEGEWENLETLNLSRNQ  279 (1255)
T ss_pred             cchhhcCCCchhhhhhhhhcc------ccccCCC-cchHHHhhhhhhheeccCcCceee-eeccHHHHhhhhhhccccch
Confidence            422234555555 55666555      4778777 677778888899999999998873 22222       78888998


Q ss_pred             eeeeeccccccccccccEEEecCCeeee-ccCCCccccccccEEecccccCc
Q 040144          234 LNVTLFELHFANLIEMSWFRVGGNQLTL-EVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       234 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~-~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      ++ .+|. .++.+++|+.|.+.+|+++- .+|.+++++..|+++...+|.+.
T Consensus       280 Lt-~LP~-avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~LE  329 (1255)
T KOG0444|consen  280 LT-VLPD-AVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNKLE  329 (1255)
T ss_pred             hc-cchH-HHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccccc
Confidence            88 6888 88888888888888886542 25666666666666666666553

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

Probab=99.85  E-value=6.7e-24  Score=170.24  Aligned_cols=95  Identities=19%  Similarity=0.246  Sum_probs=64.9

Q ss_pred             ccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCe
Q 040144          186 LDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQ  258 (289)
Q Consensus       186 l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~  258 (289)
                      +++++|.+. .+|..++.+..|+.|+++.|++. .+|+.+       .+-.++|++. +++..-+.+|.+|..|++.+|.
T Consensus       440 L~L~NN~Ln-~LP~e~~~lv~Lq~LnlS~NrFr-~lP~~~y~lq~lEtllas~nqi~-~vd~~~l~nm~nL~tLDL~nNd  516 (565)
T KOG0472|consen  440 LDLSNNLLN-DLPEEMGSLVRLQTLNLSFNRFR-MLPECLYELQTLETLLASNNQIG-SVDPSGLKNMRNLTTLDLQNND  516 (565)
T ss_pred             eecccchhh-hcchhhhhhhhhheecccccccc-cchHHHhhHHHHHHHHhcccccc-ccChHHhhhhhhcceeccCCCc
Confidence            333333333 33444444555555565555554 444444       2333445555 6776348899999999999999


Q ss_pred             eeeccCCCccccccccEEecccccCc
Q 040144          259 LTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       259 ~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      +.. +|..++++++|++|+++||.|.
T Consensus       517 lq~-IPp~LgnmtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  517 LQQ-IPPILGNMTNLRHLELDGNPFR  541 (565)
T ss_pred             hhh-CChhhccccceeEEEecCCccC
Confidence            994 8999999999999999999996

>PLN03210 Resistant to P

Probab=99.81  E-value=1.7e-18  Score=164.90  Aligned_cols=120  Identities=17%  Similarity=0.230  Sum_probs=65.9

Q ss_pred             CccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCc---e-E
Q 040144          152 SINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWS---F-E  226 (289)
Q Consensus       152 ~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~---~-~  226 (289)
                      +|+.|++++|. ....+|..+. +++|+.|++      ++|.....+|..+ .+++|+.|++++|.....+|..   + .
T Consensus       779 sL~~L~Ls~n~-~l~~lP~si~~L~~L~~L~L------s~C~~L~~LP~~~-~L~sL~~L~Ls~c~~L~~~p~~~~nL~~  850 (1153)
T PLN03210        779 SLTRLFLSDIP-SLVELPSSIQNLHKLEHLEI------ENCINLETLPTGI-NLESLESLDLSGCSRLRTFPDISTNISD  850 (1153)
T ss_pred             cchheeCCCCC-CccccChhhhCCCCCCEEEC------CCCCCcCeeCCCC-CccccCEEECCCCCccccccccccccCE
Confidence            34444444443 2333444444 444444443      3333222333322 3455555555554332222221   1 6


Q ss_pred             EEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccc
Q 040144          227 LHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSC  281 (289)
Q Consensus       227 L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n  281 (289)
                      |++.+|.+. .+|. ++..+++|+.|++++|+-...+|..+..+++|+.+++++|
T Consensus       851 L~Ls~n~i~-~iP~-si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l~~C  903 (1153)
T PLN03210        851 LNLSRTGIE-EVPW-WIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDC  903 (1153)
T ss_pred             eECCCCCCc-cChH-HHhcCCCCCEEECCCCCCcCccCcccccccCCCeeecCCC
Confidence            777777776 5777 7778888888888775433346777777788888888877

syringae 6; Provisional

>PLN03210 Resistant to P

Probab=99.79  E-value=4.1e-18  Score=162.28  Aligned_cols=271  Identities=19%  Similarity=0.182  Sum_probs=149.8

Q ss_pred             CCCCcEEEccCCc------ccccCCCccCCCC-CCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhh
Q 040144            1 MGNLRYLNFSKTR------ICGIIPQQLGNLS-NLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVA   73 (289)
Q Consensus         1 ~~~L~~L~l~~~~------~~~~~~~~l~~l~-~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~   73 (289)
                      |++|+.|.+..+.      +...+|..+..++ +|+.|.+.++.....+..  + .+.+|+.|++.++.+...+.   .+
T Consensus       557 m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~--f-~~~~L~~L~L~~s~l~~L~~---~~  630 (1153)
T PLN03210        557 MRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSN--F-RPENLVKLQMQGSKLEKLWD---GV  630 (1153)
T ss_pred             CccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCc--C-CccCCcEEECcCcccccccc---cc
Confidence            4555666554332      1223444444443 455555555443333321  1 24455555555555444332   34


Q ss_pred             hcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCC--
Q 040144           74 NKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLT--  151 (289)
Q Consensus        74 ~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~--  151 (289)
                      ..+++|+.++++++......+ .++.+++|+.|++.+|... ..+|..+..+.+|+.|++++|...+.+ |..+ +++  
T Consensus       631 ~~l~~Lk~L~Ls~~~~l~~ip-~ls~l~~Le~L~L~~c~~L-~~lp~si~~L~~L~~L~L~~c~~L~~L-p~~i-~l~sL  706 (1153)
T PLN03210        631 HSLTGLRNIDLRGSKNLKEIP-DLSMATNLETLKLSDCSSL-VELPSSIQYLNKLEDLDMSRCENLEIL-PTGI-NLKSL  706 (1153)
T ss_pred             ccCCCCCEEECCCCCCcCcCC-ccccCCcccEEEecCCCCc-cccchhhhccCCCCEEeCCCCCCcCcc-CCcC-CCCCC
Confidence            445555555555543222212 2444555555555554332 334444455555555555554322233 2211 333  


Q ss_pred             -------------------CccEEeCCCCCcccCCCCccccccCcceeeccc-------------------------ccc
Q 040144          152 -------------------SINRLDLSLNTGLTGRIPRSMALCNLKSINLQE-------------------------SLD  187 (289)
Q Consensus       152 -------------------~L~~L~l~~n~~~~~~~~~~~~~~~L~~L~l~~-------------------------~l~  187 (289)
                                         +|++|++++|. +. .+|..+.+++|++|.+..                         .+.
T Consensus       707 ~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~-i~-~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~  784 (1153)
T PLN03210        707 YRLNLSGCSRLKSFPDISTNISWLDLDETA-IE-EFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLF  784 (1153)
T ss_pred             CEEeCCCCCCccccccccCCcCeeecCCCc-cc-cccccccccccccccccccchhhccccccccchhhhhccccchhee
Confidence                               44555555554 22 344332233444333321                         234


Q ss_pred             ccCCcccccccccccCCCCCcEEEccCCeeeecCCCce------EEEeecceeeeeeccccccccccccEEEecCCeeee
Q 040144          188 MRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       188 l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                      +++|.....+|.+++++++|+.|++++|...+.+|..+      .|++++|.....+|.    ..++|+.|++++|.+..
T Consensus       785 Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~~~L~sL~~L~Ls~c~~L~~~p~----~~~nL~~L~Ls~n~i~~  860 (1153)
T PLN03210        785 LSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPD----ISTNISDLNLSRTGIEE  860 (1153)
T ss_pred             CCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCCCCccccCEEECCCCCccccccc----cccccCEeECCCCCCcc
Confidence            56776666788889999999999999886544555443      788888865445555    24689999999999984


Q ss_pred             ccCCCccccccccEEecccccCccCCC
Q 040144          262 EVKHDWIPHFQLVALGLHSCYIGSRFP  288 (289)
Q Consensus       262 ~~~~~~~~~~~L~~l~l~~n~~~~~~p  288 (289)
                       +|..+..+++|+.|++++|+--..+|
T Consensus       861 -iP~si~~l~~L~~L~L~~C~~L~~l~  886 (1153)
T PLN03210        861 -VPWWIEKFSNLSFLDMNGCNNLQRVS  886 (1153)
T ss_pred             -ChHHHhcCCCCCEEECCCCCCcCccC
Confidence             88889999999999999974333444

syringae 6; Provisional

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.78  E-value=2.3e-18  Score=154.19  Aligned_cols=241  Identities=19%  Similarity=0.120  Sum_probs=141.7

Q ss_pred             cEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhh-----------
Q 040144            5 RYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVA-----------   73 (289)
Q Consensus         5 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-----------   73 (289)
                      ..|+++++.++ .+|+.+.  ++|+.|++.+|.+..++.     .+++|++|++++|.+...+..+..+           
T Consensus       204 ~~LdLs~~~Lt-sLP~~l~--~~L~~L~L~~N~Lt~LP~-----lp~~Lk~LdLs~N~LtsLP~lp~sL~~L~Ls~N~L~  275 (788)
T PRK15387        204 AVLNVGESGLT-TLPDCLP--AHITTLVIPDNNLTSLPA-----LPPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLT  275 (788)
T ss_pred             cEEEcCCCCCC-cCCcchh--cCCCEEEccCCcCCCCCC-----CCCCCcEEEecCCccCcccCcccccceeeccCCchh
Confidence            35666666665 3555443  255666666655544331     1355666666666555443210000           


Q ss_pred             ---hcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCC
Q 040144           74 ---NKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNL  150 (289)
Q Consensus        74 ---~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~  150 (289)
                         .....|+.|++.+|.++.++.    ..++|+.|++++|.++  .++..   ...|+.|++++|.+. .+ |.   ..
T Consensus       276 ~Lp~lp~~L~~L~Ls~N~Lt~LP~----~p~~L~~LdLS~N~L~--~Lp~l---p~~L~~L~Ls~N~L~-~L-P~---lp  341 (788)
T PRK15387        276 HLPALPSGLCKLWIFGNQLTSLPV----LPPGLQELSVSDNQLA--SLPAL---PSELCKLWAYNNQLT-SL-PT---LP  341 (788)
T ss_pred             hhhhchhhcCEEECcCCccccccc----cccccceeECCCCccc--cCCCC---cccccccccccCccc-cc-cc---cc
Confidence               001234445555554443321    1245666666666554  22221   234555666666555 33 32   12


Q ss_pred             CCccEEeCCCCCcccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce----E
Q 040144          151 TSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF----E  226 (289)
Q Consensus       151 ~~L~~L~l~~n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~----~  226 (289)
                      .+|+.|++++|. +. .+|..  ..+|+.|++      ++|.+.. +|..   ..+|+.|++++|.+++ +|...    .
T Consensus       342 ~~Lq~LdLS~N~-Ls-~LP~l--p~~L~~L~L------s~N~L~~-LP~l---~~~L~~LdLs~N~Lt~-LP~l~s~L~~  406 (788)
T PRK15387        342 SGLQELSVSDNQ-LA-SLPTL--PSELYKLWA------YNNRLTS-LPAL---PSGLKELIVSGNRLTS-LPVLPSELKE  406 (788)
T ss_pred             cccceEecCCCc-cC-CCCCC--Ccccceehh------hcccccc-Cccc---ccccceEEecCCcccC-CCCcccCCCE
Confidence            467788888777 54 34432  244555544      6777764 4432   2478999999998874 43322    8


Q ss_pred             EEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCccCCC
Q 040144          227 LHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFP  288 (289)
Q Consensus       227 L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~p  288 (289)
                      |++++|.++ .+|. .   ..+|+.|++++|.++ .+|..++++++|+.+++++|.+++..|
T Consensus       407 LdLS~N~Ls-sIP~-l---~~~L~~L~Ls~NqLt-~LP~sl~~L~~L~~LdLs~N~Ls~~~~  462 (788)
T PRK15387        407 LMVSGNRLT-SLPM-L---PSGLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLSERTL  462 (788)
T ss_pred             EEccCCcCC-CCCc-c---hhhhhhhhhccCccc-ccChHHhhccCCCeEECCCCCCCchHH
Confidence            899999988 5776 3   357888999999998 488889999999999999999987654

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

Probab=99.76  E-value=9.8e-22  Score=157.89  Aligned_cols=243  Identities=26%  Similarity=0.272  Sum_probs=152.4

Q ss_pred             ccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCC
Q 040144           21 QLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNF  100 (289)
Q Consensus        21 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~  100 (289)
                      .+|.-..++.+.++.|........  +.++..++.+++.++.+...++   .+..+..++.++.+++.+... |+.++..
T Consensus        40 ~wW~qv~l~~lils~N~l~~l~~d--l~nL~~l~vl~~~~n~l~~lp~---aig~l~~l~~l~vs~n~ls~l-p~~i~s~  113 (565)
T KOG0472|consen   40 NWWEQVDLQKLILSHNDLEVLRED--LKNLACLTVLNVHDNKLSQLPA---AIGELEALKSLNVSHNKLSEL-PEQIGSL  113 (565)
T ss_pred             hhhhhcchhhhhhccCchhhccHh--hhcccceeEEEeccchhhhCCH---HHHHHHHHHHhhcccchHhhc-cHHHhhh
Confidence            345555667777777665544433  5667777777777777776655   566666677777777776654 4555666


Q ss_pred             CCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCccccccCccee
Q 040144          101 SSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSI  180 (289)
Q Consensus       101 ~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~L~~L  180 (289)
                      ..+..++.++|.+.  +.+..++.+..+..++..+|+++ +. |+.+..+.++..+++.+|. +....|..++++.|+.+
T Consensus       114 ~~l~~l~~s~n~~~--el~~~i~~~~~l~dl~~~~N~i~-sl-p~~~~~~~~l~~l~~~~n~-l~~l~~~~i~m~~L~~l  188 (565)
T KOG0472|consen  114 ISLVKLDCSSNELK--ELPDSIGRLLDLEDLDATNNQIS-SL-PEDMVNLSKLSKLDLEGNK-LKALPENHIAMKRLKHL  188 (565)
T ss_pred             hhhhhhhcccccee--ecCchHHHHhhhhhhhccccccc-cC-chHHHHHHHHHHhhccccc-hhhCCHHHHHHHHHHhc
Confidence            77777777777664  55566666667777777777766 45 5566666667777777776 44333333335566655


Q ss_pred             eccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce------EEEeecceeeeeeccccccccccccEEEe
Q 040144          181 NLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF------ELHIYDNKLNVTLFELHFANLIEMSWFRV  254 (289)
Q Consensus       181 ~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l  254 (289)
                      +.      ..|.+ +.+|..++.+.+|.-|.+..|++. .+|..-      ++++..|.+. .+|.....+++++..||+
T Consensus       189 d~------~~N~L-~tlP~~lg~l~~L~~LyL~~Nki~-~lPef~gcs~L~Elh~g~N~i~-~lpae~~~~L~~l~vLDL  259 (565)
T KOG0472|consen  189 DC------NSNLL-ETLPPELGGLESLELLYLRRNKIR-FLPEFPGCSLLKELHVGENQIE-MLPAEHLKHLNSLLVLDL  259 (565)
T ss_pred             cc------chhhh-hcCChhhcchhhhHHHHhhhcccc-cCCCCCccHHHHHHHhcccHHH-hhHHHHhcccccceeeec
Confidence            53      23333 355555666666666666666665 333211      5666666665 456544556777777777


Q ss_pred             cCCeeeeccCCCccccccccEEecccccCc
Q 040144          255 GGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       255 ~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      .+|+++ +.|+.++.+++|+.||+|+|.|+
T Consensus       260 RdNklk-e~Pde~clLrsL~rLDlSNN~is  288 (565)
T KOG0472|consen  260 RDNKLK-EVPDEICLLRSLERLDLSNNDIS  288 (565)
T ss_pred             cccccc-cCchHHHHhhhhhhhcccCCccc
Confidence            777777 36777777777777777777776

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

Probab=99.73  E-value=3.5e-20  Score=148.61  Aligned_cols=269  Identities=22%  Similarity=0.207  Sum_probs=158.6

Q ss_pred             CcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccC-ccccccchhhHhhhcCCCccEE
Q 040144            4 LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY-VNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         4 L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~-~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      .++++|..|.|+...+.+|+.+++|++||++.|.+..+.+.. +++++.+.+|.+.+ |+++..+.  ..|..+..++.|
T Consensus        69 tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~A-F~GL~~l~~Lvlyg~NkI~~l~k--~~F~gL~slqrL  145 (498)
T KOG4237|consen   69 TVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDA-FKGLASLLSLVLYGNNKITDLPK--GAFGGLSSLQRL  145 (498)
T ss_pred             ceEEEeccCCcccCChhhccchhhhceecccccchhhcChHh-hhhhHhhhHHHhhcCCchhhhhh--hHhhhHHHHHHH
Confidence            456777778877777777888888888888887777666554 67777776666655 66666643  256677777777


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhh-HhhcCCCCCEEEccCceeeee-----------eChhhhcCC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS-WVFALSHLPFLDLGFNNFQGT-----------IDLEALGNL  150 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~-~~~~~~~L~~L~l~~n~~~~~-----------~~~~~~~~~  150 (289)
                      .+.-|.+.-+....|..++++..|.+.+|.+.  .+.. .+..+..++.+++.-|.....           ..+..++..
T Consensus       146 llNan~i~Cir~~al~dL~~l~lLslyDn~~q--~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsga  223 (498)
T KOG4237|consen  146 LLNANHINCIRQDALRDLPSLSLLSLYDNKIQ--SICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGA  223 (498)
T ss_pred             hcChhhhcchhHHHHHHhhhcchhcccchhhh--hhccccccchhccchHhhhcCccccccccchhhhHHhhchhhcccc
Confidence            77777666665666777777777777777664  2332 455556666666555542100           001112221


Q ss_pred             CCccEEeCCCCCcccCCCCccccccCcceeeccccccccCCccccccc-ccccCCCCCcEEEccCCeeeecCCCce----
Q 040144          151 TSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLT-DQLGQFRNLVTFNLVNNSIVGFIPWSF----  225 (289)
Q Consensus       151 ~~L~~L~l~~n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~-~~l~~~~~L~~L~l~~n~~~~~~~~~~----  225 (289)
                      .-.....+.+.+ +....+..+. ..++.+.-   -..+.+...++.| ..|..+++|++|++++|+++..-+..+    
T Consensus       224 rc~~p~rl~~~R-i~q~~a~kf~-c~~esl~s---~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a  298 (498)
T KOG4237|consen  224 RCVSPYRLYYKR-INQEDARKFL-CSLESLPS---RLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAA  298 (498)
T ss_pred             eecchHHHHHHH-hcccchhhhh-hhHHhHHH---hhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchh
Confidence            111222222222 1111111221 11221100   0012333333322 346677777777777777765444444    


Q ss_pred             ---EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccC
Q 040144          226 ---ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYI  283 (289)
Q Consensus       226 ---~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~  283 (289)
                         .|.|..|++. .+....|.++..|+.|++.+|+|+...|-.|.+..+|.+|++-.|.+
T Consensus       299 ~l~eL~L~~N~l~-~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np~  358 (498)
T KOG4237|consen  299 ELQELYLTRNKLE-FVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNPF  358 (498)
T ss_pred             hhhhhhcCcchHH-HHHHHhhhccccceeeeecCCeeEEEecccccccceeeeeehccCcc
Confidence               6677777765 45544777888888888888888887777888888888888877755

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

Probab=99.71  E-value=1e-18  Score=145.30  Aligned_cols=269  Identities=22%  Similarity=0.181  Sum_probs=159.9

Q ss_pred             EEEccCCccc-ccCCCccCCCCCCcEEeCCCccccccCC---CcccCCCCcccEEeccCccccc--c--chhhHhhhcCC
Q 040144            6 YLNFSKTRIC-GIIPQQLGNLSNLQFLDLSSKYLLYVDN---FLWLSGISLLEHLDLRYVNLSI--A--FDWLMVANKLL   77 (289)
Q Consensus         6 ~L~l~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~~~~---~~~~~~l~~L~~L~l~~~~~~~--~--~~~~~~~~~~~   77 (289)
                      .|+|..+.++ ......+..+++|++++++++.+.....   ...+...+.+++++++++.+..  .  ..+...+..++
T Consensus         2 ~l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~   81 (319)
T cd00116           2 QLSLKGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGC   81 (319)
T ss_pred             ccccccCcccccchHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcC
Confidence            4566666665 3334445566778888888876533211   1113456678888888776652  1  11233556678


Q ss_pred             CccEEEccCCccCCCCcccccCC---CCCcEEeccCCCCCCcch---hhHhhcC-CCCCEEEccCceeeeee---Chhhh
Q 040144           78 SLVELRLSNCQLQHFSPLATVNF---SSLTMLDLSHNQFDNSFI---LSWVFAL-SHLPFLDLGFNNFQGTI---DLEAL  147 (289)
Q Consensus        78 ~L~~L~l~~~~l~~~~~~~l~~~---~~L~~L~l~~~~~~~~~~---~~~~~~~-~~L~~L~l~~n~~~~~~---~~~~~  147 (289)
                      +|+.|++++|.+....+..+..+   ++|+.|++++|.+++...   ...+..+ ++|++|++++|.+++..   ....+
T Consensus        82 ~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~  161 (319)
T cd00116          82 GLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKAL  161 (319)
T ss_pred             ceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHH
Confidence            88888888888765444444333   348888888887763222   2234455 78888888888876321   03345


Q ss_pred             cCCCCccEEeCCCCCcccCCC----Ccccc-ccCcceeeccccccccCCccccc----ccccccCCCCCcEEEccCCeee
Q 040144          148 GNLTSINRLDLSLNTGLTGRI----PRSMA-LCNLKSINLQESLDMRSSSIYGH----LTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       148 ~~~~~L~~L~l~~n~~~~~~~----~~~~~-~~~L~~L~l~~~l~l~~~~~~~~----~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                      ..+.+|++|++++|. +.+..    +..+. .++|+.|++      ++|.+.+.    +...+..+++|+.|++++|.++
T Consensus       162 ~~~~~L~~L~l~~n~-l~~~~~~~l~~~l~~~~~L~~L~L------~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~  234 (319)
T cd00116         162 RANRDLKELNLANNG-IGDAGIRALAEGLKANCNLEVLDL------NNNGLTDEGASALAETLASLKSLEVLNLGDNNLT  234 (319)
T ss_pred             HhCCCcCEEECcCCC-CchHHHHHHHHHHHhCCCCCEEec------cCCccChHHHHHHHHHhcccCCCCEEecCCCcCc
Confidence            566788888888887 55322    22233 457777775      67766533    3344567788888888888877


Q ss_pred             ec--------C----CCceEEEeecceeee----eeccccccccccccEEEecCCeeeec----cCCCcccc-ccccEEe
Q 040144          219 GF--------I----PWSFELHIYDNKLNV----TLFELHFANLIEMSWFRVGGNQLTLE----VKHDWIPH-FQLVALG  277 (289)
Q Consensus       219 ~~--------~----~~~~~L~l~~n~~~~----~~~~~~~~~~~~L~~l~l~~n~~~~~----~~~~~~~~-~~L~~l~  277 (289)
                      +.        .    +....|++++|.++.    .+.. .+..+++|+++++++|.+++.    ....+... +.+++++
T Consensus       235 ~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~-~~~~~~~L~~l~l~~N~l~~~~~~~~~~~~~~~~~~~~~~~  313 (319)
T cd00116         235 DAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAE-VLAEKESLLELDLRGNKFGEEGAQLLAESLLEPGNELESLW  313 (319)
T ss_pred             hHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHH-HHhcCCCccEEECCCCCCcHHHHHHHHHHHhhcCCchhhcc
Confidence            42        1    122256666666541    2222 344556777777777777643    22222222 4566666


Q ss_pred             ccccc
Q 040144          278 LHSCY  282 (289)
Q Consensus       278 l~~n~  282 (289)
                      +.+|.
T Consensus       314 ~~~~~  318 (319)
T cd00116         314 VKDDS  318 (319)
T ss_pred             cCCCC
Confidence            66654

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).

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.70  E-value=9.1e-17  Score=144.63  Aligned_cols=242  Identities=20%  Similarity=0.221  Sum_probs=165.5

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      +.+.|++.++.++. +|..+.  ++++.|++++|.+...+..  +  ..+|++|++++|.+...+.   .+  ...|+.|
T Consensus       179 ~~~~L~L~~~~Lts-LP~~Ip--~~L~~L~Ls~N~LtsLP~~--l--~~nL~~L~Ls~N~LtsLP~---~l--~~~L~~L  246 (754)
T PRK15370        179 NKTELRLKILGLTT-IPACIP--EQITTLILDNNELKSLPEN--L--QGNIKTLYANSNQLTSIPA---TL--PDTIQEM  246 (754)
T ss_pred             CceEEEeCCCCcCc-CCcccc--cCCcEEEecCCCCCcCChh--h--ccCCCEEECCCCccccCCh---hh--hccccEE
Confidence            45678888888773 565442  4788999988877765532  1  3578999999888876543   22  2468889


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ++++|.+..+ |..+  ..+|+.|++++|.++  .+|..+  +.+|+.|++++|++. .+ |..+.  ++|+.|++++|.
T Consensus       247 ~Ls~N~L~~L-P~~l--~s~L~~L~Ls~N~L~--~LP~~l--~~sL~~L~Ls~N~Lt-~L-P~~lp--~sL~~L~Ls~N~  315 (754)
T PRK15370        247 ELSINRITEL-PERL--PSALQSLDLFHNKIS--CLPENL--PEELRYLSVYDNSIR-TL-PAHLP--SGITHLNVQSNS  315 (754)
T ss_pred             ECcCCccCcC-ChhH--hCCCCEEECcCCccC--cccccc--CCCCcEEECCCCccc-cC-cccch--hhHHHHHhcCCc
Confidence            9999988765 3333  247889999988885  355433  257899999998887 45 43332  468888888887


Q ss_pred             cccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeee---cCCCce-EEEeecceeeeee
Q 040144          163 GLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVG---FIPWSF-ELHIYDNKLNVTL  238 (289)
Q Consensus       163 ~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~---~~~~~~-~L~l~~n~~~~~~  238 (289)
                       +. .+|..+ .++|+.|.+      ++|.++. +|..+.  ++|+.|++++|.+..   .+|..+ .|++++|.++ .+
T Consensus       316 -Lt-~LP~~l-~~sL~~L~L------s~N~Lt~-LP~~l~--~sL~~L~Ls~N~L~~LP~~lp~~L~~LdLs~N~Lt-~L  382 (754)
T PRK15370        316 -LT-ALPETL-PPGLKTLEA------GENALTS-LPASLP--PELQVLDVSKNQITVLPETLPPTITTLDVSRNALT-NL  382 (754)
T ss_pred             -cc-cCCccc-cccceeccc------cCCcccc-CChhhc--CcccEEECCCCCCCcCChhhcCCcCEEECCCCcCC-CC
Confidence             55 344433 356777765      7777774 454442  688999999888872   122222 7888888887 57


Q ss_pred             ccccccccccccEEEecCCeeeeccCCCcc----ccccccEEecccccCc
Q 040144          239 FELHFANLIEMSWFRVGGNQLTLEVKHDWI----PHFQLVALGLHSCYIG  284 (289)
Q Consensus       239 ~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~----~~~~L~~l~l~~n~~~  284 (289)
                      |. .+.  .+|+.|++++|++.+ +|..+.    ..+.+..+++.+|.++
T Consensus       383 P~-~l~--~sL~~LdLs~N~L~~-LP~sl~~~~~~~~~l~~L~L~~Npls  428 (754)
T PRK15370        383 PE-NLP--AALQIMQASRNNLVR-LPESLPHFRGEGPQPTRIIVEYNPFS  428 (754)
T ss_pred             CH-hHH--HHHHHHhhccCCccc-CchhHHHHhhcCCCccEEEeeCCCcc
Confidence            76 443  468888898888874 555443    3467788888888875

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

Probab=99.69  E-value=2.3e-18  Score=151.43  Aligned_cols=195  Identities=26%  Similarity=0.309  Sum_probs=122.8

Q ss_pred             CccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEe
Q 040144           78 SLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLD  157 (289)
Q Consensus        78 ~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~  157 (289)
                      ++++++++++.+.... ..++.+.+++.+++.+|+++  ..+..+....+|+.+.+..|.+. .+ +....+.+.|++|+
T Consensus       242 nl~~~dis~n~l~~lp-~wi~~~~nle~l~~n~N~l~--~lp~ri~~~~~L~~l~~~~nel~-yi-p~~le~~~sL~tLd  316 (1081)
T KOG0618|consen  242 NLQYLDISHNNLSNLP-EWIGACANLEALNANHNRLV--ALPLRISRITSLVSLSAAYNELE-YI-PPFLEGLKSLRTLD  316 (1081)
T ss_pred             cceeeecchhhhhcch-HHHHhcccceEecccchhHH--hhHHHHhhhhhHHHHHhhhhhhh-hC-CCcccccceeeeee
Confidence            5666666666666553 55556666777776666663  44544555666666666666665 45 55566677788888


Q ss_pred             CCCCCcccCCCCcccc--ccC-cceeeccc------------------cccccCCcccccccccccCCCCCcEEEccCCe
Q 040144          158 LSLNTGLTGRIPRSMA--LCN-LKSINLQE------------------SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNS  216 (289)
Q Consensus       158 l~~n~~~~~~~~~~~~--~~~-L~~L~l~~------------------~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~  216 (289)
                      +..|. +. .+|..+.  ... |+.+..+.                  .+.+.+|.++......+.+.++|+.|+|+.|+
T Consensus       317 L~~N~-L~-~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNr  394 (1081)
T KOG0618|consen  317 LQSNN-LP-SLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNR  394 (1081)
T ss_pred             ehhcc-cc-ccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccc
Confidence            88776 43 3343222  111 22222221                  56667888887766678888899999999998


Q ss_pred             eeecCCCce--------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          217 IVGFIPWSF--------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       217 ~~~~~~~~~--------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      +.. +|...        .|++++|.++ .+|+ .+.++..|+.|...+|.+.. .| .+.+++.|+.+|++.|.++
T Consensus       395 L~~-fpas~~~kle~LeeL~LSGNkL~-~Lp~-tva~~~~L~tL~ahsN~l~~-fP-e~~~l~qL~~lDlS~N~L~  465 (1081)
T KOG0618|consen  395 LNS-FPASKLRKLEELEELNLSGNKLT-TLPD-TVANLGRLHTLRAHSNQLLS-FP-ELAQLPQLKVLDLSCNNLS  465 (1081)
T ss_pred             ccc-CCHHHHhchHHhHHHhcccchhh-hhhH-HHHhhhhhHHHhhcCCceee-ch-hhhhcCcceEEecccchhh
Confidence            873 33333        7788888877 5776 66666666666666666663 44 5556666666666666554

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.69  E-value=5.7e-16  Score=139.01  Aligned_cols=154  Identities=18%  Similarity=0.113  Sum_probs=99.3

Q ss_pred             CCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEE
Q 040144           27 NLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTML  106 (289)
Q Consensus        27 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L  106 (289)
                      .-..|+++++.+..++..  +  ..+|+.|++.+|.+...+.      ..++|++|++++|.++.+..    ..++|+.|
T Consensus       202 ~~~~LdLs~~~LtsLP~~--l--~~~L~~L~L~~N~Lt~LP~------lp~~Lk~LdLs~N~LtsLP~----lp~sL~~L  267 (788)
T PRK15387        202 GNAVLNVGESGLTTLPDC--L--PAHITTLVIPDNNLTSLPA------LPPELRTLEVSGNQLTSLPV----LPPGLLEL  267 (788)
T ss_pred             CCcEEEcCCCCCCcCCcc--h--hcCCCEEEccCCcCCCCCC------CCCCCcEEEecCCccCcccC----ccccccee
Confidence            456789998877766542  2  2479999999999887654      24789999999999987632    24688889


Q ss_pred             eccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCccccccCcceeeccccc
Q 040144          107 DLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESL  186 (289)
Q Consensus       107 ~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~L~~L~l~~~l  186 (289)
                      ++++|.++  .++..   +.+|+.|++++|++. .+ |.   ..++|+.|++++|. +.. +|..  ...|+.|++    
T Consensus       268 ~Ls~N~L~--~Lp~l---p~~L~~L~Ls~N~Lt-~L-P~---~p~~L~~LdLS~N~-L~~-Lp~l--p~~L~~L~L----  329 (788)
T PRK15387        268 SIFSNPLT--HLPAL---PSGLCKLWIFGNQLT-SL-PV---LPPGLQELSVSDNQ-LAS-LPAL--PSELCKLWA----  329 (788)
T ss_pred             eccCCchh--hhhhc---hhhcCEEECcCCccc-cc-cc---cccccceeECCCCc-ccc-CCCC--ccccccccc----
Confidence            99888775  34432   356778888888876 44 33   24678888888887 553 3332  123444433    


Q ss_pred             cccCCcccccccccccCCCCCcEEEccCCeee
Q 040144          187 DMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       187 ~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                        ++|.++. +|..   ..+|+.|++++|.+.
T Consensus       330 --s~N~L~~-LP~l---p~~Lq~LdLS~N~Ls  355 (788)
T PRK15387        330 --YNNQLTS-LPTL---PSGLQELSVSDNQLA  355 (788)
T ss_pred             --ccCcccc-cccc---ccccceEecCCCccC
Confidence              4555542 2221   124555555555555

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

Probab=99.68  E-value=4.5e-18  Score=141.43  Aligned_cols=246  Identities=23%  Similarity=0.147  Sum_probs=169.0

Q ss_pred             EeCCCccccccCCCcccCCCCcccEEeccCcccccc--chhhHhhhcCCCccEEEccCCccCC------CCcccccCCCC
Q 040144           31 LDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIA--FDWLMVANKLLSLVELRLSNCQLQH------FSPLATVNFSS  102 (289)
Q Consensus        31 L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~--~~~~~~~~~~~~L~~L~l~~~~l~~------~~~~~l~~~~~  102 (289)
                      |++.++..........+..+..|+.++++++.+...  ..+...+...+.++++.+.++.+..      ..+..+..+++
T Consensus         3 l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~   82 (319)
T cd00116           3 LSLKGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCG   82 (319)
T ss_pred             cccccCcccccchHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCc
Confidence            455555544333333345677799999999987553  2334466677889999999987762      11234567889


Q ss_pred             CcEEeccCCCCCCcchhhHhhcCCC---CCEEEccCceeeeeeC---hhhhcCC-CCccEEeCCCCCcccCCC----Ccc
Q 040144          103 LTMLDLSHNQFDNSFILSWVFALSH---LPFLDLGFNNFQGTID---LEALGNL-TSINRLDLSLNTGLTGRI----PRS  171 (289)
Q Consensus       103 L~~L~l~~~~~~~~~~~~~~~~~~~---L~~L~l~~n~~~~~~~---~~~~~~~-~~L~~L~l~~n~~~~~~~----~~~  171 (289)
                      |+.|++++|.+. ...+..+..+..   |++|++++|.+.+...   ...+..+ ++|+.+++++|. +++..    +..
T Consensus        83 L~~L~l~~~~~~-~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~~~~~  160 (319)
T cd00116          83 LQELDLSDNALG-PDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNR-LEGASCEALAKA  160 (319)
T ss_pred             eeEEEccCCCCC-hhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCc-CCchHHHHHHHH
Confidence            999999999886 344445555554   9999999998863210   2345566 899999999998 66332    223


Q ss_pred             cc-ccCcceeeccccccccCCccccc----ccccccCCCCCcEEEccCCeeeecC-----------CCceEEEeecceee
Q 040144          172 MA-LCNLKSINLQESLDMRSSSIYGH----LTDQLGQFRNLVTFNLVNNSIVGFI-----------PWSFELHIYDNKLN  235 (289)
Q Consensus       172 ~~-~~~L~~L~l~~~l~l~~~~~~~~----~~~~l~~~~~L~~L~l~~n~~~~~~-----------~~~~~L~l~~n~~~  235 (289)
                      +. ++.|++|++      ++|.+++.    ++..+..+++|+.|++++|.+.+..           +..-.|++++|.++
T Consensus       161 ~~~~~~L~~L~l------~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~  234 (319)
T cd00116         161 LRANRDLKELNL------ANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLT  234 (319)
T ss_pred             HHhCCCcCEEEC------cCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCc
Confidence            33 567888876      77887743    3344566679999999999886432           12228999999887


Q ss_pred             eeecccccc-c----cccccEEEecCCeeeec----cCCCccccccccEEecccccCcc
Q 040144          236 VTLFELHFA-N----LIEMSWFRVGGNQLTLE----VKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       236 ~~~~~~~~~-~----~~~L~~l~l~~n~~~~~----~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                      +.... .+. .    .+.|++|++++|.+++.    ++..+...++|+.+++++|.+++
T Consensus       235 ~~~~~-~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N~l~~  292 (319)
T cd00116         235 DAGAA-ALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGNKFGE  292 (319)
T ss_pred             hHHHH-HHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCCCCcH
Confidence            42222 222 2    37999999999998732    33455666889999999999874

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).

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

Probab=99.66  E-value=1.3e-18  Score=152.89  Aligned_cols=105  Identities=24%  Similarity=0.249  Sum_probs=61.7

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +.++.|+...|.++. .... ..-.+|++++++.+.....+  .++..+.+|+.++..+|.+...+.   .+....+|+.
T Consensus       219 ~~l~~L~a~~n~l~~-~~~~-p~p~nl~~~dis~n~l~~lp--~wi~~~~nle~l~~n~N~l~~lp~---ri~~~~~L~~  291 (1081)
T KOG0618|consen  219 PSLTALYADHNPLTT-LDVH-PVPLNLQYLDISHNNLSNLP--EWIGACANLEALNANHNRLVALPL---RISRITSLVS  291 (1081)
T ss_pred             cchheeeeccCccee-eccc-cccccceeeecchhhhhcch--HHHHhcccceEecccchhHHhhHH---HHhhhhhHHH
Confidence            345666666666652 2111 11236777777777665555  225667777777777777644433   5555666666


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD  114 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~  114 (289)
                      +...+|.+..+. ........|++|++..|.+.
T Consensus       292 l~~~~nel~yip-~~le~~~sL~tLdL~~N~L~  323 (1081)
T KOG0618|consen  292 LSAAYNELEYIP-PFLEGLKSLRTLDLQSNNLP  323 (1081)
T ss_pred             HHhhhhhhhhCC-Ccccccceeeeeeehhcccc
Confidence            666666666553 33445666666666666553

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

Probab=99.65  E-value=1.8e-18  Score=138.94  Aligned_cols=206  Identities=23%  Similarity=0.255  Sum_probs=128.9

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCC-ccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSS-KYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSL   79 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L   79 (289)
                      +++||+|+|+.|+|+...|++|..++.+.+|-+.+ |++..++... +.++..++.|.+.-|++.-...  ..+..++.+
T Consensus        90 l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~-F~gL~slqrLllNan~i~Cir~--~al~dL~~l  166 (498)
T KOG4237|consen   90 LHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGA-FGGLSSLQRLLLNANHINCIRQ--DALRDLPSL  166 (498)
T ss_pred             hhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhH-hhhHHHHHHHhcChhhhcchhH--HHHHHhhhc
Confidence            46899999999999999999999999998888776 6676665444 6788888888777666544321  256667777


Q ss_pred             cEEEccCCccCCCCcccccCCCCCcEEeccCCC------------------------------------CC---------
Q 040144           80 VELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQ------------------------------------FD---------  114 (289)
Q Consensus        80 ~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~------------------------------------~~---------  114 (289)
                      ..|.+..|.+..+....+..+..++.+.+..|.                                    +.         
T Consensus       167 ~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c  246 (498)
T KOG4237|consen  167 SLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLC  246 (498)
T ss_pred             chhcccchhhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhcccceecchHHHHHHHhcccchhhhhh
Confidence            777777766554433333333333333332221                                    00         


Q ss_pred             ---------------Ccchh-hHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCc
Q 040144          115 ---------------NSFIL-SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNL  177 (289)
Q Consensus       115 ---------------~~~~~-~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L  177 (289)
                                     +...| ..|..+++|++|++++|++++ +...+|.+...+++|.+..|. +...-...|. +..|
T Consensus       247 ~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~-i~~~aFe~~a~l~eL~L~~N~-l~~v~~~~f~~ls~L  324 (498)
T KOG4237|consen  247 SLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITR-IEDGAFEGAAELQELYLTRNK-LEFVSSGMFQGLSGL  324 (498)
T ss_pred             hHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccch-hhhhhhcchhhhhhhhcCcch-HHHHHHHhhhccccc
Confidence                           00111 124445566666666666653 325566666666666666665 4322222333 5555


Q ss_pred             ceeeccccccccCCcccccccccccCCCCCcEEEccCCee
Q 040144          178 KSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSI  217 (289)
Q Consensus       178 ~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~  217 (289)
                      ++|++      .+|.++...|.+|..+..|.+|++-.|.+
T Consensus       325 ~tL~L------~~N~it~~~~~aF~~~~~l~~l~l~~Np~  358 (498)
T KOG4237|consen  325 KTLSL------YDNQITTVAPGAFQTLFSLSTLNLLSNPF  358 (498)
T ss_pred             eeeee------cCCeeEEEecccccccceeeeeehccCcc
Confidence            55554      78888877788887777888888777664

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.64  E-value=5.1e-16  Score=139.87  Aligned_cols=222  Identities=18%  Similarity=0.243  Sum_probs=165.6

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++++.|++++|.++. +|..+.  ++|++|++++|.+..++..  +  ...|+.|++++|.+...+.   .+.  ..|+.
T Consensus       199 ~~L~~L~Ls~N~Lts-LP~~l~--~nL~~L~Ls~N~LtsLP~~--l--~~~L~~L~Ls~N~L~~LP~---~l~--s~L~~  266 (754)
T PRK15370        199 EQITTLILDNNELKS-LPENLQ--GNIKTLYANSNQLTSIPAT--L--PDTIQEMELSINRITELPE---RLP--SALQS  266 (754)
T ss_pred             cCCcEEEecCCCCCc-CChhhc--cCCCEEECCCCccccCChh--h--hccccEEECcCCccCcCCh---hHh--CCCCE
Confidence            468999999999984 665543  5899999999987655432  2  3579999999999887654   332  47999


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|.+..+ |..+  .++|+.|++++|.++  .++..+  ..+|+.|++++|.+. .+ |..+  .++|+.|++++|
T Consensus       267 L~Ls~N~L~~L-P~~l--~~sL~~L~Ls~N~Lt--~LP~~l--p~sL~~L~Ls~N~Lt-~L-P~~l--~~sL~~L~Ls~N  335 (754)
T PRK15370        267 LDLFHNKISCL-PENL--PEELRYLSVYDNSIR--TLPAHL--PSGITHLNVQSNSLT-AL-PETL--PPGLKTLEAGEN  335 (754)
T ss_pred             EECcCCccCcc-cccc--CCCCcEEECCCCccc--cCcccc--hhhHHHHHhcCCccc-cC-Cccc--cccceeccccCC
Confidence            99999998865 4333  258999999999986  344433  247899999999987 45 4333  368999999999


Q ss_pred             CcccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-----EEEeecceeee
Q 040144          162 TGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLNV  236 (289)
Q Consensus       162 ~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-----~L~l~~n~~~~  236 (289)
                      . +. .+|..+ .++|+.|++      ++|.+. .+|..+.  ++|+.|++++|.+. .+|..+     .|++++|++. 
T Consensus       336 ~-Lt-~LP~~l-~~sL~~L~L------s~N~L~-~LP~~lp--~~L~~LdLs~N~Lt-~LP~~l~~sL~~LdLs~N~L~-  401 (754)
T PRK15370        336 A-LT-SLPASL-PPELQVLDV------SKNQIT-VLPETLP--PTITTLDVSRNALT-NLPENLPAALQIMQASRNNLV-  401 (754)
T ss_pred             c-cc-cCChhh-cCcccEEEC------CCCCCC-cCChhhc--CCcCEEECCCCcCC-CCCHhHHHHHHHHhhccCCcc-
Confidence            8 65 466544 467888876      888887 4555443  68999999999998 445444     7899999998 


Q ss_pred             eecccccc----ccccccEEEecCCeeee
Q 040144          237 TLFELHFA----NLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       237 ~~~~~~~~----~~~~L~~l~l~~n~~~~  261 (289)
                      .+|. .+.    .++++..+++.+|++..
T Consensus       402 ~LP~-sl~~~~~~~~~l~~L~L~~Npls~  429 (754)
T PRK15370        402 RLPE-SLPHFRGEGPQPTRIIVEYNPFSE  429 (754)
T ss_pred             cCch-hHHHHhhcCCCccEEEeeCCCccH
Confidence            5665 443    45788999999999863

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

Probab=99.60  E-value=1.9e-17  Score=118.77  Aligned_cols=167  Identities=22%  Similarity=0.393  Sum_probs=127.5

Q ss_pred             hhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCC
Q 040144           72 VANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLT  151 (289)
Q Consensus        72 ~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~  151 (289)
                      .+..+.+++.|.+++|.++.+ +..+..+.+|+.|++++|+++  ..|..++.+++|+.|+++.|.+. .. |..|+.++
T Consensus        28 gLf~~s~ITrLtLSHNKl~~v-ppnia~l~nlevln~~nnqie--~lp~~issl~klr~lnvgmnrl~-~l-prgfgs~p  102 (264)
T KOG0617|consen   28 GLFNMSNITRLTLSHNKLTVV-PPNIAELKNLEVLNLSNNQIE--ELPTSISSLPKLRILNVGMNRLN-IL-PRGFGSFP  102 (264)
T ss_pred             cccchhhhhhhhcccCceeec-CCcHHHhhhhhhhhcccchhh--hcChhhhhchhhhheecchhhhh-cC-ccccCCCc
Confidence            344566778888888888776 446678888888888888884  67878888888999998888876 55 78888889


Q ss_pred             CccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEee
Q 040144          152 SINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIY  230 (289)
Q Consensus       152 ~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~  230 (289)
                      .|+.||+.+|..-...+|..|+ +..|+.|.+      ++|.+. .+|..++.+++|+.|.++.|.+-            
T Consensus       103 ~levldltynnl~e~~lpgnff~m~tlralyl------~dndfe-~lp~dvg~lt~lqil~lrdndll------------  163 (264)
T KOG0617|consen  103 ALEVLDLTYNNLNENSLPGNFFYMTTLRALYL------GDNDFE-ILPPDVGKLTNLQILSLRDNDLL------------  163 (264)
T ss_pred             hhhhhhccccccccccCCcchhHHHHHHHHHh------cCCCcc-cCChhhhhhcceeEEeeccCchh------------
Confidence            9999999888733456777777 777776665      778777 66777888889998888887666            


Q ss_pred             cceeeeeeccccccccccccEEEecCCeeeeccCCCcccc
Q 040144          231 DNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPH  270 (289)
Q Consensus       231 ~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~  270 (289)
                            ++|. .++.++.|++|.+.+|+++- +|..++.+
T Consensus       164 ------~lpk-eig~lt~lrelhiqgnrl~v-lppel~~l  195 (264)
T KOG0617|consen  164 ------SLPK-EIGDLTRLRELHIQGNRLTV-LPPELANL  195 (264)
T ss_pred             ------hCcH-HHHHHHHHHHHhcccceeee-cChhhhhh
Confidence                  5666 67777888888888888874 55554443

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

Probab=99.55  E-value=7.2e-17  Score=115.83  Aligned_cols=151  Identities=27%  Similarity=0.365  Sum_probs=78.7

Q ss_pred             cCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCC
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFS  101 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~  101 (289)
                      +.++.+++.|.++.|+...+++.  ++.+.+|+.|++.+|++...+.   .+.+++.|+.|.+.-|.+... |..|+.+|
T Consensus        29 Lf~~s~ITrLtLSHNKl~~vppn--ia~l~nlevln~~nnqie~lp~---~issl~klr~lnvgmnrl~~l-prgfgs~p  102 (264)
T KOG0617|consen   29 LFNMSNITRLTLSHNKLTVVPPN--IAELKNLEVLNLSNNQIEELPT---SISSLPKLRILNVGMNRLNIL-PRGFGSFP  102 (264)
T ss_pred             ccchhhhhhhhcccCceeecCCc--HHHhhhhhhhhcccchhhhcCh---hhhhchhhhheecchhhhhcC-ccccCCCc
Confidence            33444555555555555444433  4455555555555555555544   555555555555555544322 44555555


Q ss_pred             CCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCccee
Q 040144          102 SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSI  180 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L  180 (289)
                      .|+.||+++|.+.....|..+..+..|..|++++|.+. .+ |..++++++|+.|.+..|+ +. .+|..++ +..|++|
T Consensus       103 ~levldltynnl~e~~lpgnff~m~tlralyl~dndfe-~l-p~dvg~lt~lqil~lrdnd-ll-~lpkeig~lt~lrel  178 (264)
T KOG0617|consen  103 ALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFE-IL-PPDVGKLTNLQILSLRDND-LL-SLPKEIGDLTRLREL  178 (264)
T ss_pred             hhhhhhccccccccccCCcchhHHHHHHHHHhcCCCcc-cC-ChhhhhhcceeEEeeccCc-hh-hCcHHHHHHHHHHHH
Confidence            55555555555543344444444455555555555554 34 4455555555555555555 32 3455555 5555555


Q ss_pred             ec
Q 040144          181 NL  182 (289)
Q Consensus       181 ~l  182 (289)
                      ++
T Consensus       179 hi  180 (264)
T KOG0617|consen  179 HI  180 (264)
T ss_pred             hc
Confidence            44

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

Probab=99.42  E-value=7.2e-14  Score=114.09  Aligned_cols=215  Identities=25%  Similarity=0.223  Sum_probs=152.2

Q ss_pred             CCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcc-cccCCC
Q 040144           23 GNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPL-ATVNFS  101 (289)
Q Consensus        23 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~-~l~~~~  101 (289)
                      .++.+|++..+.++.+...+...+...|++++.|||++|-+.....+......+|+|+.|.++.|.+...... .-..++
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~  197 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLS  197 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhh
Confidence            4677899999988776655543446789999999999998888755666778999999999999987643221 123568


Q ss_pred             CCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCC-Ccccc-ccCcce
Q 040144          102 SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRI-PRSMA-LCNLKS  179 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~-~~~~~-~~~L~~  179 (289)
                      +++.|.++.|.+++..+...+..+++++.|++.+|...... .....-++.|++|+|++|. +.+.. -...+ ++.|+.
T Consensus       198 ~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~-~~~~~i~~~L~~LdLs~N~-li~~~~~~~~~~l~~L~~  275 (505)
T KOG3207|consen  198 HLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIK-ATSTKILQTLQELDLSNNN-LIDFDQGYKVGTLPGLNQ  275 (505)
T ss_pred             hhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhccccccee-cchhhhhhHHhhccccCCc-ccccccccccccccchhh
Confidence            89999999999886666666678999999999999422121 2233456789999999998 44322 13344 888887


Q ss_pred             eeccccccccCCccccc-cccc-----ccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEE
Q 040144          180 INLQESLDMRSSSIYGH-LTDQ-----LGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFR  253 (289)
Q Consensus       180 L~l~~~l~l~~~~~~~~-~~~~-----l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~  253 (289)
                      |.+      +.+++... .|+.     ...+++|+.|++..|++.+. +              ++.  .+..+.+|+.+.
T Consensus       276 Lnl------s~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w-~--------------sl~--~l~~l~nlk~l~  332 (505)
T KOG3207|consen  276 LNL------SSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDW-R--------------SLN--HLRTLENLKHLR  332 (505)
T ss_pred             hhc------cccCcchhcCCCccchhhhcccccceeeecccCccccc-c--------------ccc--hhhccchhhhhh
Confidence            775      77777643 2332     35678899999998888632 1              111  345567777777


Q ss_pred             ecCCeeeec
Q 040144          254 VGGNQLTLE  262 (289)
Q Consensus       254 l~~n~~~~~  262 (289)
                      +..|.+..+
T Consensus       333 ~~~n~ln~e  341 (505)
T KOG3207|consen  333 ITLNYLNKE  341 (505)
T ss_pred             ccccccccc
Confidence            777777653

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

Probab=99.29  E-value=2.9e-13  Score=107.67  Aligned_cols=238  Identities=20%  Similarity=0.172  Sum_probs=159.2

Q ss_pred             CCCcEEEccCCccccc----CCCccCCCCCCcEEeCCCcccccc----CC-----CcccCCCCcccEEeccCcccccc--
Q 040144            2 GNLRYLNFSKTRICGI----IPQQLGNLSNLQFLDLSSKYLLYV----DN-----FLWLSGISLLEHLDLRYVNLSIA--   66 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~----~~-----~~~~~~l~~L~~L~l~~~~~~~~--   66 (289)
                      ..++.++|++|.|...    +.+.+...++|+..++++-.-...    +.     ...+..+++|++++|++|.+...  
T Consensus        30 ~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~g~  109 (382)
T KOG1909|consen   30 DSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPKGI  109 (382)
T ss_pred             CceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCccch
Confidence            4578899999988632    334566778889888886321111    00     01245677999999999987554  


Q ss_pred             chhhHhhhcCCCccEEEccCCccCCCCccc-------------ccCCCCCcEEeccCCCCCCcc---hhhHhhcCCCCCE
Q 040144           67 FDWLMVANKLLSLVELRLSNCQLQHFSPLA-------------TVNFSSLTMLDLSHNQFDNSF---ILSWVFALSHLPF  130 (289)
Q Consensus        67 ~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~-------------l~~~~~L~~L~l~~~~~~~~~---~~~~~~~~~~L~~  130 (289)
                      ..+-..+.++..|++|.+.+|++.......             ...-++|+++...+|++.+..   +...+...+.|+.
T Consensus       110 ~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~lee  189 (382)
T KOG1909|consen  110 RGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSHPTLEE  189 (382)
T ss_pred             HHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhccccce
Confidence            334446678899999999999887532222             234578999999999886432   3344566788999


Q ss_pred             EEccCceeeeee---ChhhhcCCCCccEEeCCCCCcccCCCC----cccc-ccCcceeeccccccccCCcccccccccc-
Q 040144          131 LDLGFNNFQGTI---DLEALGNLTSINRLDLSLNTGLTGRIP----RSMA-LCNLKSINLQESLDMRSSSIYGHLTDQL-  201 (289)
Q Consensus       131 L~l~~n~~~~~~---~~~~~~~~~~L~~L~l~~n~~~~~~~~----~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l-  201 (289)
                      +.+..|.+...-   -..++..+++|+.||+.+|. ++....    ..+. +++|+.+.+      ++|.+......++ 
T Consensus       190 vr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNt-ft~egs~~LakaL~s~~~L~El~l------~dcll~~~Ga~a~~  262 (382)
T KOG1909|consen  190 VRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNT-FTLEGSVALAKALSSWPHLRELNL------GDCLLENEGAIAFV  262 (382)
T ss_pred             EEEecccccCchhHHHHHHHHhCCcceeeecccch-hhhHHHHHHHHHhcccchheeecc------cccccccccHHHHH
Confidence            999988775221   13567788999999999997 654332    3334 666777765      7777754433222 


Q ss_pred             ----cCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeee
Q 040144          202 ----GQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT  260 (289)
Q Consensus       202 ----~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~  260 (289)
                          ...|+|+.|.+.+|.++....             ..+.. .....+.|+.|++++|++.
T Consensus       263 ~al~~~~p~L~vl~l~gNeIt~da~-------------~~la~-~~~ek~dL~kLnLngN~l~  311 (382)
T KOG1909|consen  263 DALKESAPSLEVLELAGNEITRDAA-------------LALAA-CMAEKPDLEKLNLNGNRLG  311 (382)
T ss_pred             HHHhccCCCCceeccCcchhHHHHH-------------HHHHH-HHhcchhhHHhcCCccccc
Confidence                346788899888888763211             02233 5556889999999999984

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

Probab=99.21  E-value=2e-12  Score=105.81  Aligned_cols=216  Identities=19%  Similarity=0.173  Sum_probs=115.3

Q ss_pred             CCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCc--ccccCCCCCcEEeccCCCCCCcchhhHhhcCC
Q 040144           49 GISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSP--LATVNFSSLTMLDLSHNQFDNSFILSWVFALS  126 (289)
Q Consensus        49 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~--~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~  126 (289)
                      ++++|+...|.++.+...+. -.....+++++.|++++|-+....+  .....+|+|+.|+++.|.+........-..++
T Consensus       119 n~kkL~~IsLdn~~V~~~~~-~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~  197 (505)
T KOG3207|consen  119 NLKKLREISLDNYRVEDAGI-EEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLS  197 (505)
T ss_pred             hHHhhhheeecCccccccch-hhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhh
Confidence            35566666666665444321 1244556666667766665544322  12234666666666666554111111112345


Q ss_pred             CCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccc-cccccCC
Q 040144          127 HLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHL-TDQLGQF  204 (289)
Q Consensus       127 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~-~~~l~~~  204 (289)
                      .++.|.++.|.++..........+|+++.|.+++|. .......... ++.|++|++      ++|++.... -...+.+
T Consensus       198 ~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~-~~~~~~~~~~i~~~L~~LdL------s~N~li~~~~~~~~~~l  270 (505)
T KOG3207|consen  198 HLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANE-IILIKATSTKILQTLQELDL------SNNNLIDFDQGYKVGTL  270 (505)
T ss_pred             hhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhccc-ccceecchhhhhhHHhhccc------cCCcccccccccccccc
Confidence            666666666666532212334456666677776663 1111111122 455555554      555554221 1234566


Q ss_pred             CCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccC--CCccccccccEEeccccc
Q 040144          205 RNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVK--HDWIPHFQLVALGLHSCY  282 (289)
Q Consensus       205 ~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~--~~~~~~~~L~~l~l~~n~  282 (289)
                      +.|..|+++.+.+.+.       ..-.+    +.-. ....+++|++|+++.|.+.+ ++  ..+..+.+|+.+.+.+|+
T Consensus       271 ~~L~~Lnls~tgi~si-------~~~d~----~s~~-kt~~f~kL~~L~i~~N~I~~-w~sl~~l~~l~nlk~l~~~~n~  337 (505)
T KOG3207|consen  271 PGLNQLNLSSTGIASI-------AEPDV----ESLD-KTHTFPKLEYLNISENNIRD-WRSLNHLRTLENLKHLRITLNY  337 (505)
T ss_pred             cchhhhhccccCcchh-------cCCCc----cchh-hhcccccceeeecccCcccc-ccccchhhccchhhhhhccccc
Confidence            6666666666666522       11110    1111 23468999999999999974 33  356677788888888888


Q ss_pred             Ccc
Q 040144          283 IGS  285 (289)
Q Consensus       283 ~~~  285 (289)
                      ++.
T Consensus       338 ln~  340 (505)
T KOG3207|consen  338 LNK  340 (505)
T ss_pred             ccc
Confidence            764

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

Probab=99.17  E-value=1.9e-11  Score=90.92  Aligned_cols=83  Identities=31%  Similarity=0.309  Sum_probs=21.7

Q ss_pred             CCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHh-hcCCCCCEEEccCceeeeeeChhhhcCCCCcc
Q 040144           76 LLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV-FALSHLPFLDLGFNNFQGTIDLEALGNLTSIN  154 (289)
Q Consensus        76 ~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~  154 (289)
                      +.+|+.|++++|.+..+  +.+..++.|+.|++++|.++  .+...+ ..+++|++|++++|++...-.-..+..+++|+
T Consensus        41 l~~L~~L~Ls~N~I~~l--~~l~~L~~L~~L~L~~N~I~--~i~~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~  116 (175)
T PF14580_consen   41 LDKLEVLDLSNNQITKL--EGLPGLPRLKTLDLSNNRIS--SISEGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLR  116 (175)
T ss_dssp             -TT--EEE-TTS--S----TT----TT--EEE--SS-----S-CHHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--
T ss_pred             hcCCCEEECCCCCCccc--cCccChhhhhhcccCCCCCC--ccccchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcc
Confidence            34444455555544443  22334455555555555553  121112 23455555555555544211123344455555


Q ss_pred             EEeCCCCC
Q 040144          155 RLDLSLNT  162 (289)
Q Consensus       155 ~L~l~~n~  162 (289)
                      .|++.+|+
T Consensus       117 ~L~L~~NP  124 (175)
T PF14580_consen  117 VLSLEGNP  124 (175)
T ss_dssp             EEE-TT-G
T ss_pred             eeeccCCc
Confidence            55555555

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

Probab=99.16  E-value=8.2e-11  Score=100.77  Aligned_cols=194  Identities=28%  Similarity=0.390  Sum_probs=114.1

Q ss_pred             EeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCC-CCcEEeccCCCCCCcchhhHhhcCCCCCEEEcc
Q 040144           56 LDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFS-SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLG  134 (289)
Q Consensus        56 L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~-~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~  134 (289)
                      ++...+.+.....   .+.....++.+.+.++.++.+.+ ...... +|+.|++++|.+.  .++..++.+++|+.|+++
T Consensus        98 l~~~~~~~~~~~~---~~~~~~~l~~L~l~~n~i~~i~~-~~~~~~~nL~~L~l~~N~i~--~l~~~~~~l~~L~~L~l~  171 (394)
T COG4886          98 LDLNLNRLRSNIS---ELLELTNLTSLDLDNNNITDIPP-LIGLLKSNLKELDLSDNKIE--SLPSPLRNLPNLKNLDLS  171 (394)
T ss_pred             eeccccccccCch---hhhcccceeEEecCCcccccCcc-ccccchhhcccccccccchh--hhhhhhhccccccccccC
Confidence            4555554423221   33344566677777776666533 223332 6777777777664  333445666777777777


Q ss_pred             CceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEcc
Q 040144          135 FNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLV  213 (289)
Q Consensus       135 ~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~  213 (289)
                      .|++. .+ +...+..+.|+.+++++|. +. .+|.... ...|+++.+      ++|... ..+..+..+.++..+.+.
T Consensus       172 ~N~l~-~l-~~~~~~~~~L~~L~ls~N~-i~-~l~~~~~~~~~L~~l~~------~~N~~~-~~~~~~~~~~~l~~l~l~  240 (394)
T COG4886         172 FNDLS-DL-PKLLSNLSNLNNLDLSGNK-IS-DLPPEIELLSALEELDL------SNNSII-ELLSSLSNLKNLSGLELS  240 (394)
T ss_pred             Cchhh-hh-hhhhhhhhhhhheeccCCc-cc-cCchhhhhhhhhhhhhh------cCCcce-ecchhhhhcccccccccC
Confidence            77666 44 3334456667777777766 33 4444433 444555554      444322 233345555566666555


Q ss_pred             CCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCccCC
Q 040144          214 NNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRF  287 (289)
Q Consensus       214 ~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~  287 (289)
                      +|++.                  .++. .++++++++.|++++|.++.. +. ++...+++.+++++|.+....
T Consensus       241 ~n~~~------------------~~~~-~~~~l~~l~~L~~s~n~i~~i-~~-~~~~~~l~~L~~s~n~~~~~~  293 (394)
T COG4886         241 NNKLE------------------DLPE-SIGNLSNLETLDLSNNQISSI-SS-LGSLTNLRELDLSGNSLSNAL  293 (394)
T ss_pred             Cceee------------------eccc-hhccccccceecccccccccc-cc-ccccCccCEEeccCccccccc
Confidence            55544                  3344 677788888888888888864 22 788888888888888776443

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

Probab=99.15  E-value=1.8e-12  Score=109.38  Aligned_cols=191  Identities=25%  Similarity=0.338  Sum_probs=95.6

Q ss_pred             cccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEE
Q 040144           52 LLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFL  131 (289)
Q Consensus        52 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L  131 (289)
                      .-...+++.|.+...+.   .+..+..|..+.+.+|.+..+ +..++++..|+.++++.|++.  ..|..++.++ |+.|
T Consensus        76 dt~~aDlsrNR~~elp~---~~~~f~~Le~liLy~n~~r~i-p~~i~~L~~lt~l~ls~NqlS--~lp~~lC~lp-Lkvl  148 (722)
T KOG0532|consen   76 DTVFADLSRNRFSELPE---EACAFVSLESLILYHNCIRTI-PEAICNLEALTFLDLSSNQLS--HLPDGLCDLP-LKVL  148 (722)
T ss_pred             chhhhhccccccccCch---HHHHHHHHHHHHHHhccceec-chhhhhhhHHHHhhhccchhh--cCChhhhcCc-ceeE
Confidence            33444455554444433   333334444444444444332 334444555555555555542  3344443333 4455


Q ss_pred             EccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEE
Q 040144          132 DLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTF  210 (289)
Q Consensus       132 ~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L  210 (289)
                      .+++|+++ .+ |..++....|..++.+.|. +. .+|..+. +.+|+.|.+      ..|.+. .+|..+..++ |.  
T Consensus       149 i~sNNkl~-~l-p~~ig~~~tl~~ld~s~ne-i~-slpsql~~l~slr~l~v------rRn~l~-~lp~El~~Lp-Li--  214 (722)
T KOG0532|consen  149 IVSNNKLT-SL-PEEIGLLPTLAHLDVSKNE-IQ-SLPSQLGYLTSLRDLNV------RRNHLE-DLPEELCSLP-LI--  214 (722)
T ss_pred             EEecCccc-cC-CcccccchhHHHhhhhhhh-hh-hchHHhhhHHHHHHHHH------hhhhhh-hCCHHHhCCc-ee--
Confidence            55555544 33 4444444455555555554 22 3333333 333433332      333333 2222233222 44  


Q ss_pred             EccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCcc---ccccccEEecccc
Q 040144          211 NLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWI---PHFQLVALGLHSC  281 (289)
Q Consensus       211 ~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~---~~~~L~~l~l~~n  281 (289)
                                     .||++.|+++ .+|. .|.+|++|++|-|.+|.+.. .|..++   +.-=.+.|++.-|
T Consensus       215 ---------------~lDfScNkis-~iPv-~fr~m~~Lq~l~LenNPLqS-PPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  215 ---------------RLDFSCNKIS-YLPV-DFRKMRHLQVLQLENNPLQS-PPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             ---------------eeecccCcee-ecch-hhhhhhhheeeeeccCCCCC-ChHHHHhccceeeeeeecchhc
Confidence                           4555555555 7888 89999999999999999985 555443   3333556666666

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

Probab=99.14  E-value=1.1e-10  Score=86.82  Aligned_cols=133  Identities=26%  Similarity=0.191  Sum_probs=53.3

Q ss_pred             cCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCC
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFS  101 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~  101 (289)
                      +.+...+++|++.+|.+..+....  ..+.+|+.|++++|.+....    .+..++.|++|++++|.++.+.......++
T Consensus        15 ~~n~~~~~~L~L~~n~I~~Ie~L~--~~l~~L~~L~Ls~N~I~~l~----~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp   88 (175)
T PF14580_consen   15 YNNPVKLRELNLRGNQISTIENLG--ATLDKLEVLDLSNNQITKLE----GLPGLPRLKTLDLSNNRISSISEGLDKNLP   88 (175)
T ss_dssp             ---------------------S----TT-TT--EEE-TTS--S--T----T----TT--EEE--SS---S-CHHHHHH-T
T ss_pred             cccccccccccccccccccccchh--hhhcCCCEEECCCCCCcccc----CccChhhhhhcccCCCCCCccccchHHhCC
Confidence            445557899999998887775421  25788999999999888754    566788999999999999876432224588


Q ss_pred             CCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeee--ChhhhcCCCCccEEeCCC
Q 040144          102 SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTI--DLEALGNLTSINRLDLSL  160 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~--~~~~~~~~~~L~~L~l~~  160 (289)
                      +|+.|++++|.+.+-.....++.+++|+.|++.+|.+...-  ....+..+|+|+.||-..
T Consensus        89 ~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~~  149 (175)
T PF14580_consen   89 NLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQD  149 (175)
T ss_dssp             T--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTEE
T ss_pred             cCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCEE
Confidence            99999999998874444456778899999999999886321  123566788888888654

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

Probab=99.12  E-value=1.2e-11  Score=98.57  Aligned_cols=189  Identities=22%  Similarity=0.143  Sum_probs=113.1

Q ss_pred             cCCCCCCcEEeCCCccccccCCCc---ccCCCCcccEEeccCccccccc--hh---------hHhhhcCCCccEEEccCC
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFL---WLSGISLLEHLDLRYVNLSIAF--DW---------LMVANKLLSLVELRLSNC   87 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~---~~~~l~~L~~L~l~~~~~~~~~--~~---------~~~~~~~~~L~~L~l~~~   87 (289)
                      +..+|+|+++++++|-+.+-....   .+.++..|++|.+.+|.+....  .+         ..-...-+.|+++...+|
T Consensus        88 L~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rN  167 (382)
T KOG1909|consen   88 LLGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRN  167 (382)
T ss_pred             HhcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeecc
Confidence            455667777777777655443221   2455677777777777654431  10         011123456777777777


Q ss_pred             ccCCCCcc----cccCCCCCcEEeccCCCCCCcch---hhHhhcCCCCCEEEccCceeeee----eChhhhcCCCCccEE
Q 040144           88 QLQHFSPL----ATVNFSSLTMLDLSHNQFDNSFI---LSWVFALSHLPFLDLGFNNFQGT----IDLEALGNLTSINRL  156 (289)
Q Consensus        88 ~l~~~~~~----~l~~~~~L~~L~l~~~~~~~~~~---~~~~~~~~~L~~L~l~~n~~~~~----~~~~~~~~~~~L~~L  156 (289)
                      .+......    .+...+.|+.+.+..|.|....+   ...+..+++|+.|++.+|.++..    + ..+++.+++|+.+
T Consensus       168 rlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~L-akaL~s~~~L~El  246 (382)
T KOG1909|consen  168 RLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVAL-AKALSSWPHLREL  246 (382)
T ss_pred             ccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHH-HHHhcccchheee
Confidence            76654332    33455677777777776652222   23455677777778777766421    2 4556667777888


Q ss_pred             eCCCCCcccCCCCc----ccc--ccCcceeeccccccccCCccccc----ccccccCCCCCcEEEccCCeee
Q 040144          157 DLSLNTGLTGRIPR----SMA--LCNLKSINLQESLDMRSSSIYGH----LTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       157 ~l~~n~~~~~~~~~----~~~--~~~L~~L~l~~~l~l~~~~~~~~----~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                      ++++|. +......    .+.  .|.|+.+.+      .+|.++..    +...++..+.|+.|++++|.+.
T Consensus       247 ~l~dcl-l~~~Ga~a~~~al~~~~p~L~vl~l------~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l~  311 (382)
T KOG1909|consen  247 NLGDCL-LENEGAIAFVDALKESAPSLEVLEL------AGNEITRDAALALAACMAEKPDLEKLNLNGNRLG  311 (382)
T ss_pred             cccccc-cccccHHHHHHHHhccCCCCceecc------CcchhHHHHHHHHHHHHhcchhhHHhcCCccccc
Confidence            887776 5443222    222  566666665      77777633    2333456788999999999884

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

Probab=99.09  E-value=2.7e-12  Score=108.40  Aligned_cols=174  Identities=26%  Similarity=0.343  Sum_probs=129.3

Q ss_pred             CCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccE
Q 040144           76 LLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINR  155 (289)
Q Consensus        76 ~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~  155 (289)
                      +..-...+++.|.+..+ |..+..+..|+.+.+..|.+.  .++..++++..|++++++.|.++ .. |..++.++ |+.
T Consensus        74 ltdt~~aDlsrNR~~el-p~~~~~f~~Le~liLy~n~~r--~ip~~i~~L~~lt~l~ls~NqlS-~l-p~~lC~lp-Lkv  147 (722)
T KOG0532|consen   74 LTDTVFADLSRNRFSEL-PEEACAFVSLESLILYHNCIR--TIPEAICNLEALTFLDLSSNQLS-HL-PDGLCDLP-LKV  147 (722)
T ss_pred             ccchhhhhccccccccC-chHHHHHHHHHHHHHHhccce--ecchhhhhhhHHHHhhhccchhh-cC-ChhhhcCc-cee
Confidence            33444567777776654 445566667777777777773  56777778888888888888876 55 66677776 788


Q ss_pred             EeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeeccee
Q 040144          156 LDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKL  234 (289)
Q Consensus       156 L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~  234 (289)
                      +-+++|. +. .+|..++ .+.|..|+.      +.|++. .+|..++++.+|+.|+++.|.+.                
T Consensus       148 li~sNNk-l~-~lp~~ig~~~tl~~ld~------s~nei~-slpsql~~l~slr~l~vrRn~l~----------------  202 (722)
T KOG0532|consen  148 LIVSNNK-LT-SLPEEIGLLPTLAHLDV------SKNEIQ-SLPSQLGYLTSLRDLNVRRNHLE----------------  202 (722)
T ss_pred             EEEecCc-cc-cCCcccccchhHHHhhh------hhhhhh-hchHHhhhHHHHHHHHHhhhhhh----------------
Confidence            8888777 43 6677777 666665554      777776 45566777888888888777776                


Q ss_pred             eeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCcc
Q 040144          235 NVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       235 ~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                        .+|. .++ .-.|..||+++|++.. +|-+|.+++.|++|.+.+|.+.+
T Consensus       203 --~lp~-El~-~LpLi~lDfScNkis~-iPv~fr~m~~Lq~l~LenNPLqS  248 (722)
T KOG0532|consen  203 --DLPE-ELC-SLPLIRLDFSCNKISY-LPVDFRKMRHLQVLQLENNPLQS  248 (722)
T ss_pred             --hCCH-HHh-CCceeeeecccCceee-cchhhhhhhhheeeeeccCCCCC
Confidence              5666 565 5678999999999995 89999999999999999999863

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

Probab=99.04  E-value=5e-11  Score=93.56  Aligned_cols=42  Identities=14%  Similarity=0.024  Sum_probs=29.6

Q ss_pred             ccccccccEEEecCCeeeec-cCCCccccccccEEecccccCc
Q 040144          243 FANLIEMSWFRVGGNQLTLE-VKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       243 ~~~~~~L~~l~l~~n~~~~~-~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      +..+-+|..|++++|+|... -..+++++|-|+.+.+.+|.+.
T Consensus       370 L~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~  412 (490)
T KOG1259|consen  370 LRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLA  412 (490)
T ss_pred             hHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCcc
Confidence            55667778888888877642 2246778888888888888775

>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=99.00  E-value=8.4e-10  Score=67.70  Aligned_cols=61  Identities=23%  Similarity=0.244  Sum_probs=51.5

Q ss_pred             CCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccC
Q 040144          205 RNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYI  283 (289)
Q Consensus       205 ~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~  283 (289)
                      ++|+.|++++|.++                  .++..+|.++++|++|++++|++....+..|..+++|+.|++++|+|
T Consensus         1 p~L~~L~l~~n~l~------------------~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLT------------------EIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTES------------------EECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCC------------------ccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            35666666666555                  67766899999999999999999988888999999999999999975

...

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

Probab=99.00  E-value=8.6e-10  Score=94.50  Aligned_cols=182  Identities=31%  Similarity=0.391  Sum_probs=116.8

Q ss_pred             cCCCCCCcEEeCCCccccccCCCcccCCCC-cccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCC
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFLWLSGIS-LLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNF  100 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~-~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~  100 (289)
                      +..++.++.|++.++.+......  ..... +|+.|+++++.+...+.   .+..++.|+.|++.+|.+....+ ..+..
T Consensus       112 ~~~~~~l~~L~l~~n~i~~i~~~--~~~~~~nL~~L~l~~N~i~~l~~---~~~~l~~L~~L~l~~N~l~~l~~-~~~~~  185 (394)
T COG4886         112 LLELTNLTSLDLDNNNITDIPPL--IGLLKSNLKELDLSDNKIESLPS---PLRNLPNLKNLDLSFNDLSDLPK-LLSNL  185 (394)
T ss_pred             hhcccceeEEecCCcccccCccc--cccchhhcccccccccchhhhhh---hhhccccccccccCCchhhhhhh-hhhhh
Confidence            44456677777777776666543  23342 77777777777766543   56677778888888777776533 22356


Q ss_pred             CCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcce
Q 040144          101 SSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKS  179 (289)
Q Consensus       101 ~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~  179 (289)
                      +.|+.|++++|.+.  .++........|+++.+++|... .. +..+.+++++..+.+.+|. +. ..+..+. +++++.
T Consensus       186 ~~L~~L~ls~N~i~--~l~~~~~~~~~L~~l~~~~N~~~-~~-~~~~~~~~~l~~l~l~~n~-~~-~~~~~~~~l~~l~~  259 (394)
T COG4886         186 SNLNNLDLSGNKIS--DLPPEIELLSALEELDLSNNSII-EL-LSSLSNLKNLSGLELSNNK-LE-DLPESIGNLSNLET  259 (394)
T ss_pred             hhhhheeccCCccc--cCchhhhhhhhhhhhhhcCCcce-ec-chhhhhcccccccccCCce-ee-eccchhccccccce
Confidence            77777788777774  44544444555777777777543 23 4556677777777777766 33 2345555 666776


Q ss_pred             eeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCC
Q 040144          180 INLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPW  223 (289)
Q Consensus       180 L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~  223 (289)
                      |++      ++|.++....  ++...+++.+++++|.+....+.
T Consensus       260 L~~------s~n~i~~i~~--~~~~~~l~~L~~s~n~~~~~~~~  295 (394)
T COG4886         260 LDL------SNNQISSISS--LGSLTNLRELDLSGNSLSNALPL  295 (394)
T ss_pred             ecc------cccccccccc--ccccCccCEEeccCccccccchh
Confidence            665      6777764433  67777888888888777654433

>PLN03150 hypothetical protein; Provisional

Probab=98.90  E-value=2.9e-09  Score=95.86  Aligned_cols=98  Identities=22%  Similarity=0.318  Sum_probs=74.4

Q ss_pred             ccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCe
Q 040144          186 LDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQ  258 (289)
Q Consensus       186 l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~  258 (289)
                      +++++|.+.+.+|..+..+++|+.|++++|.+.+.+|..+       .|++++|.+++.+|. .++++++|+.|++++|.
T Consensus       423 L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~-~l~~L~~L~~L~Ls~N~  501 (623)
T PLN03150        423 LGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPE-SLGQLTSLRILNLNGNS  501 (623)
T ss_pred             EECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCch-HHhcCCCCCEEECcCCc
Confidence            3457788887888888888888888888888877766544       677788888777887 78888888888888888


Q ss_pred             eeeccCCCcccc-ccccEEecccccCc
Q 040144          259 LTLEVKHDWIPH-FQLVALGLHSCYIG  284 (289)
Q Consensus       259 ~~~~~~~~~~~~-~~L~~l~l~~n~~~  284 (289)
                      +.+.+|..+... .++..+++.+|...
T Consensus       502 l~g~iP~~l~~~~~~~~~l~~~~N~~l  528 (623)
T PLN03150        502 LSGRVPAALGGRLLHRASFNFTDNAGL  528 (623)
T ss_pred             ccccCChHHhhccccCceEEecCCccc
Confidence            888888776643 35667777777543

>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=98.83  E-value=5.6e-09  Score=64.02  Aligned_cols=61  Identities=36%  Similarity=0.460  Sum_probs=47.7

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccc
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNL   63 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   63 (289)
                      |+|++|++++|.++...+.+|..+++|++|++++|.+..++... +.++++|++|++++|.+
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~-f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDA-FSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTT-TTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHH-HcCCCCCCEEeCcCCcC
Confidence            57888888888888766677888888888888888777666544 67888888888887753

...

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

Probab=98.81  E-value=4.5e-10  Score=88.30  Aligned_cols=134  Identities=25%  Similarity=0.266  Sum_probs=92.9

Q ss_pred             ccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCC
Q 040144           21 QLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNF  100 (289)
Q Consensus        21 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~  100 (289)
                      .+..++.|+++|++.|.+..++..  ..-.++++.|++++|.+....    .+..+++|+.|++++|.++...... ..+
T Consensus       279 ~~dTWq~LtelDLS~N~I~~iDES--vKL~Pkir~L~lS~N~i~~v~----nLa~L~~L~~LDLS~N~Ls~~~Gwh-~KL  351 (490)
T KOG1259|consen  279 SADTWQELTELDLSGNLITQIDES--VKLAPKLRRLILSQNRIRTVQ----NLAELPQLQLLDLSGNLLAECVGWH-LKL  351 (490)
T ss_pred             ecchHhhhhhccccccchhhhhhh--hhhccceeEEeccccceeeeh----hhhhcccceEeecccchhHhhhhhH-hhh
Confidence            344566788888888877666543  344778888888888776643    4667788888888888776542211 245


Q ss_pred             CCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCccc
Q 040144          101 SSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLT  165 (289)
Q Consensus       101 ~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~  165 (289)
                      -+++.|.+..|.+.   ...++..+-+|..|++.+|++..-..-..++++|.|+.+.+.+|+ +.
T Consensus       352 GNIKtL~La~N~iE---~LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NP-l~  412 (490)
T KOG1259|consen  352 GNIKTLKLAQNKIE---TLSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNP-LA  412 (490)
T ss_pred             cCEeeeehhhhhHh---hhhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCC-cc
Confidence            67778888888764   445566677788888888887632113467788888888888887 44

>PLN03150 hypothetical protein; Provisional

Probab=98.79  E-value=1.9e-08  Score=90.62  Aligned_cols=90  Identities=29%  Similarity=0.512  Sum_probs=60.6

Q ss_pred             CCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCC
Q 040144          128 LPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRN  206 (289)
Q Consensus       128 L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~  206 (289)
                      ++.|++++|.+.+.+ +..++.+++|+.|++++|. +.+.+|..+. +++|+.|++      ++|.+.+.+|..++.+++
T Consensus       420 v~~L~L~~n~L~g~i-p~~i~~L~~L~~L~Ls~N~-l~g~iP~~~~~l~~L~~LdL------s~N~lsg~iP~~l~~L~~  491 (623)
T PLN03150        420 IDGLGLDNQGLRGFI-PNDISKLRHLQSINLSGNS-IRGNIPPSLGSITSLEVLDL------SYNSFNGSIPESLGQLTS  491 (623)
T ss_pred             EEEEECCCCCccccC-CHHHhCCCCCCEEECCCCc-ccCcCChHHhCCCCCCEEEC------CCCCCCCCCchHHhcCCC
Confidence            566667777666655 5566677777777777776 6666666666 666666665      667777667766777777


Q ss_pred             CcEEEccCCeeeecCCCce
Q 040144          207 LVTFNLVNNSIVGFIPWSF  225 (289)
Q Consensus       207 L~~L~l~~n~~~~~~~~~~  225 (289)
                      |+.|++++|.+++.+|..+
T Consensus       492 L~~L~Ls~N~l~g~iP~~l  510 (623)
T PLN03150        492 LRILNLNGNSLSGRVPAAL  510 (623)
T ss_pred             CCEEECcCCcccccCChHH
Confidence            7777777777766666543

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.78  E-value=1.6e-09  Score=85.11  Aligned_cols=117  Identities=19%  Similarity=0.148  Sum_probs=84.6

Q ss_pred             CCCCCCcEEeCCCccccccCCCccc-CCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCC
Q 040144           23 GNLSNLQFLDLSSKYLLYVDNFLWL-SGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFS  101 (289)
Q Consensus        23 ~~l~~L~~L~l~~~~~~~~~~~~~~-~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~  101 (289)
                      +....++-+.+.++.+-..+....+ ..+..++.+|+.+|.+.+...+...+.++|+|++|+++.|.+.......=....
T Consensus        42 ~s~ra~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~  121 (418)
T KOG2982|consen   42 SSLRALELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLK  121 (418)
T ss_pred             ccccchhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCccccc
Confidence            3334455666666655544433223 457889999999999999877777889999999999999988764321113456


Q ss_pred             CCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceee
Q 040144          102 SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQ  139 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  139 (289)
                      +|++|.+.+..+.+......+..++.+++|+++.|.+.
T Consensus       122 nl~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~~r  159 (418)
T KOG2982|consen  122 NLRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNSLR  159 (418)
T ss_pred             ceEEEEEcCCCCChhhhhhhhhcchhhhhhhhccchhh
Confidence            88999998887765566666778899999999998543

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

Probab=98.70  E-value=2.4e-09  Score=92.09  Aligned_cols=107  Identities=32%  Similarity=0.333  Sum_probs=46.7

Q ss_pred             cCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCC
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFS  101 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~  101 (289)
                      +..+++|+.+++.+|.+..+...  +..+++|++|++++|.+....    .+..++.|+.|++.+|.+..+  ..+..++
T Consensus        91 l~~~~~l~~l~l~~n~i~~i~~~--l~~~~~L~~L~ls~N~I~~i~----~l~~l~~L~~L~l~~N~i~~~--~~~~~l~  162 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIEKIENL--LSSLVNLQVLDLSFNKITKLE----GLSTLTLLKELNLSGNLISDI--SGLESLK  162 (414)
T ss_pred             cccccceeeeeccccchhhcccc--hhhhhcchheecccccccccc----chhhccchhhheeccCcchhc--cCCccch
Confidence            34444555555555444433321  233455555555555544432    233334455555555554433  1222344


Q ss_pred             CCcEEeccCCCCCCcchhhH-hhcCCCCCEEEccCcee
Q 040144          102 SLTMLDLSHNQFDNSFILSW-VFALSHLPFLDLGFNNF  138 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~-~~~~~~L~~L~l~~n~~  138 (289)
                      .++.+++++|.+.  .+... ...+.+++.+++.+|.+
T Consensus       163 ~L~~l~l~~n~i~--~ie~~~~~~~~~l~~l~l~~n~i  198 (414)
T KOG0531|consen  163 SLKLLDLSYNRIV--DIENDELSELISLEELDLGGNSI  198 (414)
T ss_pred             hhhcccCCcchhh--hhhhhhhhhccchHHHhccCCch
Confidence            4555555555443  11110 23344455555555444

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.62  E-value=5.9e-08  Score=89.80  Aligned_cols=240  Identities=18%  Similarity=0.154  Sum_probs=130.8

Q ss_pred             CCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCcc--ccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCC
Q 040144           24 NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN--LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFS  101 (289)
Q Consensus        24 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~--~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~  101 (289)
                      +....+...+.++.+......   ..++.|++|-+.++.  +.....  ..+..++.|++|++++|.-....|..++.+-
T Consensus       521 ~~~~~rr~s~~~~~~~~~~~~---~~~~~L~tLll~~n~~~l~~is~--~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li  595 (889)
T KOG4658|consen  521 SWNSVRRMSLMNNKIEHIAGS---SENPKLRTLLLQRNSDWLLEISG--EFFRSLPLLRVLDLSGNSSLSKLPSSIGELV  595 (889)
T ss_pred             chhheeEEEEeccchhhccCC---CCCCccceEEEeecchhhhhcCH--HHHhhCcceEEEECCCCCccCcCChHHhhhh
Confidence            344556666666554444322   235567777777664  333221  2467778888888887765556677777778


Q ss_pred             CCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccC--CCCcccc-ccCcc
Q 040144          102 SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTG--RIPRSMA-LCNLK  178 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~--~~~~~~~-~~~L~  178 (289)
                      +|++|+++++.+.  .+|..++++.+|.+|++..+.....+ +.....+++|++|.+.... ...  ..-..+. +..|+
T Consensus       596 ~LryL~L~~t~I~--~LP~~l~~Lk~L~~Lnl~~~~~l~~~-~~i~~~L~~Lr~L~l~~s~-~~~~~~~l~el~~Le~L~  671 (889)
T KOG4658|consen  596 HLRYLDLSDTGIS--HLPSGLGNLKKLIYLNLEVTGRLESI-PGILLELQSLRVLRLPRSA-LSNDKLLLKELENLEHLE  671 (889)
T ss_pred             hhhcccccCCCcc--ccchHHHHHHhhheeccccccccccc-cchhhhcccccEEEeeccc-cccchhhHHhhhcccchh
Confidence            8888888877774  67777777788888887776654334 5555567777777775543 110  0001111 22333


Q ss_pred             eeeccc--------------------cccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------------
Q 040144          179 SINLQE--------------------SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------------  225 (289)
Q Consensus       179 ~L~l~~--------------------~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------------  225 (289)
                      .+....                    .+.+.++... ..+..+..+++|+.|.+.++.+........             
T Consensus       672 ~ls~~~~s~~~~e~l~~~~~L~~~~~~l~~~~~~~~-~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~  750 (889)
T KOG4658|consen  672 NLSITISSVLLLEDLLGMTRLRSLLQSLSIEGCSKR-TLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLS  750 (889)
T ss_pred             hheeecchhHhHhhhhhhHHHHHHhHhhhhcccccc-eeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHH
Confidence            332211                    1111112222 234456778889999999887753211110             


Q ss_pred             EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccE
Q 040144          226 ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVA  275 (289)
Q Consensus       226 ~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~  275 (289)
                      .+...++... ..+. +.--.++|+.+.+..++....+......+..+..
T Consensus       751 ~~~~~~~~~~-r~l~-~~~f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~  798 (889)
T KOG4658|consen  751 KVSILNCHML-RDLT-WLLFAPHLTSLSLVSCRLLEDIIPKLKALLELKE  798 (889)
T ss_pred             HHHhhccccc-cccc-hhhccCcccEEEEecccccccCCCHHHHhhhccc
Confidence            1111122111 1111 2334578888888877665544444444444443

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

Probab=98.60  E-value=5.7e-10  Score=91.21  Aligned_cols=258  Identities=18%  Similarity=0.127  Sum_probs=128.0

Q ss_pred             CcEEEccCCc-cccc-CCCccCCCCCCcEEeCCCccccccCCCccc-CCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            4 LRYLNFSKTR-ICGI-IPQQLGNLSNLQFLDLSSKYLLYVDNFLWL-SGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         4 L~~L~l~~~~-~~~~-~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~-~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      |+.|.+.++. +... +...-.++|+++.|.+.+|...+......+ ..+.+|+++++..|..-....+......+++|+
T Consensus       140 lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~  219 (483)
T KOG4341|consen  140 LKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKLK  219 (483)
T ss_pred             cccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhHH
Confidence            4566666654 1111 112224566777777766654333221112 345666666665543222111111223555666


Q ss_pred             EEEccCCccC-C-----------------------CCcccc----cCCCCCcEEeccCC-CCCCcchhhHhhcCCCCCEE
Q 040144           81 ELRLSNCQLQ-H-----------------------FSPLAT----VNFSSLTMLDLSHN-QFDNSFILSWVFALSHLPFL  131 (289)
Q Consensus        81 ~L~l~~~~l~-~-----------------------~~~~~l----~~~~~L~~L~l~~~-~~~~~~~~~~~~~~~~L~~L  131 (289)
                      ++.++.|.-. .                       ...+.+    +.++.+..+++..| .++|......-..+..|+.+
T Consensus       220 ~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l  299 (483)
T KOG4341|consen  220 YLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHALQVL  299 (483)
T ss_pred             HhhhccCchhhcCcchHHhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccchHHHHHhhhhhHhhhh
Confidence            6666655311 1                       000111    11223444444343 34433333333456678888


Q ss_pred             EccCceeeeeeChhhhc-CCCCccEEeCCCCCcccCCCCcccc--ccCcceeeccccccccCCccc--ccccccccCCCC
Q 040144          132 DLGFNNFQGTIDLEALG-NLTSINRLDLSLNTGLTGRIPRSMA--LCNLKSINLQESLDMRSSSIY--GHLTDQLGQFRN  206 (289)
Q Consensus       132 ~l~~n~~~~~~~~~~~~-~~~~L~~L~l~~n~~~~~~~~~~~~--~~~L~~L~l~~~l~l~~~~~~--~~~~~~l~~~~~  206 (289)
                      ..+++.-.+..+..+++ +..+|+.+.+..+..+++.-...++  ++.|+.+++      .++...  +.+...-.+|+.
T Consensus       300 ~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~------e~~~~~~d~tL~sls~~C~~  373 (483)
T KOG4341|consen  300 CYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDL------EECGLITDGTLASLSRNCPR  373 (483)
T ss_pred             cccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcc------cccceehhhhHhhhccCCch
Confidence            87777543222133333 5678888888888755544444444  777887775      444443  223333357888


Q ss_pred             CcEEEccCCeee-ecCCCceEEEeecceeeeeeccccccccccccEEEecCCee-eeccCCCccccccccEEecccc
Q 040144          207 LVTFNLVNNSIV-GFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQL-TLEVKHDWIPHFQLVALGLHSC  281 (289)
Q Consensus       207 L~~L~l~~n~~~-~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~-~~~~~~~~~~~~~L~~l~l~~n  281 (289)
                      |+++.++.|... +..-.             .+.. .-..+..|..+.+++++. ++..-+.+..++.|+.+++.+|
T Consensus       374 lr~lslshce~itD~gi~-------------~l~~-~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~  436 (483)
T KOG4341|consen  374 LRVLSLSHCELITDEGIR-------------HLSS-SSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDC  436 (483)
T ss_pred             hccCChhhhhhhhhhhhh-------------hhhh-ccccccccceeeecCCCCchHHHHHHHhhCcccceeeeech
Confidence            999999887543 22000             1111 223455666666666643 3333345556666666666665

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

Probab=98.57  E-value=1.4e-08  Score=78.86  Aligned_cols=243  Identities=19%  Similarity=0.128  Sum_probs=142.1

Q ss_pred             CCCCcEEEccCCcccccCC----CccCCCCCCcEEeCCCccccccCC---------CcccCCCCcccEEeccCcccccc-
Q 040144            1 MGNLRYLNFSKTRICGIIP----QQLGNLSNLQFLDLSSKYLLYVDN---------FLWLSGISLLEHLDLRYVNLSIA-   66 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~----~~l~~l~~L~~L~l~~~~~~~~~~---------~~~~~~l~~L~~L~l~~~~~~~~-   66 (289)
                      |..+++++|++|.|.....    ..+.+-.+|+..+++.-.......         ...+.+|++|+..++++|.+... 
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            3457788999998864333    344556788888877643111100         01256789999999999987554 


Q ss_pred             -chhhHhhhcCCCccEEEccCCccCCCCcccc-------------cCCCCCcEEeccCCCCCCcchhh---HhhcCCCCC
Q 040144           67 -FDWLMVANKLLSLVELRLSNCQLQHFSPLAT-------------VNFSSLTMLDLSHNQFDNSFILS---WVFALSHLP  129 (289)
Q Consensus        67 -~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l-------------~~~~~L~~L~l~~~~~~~~~~~~---~~~~~~~L~  129 (289)
                       +...+.+.+...|.+|.+++|++.......+             .+-|.|++.....|++.++....   .+..-..|+
T Consensus       109 ~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l~sh~~lk  188 (388)
T COG5238         109 PEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALLESHENLK  188 (388)
T ss_pred             chHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHHHhhcCce
Confidence             3334466778889999999998775433222             23577888888888876332221   222335788


Q ss_pred             EEEccCceeeeee-C---hhhhcCCCCccEEeCCCCCcccCCCCcc----cc-ccCcceeeccccccccCCccccccccc
Q 040144          130 FLDLGFNNFQGTI-D---LEALGNLTSINRLDLSLNTGLTGRIPRS----MA-LCNLKSINLQESLDMRSSSIYGHLTDQ  200 (289)
Q Consensus       130 ~L~l~~n~~~~~~-~---~~~~~~~~~L~~L~l~~n~~~~~~~~~~----~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~  200 (289)
                      .+.+..|.+...- .   ...+..+.+|+.|++..|. ++......    .. ++.|+.|.+      .+|-+......+
T Consensus       189 ~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNt-ft~~gS~~La~al~~W~~lrEL~l------nDClls~~G~~~  261 (388)
T COG5238         189 EVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNT-FTLEGSRYLADALCEWNLLRELRL------NDCLLSNEGVKS  261 (388)
T ss_pred             eEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccc-hhhhhHHHHHHHhcccchhhhccc------cchhhccccHHH
Confidence            8888888775220 0   1122345778888888887 65333222    22 455666665      556554332222


Q ss_pred             ----c--cCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeee
Q 040144          201 ----L--GQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       201 ----l--~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                          +  ...|+|..|....|...+..-    +++       .++...-.+++-|..|.+.+|++..
T Consensus       262 v~~~f~e~~~p~l~~L~~~Yne~~~~~i----~~~-------~l~~~e~~~~p~L~~le~ngNr~~E  317 (388)
T COG5238         262 VLRRFNEKFVPNLMPLPGDYNERRGGII----LDI-------SLNEFEQDAVPLLVDLERNGNRIKE  317 (388)
T ss_pred             HHHHhhhhcCCCccccccchhhhcCcee----eee-------chhhhhhcccHHHHHHHHccCcchh
Confidence                1  124667777777666553311    111       1222122356777778888888764

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

Probab=98.54  E-value=1.4e-09  Score=85.41  Aligned_cols=153  Identities=25%  Similarity=0.189  Sum_probs=62.4

Q ss_pred             CCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCc-cCCCCc-ccccCCCCCc
Q 040144           27 NLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQ-LQHFSP-LATVNFSSLT  104 (289)
Q Consensus        27 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-l~~~~~-~~l~~~~~L~  104 (289)
                      .||++|+++..+........+..|.+|+.|.+.++.+.+.  +...+.....|..++++.|. ++.... ..+.++..|+
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~--I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~  263 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDP--IVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLD  263 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcH--HHHHHhccccceeeccccccccchhHHHHHHHhhhhHh
Confidence            3555555554333222211134455555555555554443  12234444555555555442 222111 1234455555


Q ss_pred             EEeccCCCCCCcchhhHhhcC-CCCCEEEccCcee--e-eeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcce
Q 040144          105 MLDLSHNQFDNSFILSWVFAL-SHLPFLDLGFNNF--Q-GTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKS  179 (289)
Q Consensus       105 ~L~l~~~~~~~~~~~~~~~~~-~~L~~L~l~~n~~--~-~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~  179 (289)
                      .|+++.|..........+.+. ++++.|+++++.-  . ..+ ..-...++++..||++++..+.......+. ++.|++
T Consensus       264 ~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~-~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~  342 (419)
T KOG2120|consen  264 ELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHL-STLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQH  342 (419)
T ss_pred             hcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHH-HHHHHhCCceeeeccccccccCchHHHHHHhcchhee
Confidence            555555544311111111111 3455555555421  0 011 122234555555555554322222222233 555555


Q ss_pred             eec
Q 040144          180 INL  182 (289)
Q Consensus       180 L~l  182 (289)
                      +++
T Consensus       343 lSl  345 (419)
T KOG2120|consen  343 LSL  345 (419)
T ss_pred             eeh
Confidence            554

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

Probab=98.54  E-value=5.5e-09  Score=89.90  Aligned_cols=235  Identities=25%  Similarity=0.265  Sum_probs=131.8

Q ss_pred             CCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCc
Q 040144           25 LSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLT  104 (289)
Q Consensus        25 l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~  104 (289)
                      +..++.+++..+.+......  +..++.|+.+++.++.+.....   .+..+++|++|++++|.++.+  ..+..++.|+
T Consensus        71 l~~l~~l~l~~n~i~~~~~~--l~~~~~l~~l~l~~n~i~~i~~---~l~~~~~L~~L~ls~N~I~~i--~~l~~l~~L~  143 (414)
T KOG0531|consen   71 LTSLKELNLRQNLIAKILNH--LSKLKSLEALDLYDNKIEKIEN---LLSSLVNLQVLDLSFNKITKL--EGLSTLTLLK  143 (414)
T ss_pred             hHhHHhhccchhhhhhhhcc--cccccceeeeeccccchhhccc---chhhhhcchheeccccccccc--cchhhccchh
Confidence            34455555555544442211  4567778888888887776543   256777888888888877765  3345566678


Q ss_pred             EEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeCh-hhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeec
Q 040144          105 MLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDL-EALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINL  182 (289)
Q Consensus       105 ~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~-~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l  182 (289)
                      .|++.+|.+.   ....+..+..|+.+++++|.+. .+.. . ...+.+++.+.++.|. +..  ...+. +..+..++ 
T Consensus       144 ~L~l~~N~i~---~~~~~~~l~~L~~l~l~~n~i~-~ie~~~-~~~~~~l~~l~l~~n~-i~~--i~~~~~~~~l~~~~-  214 (414)
T KOG0531|consen  144 ELNLSGNLIS---DISGLESLKSLKLLDLSYNRIV-DIENDE-LSELISLEELDLGGNS-IRE--IEGLDLLKKLVLLS-  214 (414)
T ss_pred             hheeccCcch---hccCCccchhhhcccCCcchhh-hhhhhh-hhhccchHHHhccCCc-hhc--ccchHHHHHHHHhh-
Confidence            8888888775   2223444677788888888776 3312 1 3567777777777776 321  11222 22222222 


Q ss_pred             cccccccCCcccccccccccCCC--CCcEEEccCCeeeec---CCCce---EEEeecceeeeeeccccccccccccEEEe
Q 040144          183 QESLDMRSSSIYGHLTDQLGQFR--NLVTFNLVNNSIVGF---IPWSF---ELHIYDNKLNVTLFELHFANLIEMSWFRV  254 (289)
Q Consensus       183 ~~~l~l~~~~~~~~~~~~l~~~~--~L~~L~l~~n~~~~~---~~~~~---~L~l~~n~~~~~~~~~~~~~~~~L~~l~l  254 (289)
                           +..|.++..-+  +..+.  .|+.+.+++|.+...   ++...   .+++.+|.+.. ..  .+.....+..+..
T Consensus       215 -----l~~n~i~~~~~--l~~~~~~~L~~l~l~~n~i~~~~~~~~~~~~l~~l~~~~n~~~~-~~--~~~~~~~~~~~~~  284 (414)
T KOG0531|consen  215 -----LLDNKISKLEG--LNELVMLHLRELYLSGNRISRSPEGLENLKNLPVLDLSSNRISN-LE--GLERLPKLSELWL  284 (414)
T ss_pred             -----cccccceeccC--cccchhHHHHHHhcccCccccccccccccccccccchhhccccc-cc--cccccchHHHhcc
Confidence                 24444442211  11122  277777777777632   11111   56666666542 11  2344566666667


Q ss_pred             cCCeeeec---cCCC-ccccccccEEecccccCcc
Q 040144          255 GGNQLTLE---VKHD-WIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       255 ~~n~~~~~---~~~~-~~~~~~L~~l~l~~n~~~~  285 (289)
                      ..+.+...   .... ....+.++.+.+..|.+..
T Consensus       285 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (414)
T KOG0531|consen  285 NDNKLALSEAISQEYITSAAPTLVTLTLELNPIRK  319 (414)
T ss_pred             CcchhcchhhhhccccccccccccccccccCcccc
Confidence            77765532   1111 3455677777777776654

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.53  E-value=8.6e-08  Score=88.74  Aligned_cols=104  Identities=24%  Similarity=0.193  Sum_probs=48.7

Q ss_pred             CCcEEEccCCc--ccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            3 NLRYLNFSKTR--ICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         3 ~L~~L~l~~~~--~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +|++|-+..+.  +.......|..+|.|+.||+++|.....-+. .++.+.+|++|+++++.+...|.   ++..+..|+
T Consensus       546 ~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~-~I~~Li~LryL~L~~t~I~~LP~---~l~~Lk~L~  621 (889)
T KOG4658|consen  546 KLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPS-SIGELVHLRYLDLSDTGISHLPS---GLGNLKKLI  621 (889)
T ss_pred             ccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCCh-HHhhhhhhhcccccCCCccccch---HHHHHHhhh
Confidence            34444444443  2222222244455666666655432211111 14555556666665555554444   555555555


Q ss_pred             EEEccCCccCCCCcccccCCCCCcEEeccC
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSLTMLDLSH  110 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~  110 (289)
                      +|++..+......+.....+.+|++|.+..
T Consensus       622 ~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~  651 (889)
T KOG4658|consen  622 YLNLEVTGRLESIPGILLELQSLRVLRLPR  651 (889)
T ss_pred             eeccccccccccccchhhhcccccEEEeec
Confidence            555555443333333334455555555543

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

Probab=98.35  E-value=1.8e-08  Score=79.33  Aligned_cols=179  Identities=21%  Similarity=0.112  Sum_probs=114.2

Q ss_pred             CCcEEEccCCcccc-cCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            3 NLRYLNFSKTRICG-IIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         3 ~L~~L~l~~~~~~~-~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      .|++++|+...++. .....+.+|.+|+.|.+.++...+..... +++-..|+.++++.+.--........+.++..|++
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~-iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNT-IAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHH-HhccccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            36778888877762 23344677888888888886644332222 67788899999988843222222235678889999


Q ss_pred             EEccCCccCCCCcc-ccc-CCCCCcEEeccCCCCC--CcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEe
Q 040144           82 LRLSNCQLQHFSPL-ATV-NFSSLTMLDLSHNQFD--NSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLD  157 (289)
Q Consensus        82 L~l~~~~l~~~~~~-~l~-~~~~L~~L~l~~~~~~--~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~  157 (289)
                      |+++.|.+...... ... --+++..|+++++.-.  ...+......++++.+||+++|.........+|.+++.|+++.
T Consensus       265 LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lS  344 (419)
T KOG2120|consen  265 LNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLS  344 (419)
T ss_pred             cCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchheeee
Confidence            99999876542111 111 2367888888876422  1223334467889999999998754322156778889999999


Q ss_pred             CCCCCcccCCCCcccc-ccCcceeec
Q 040144          158 LSLNTGLTGRIPRSMA-LCNLKSINL  182 (289)
Q Consensus       158 l~~n~~~~~~~~~~~~-~~~L~~L~l  182 (289)
                      ++.|-.+..+.--.+. .|.|.+|+.
T Consensus       345 lsRCY~i~p~~~~~l~s~psl~yLdv  370 (419)
T KOG2120|consen  345 LSRCYDIIPETLLELNSKPSLVYLDV  370 (419)
T ss_pred             hhhhcCCChHHeeeeccCcceEEEEe
Confidence            9988622211112234 777888875

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

Probab=98.15  E-value=4.1e-08  Score=86.06  Aligned_cols=106  Identities=30%  Similarity=0.302  Sum_probs=64.0

Q ss_pred             CCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCC
Q 040144           49 GISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHL  128 (289)
Q Consensus        49 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L  128 (289)
                      -++.+++|+|++|++....    .+..+++|++|++++|.+..+.......+. |+.|.+++|-++   ....+.++.+|
T Consensus       185 ll~ale~LnLshNk~~~v~----~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L~lrnN~l~---tL~gie~LksL  256 (1096)
T KOG1859|consen  185 LLPALESLNLSHNKFTKVD----NLRRLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLLNLRNNALT---TLRGIENLKSL  256 (1096)
T ss_pred             HHHHhhhhccchhhhhhhH----HHHhcccccccccccchhccccccchhhhh-heeeeecccHHH---hhhhHHhhhhh
Confidence            3556677777777666532    456677777777777766655333323333 677777776654   33455666777


Q ss_pred             CEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144          129 PFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       129 ~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      +.||+++|-+.+.-...-+..+..|..|.|.+|+
T Consensus       257 ~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  257 YGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             hccchhHhhhhcchhhhHHHHHHHHHHHhhcCCc
Confidence            7777777766543222334455667777777776

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.14  E-value=5.1e-07  Score=71.31  Aligned_cols=84  Identities=21%  Similarity=0.218  Sum_probs=37.5

Q ss_pred             CCCCcEEeCCCccccccCCCc-ccCCCCcccEEeccCccccccchhhHhh-hcCCCccEEEccCCccCCCCc-ccccCCC
Q 040144           25 LSNLQFLDLSSKYLLYVDNFL-WLSGISLLEHLDLRYVNLSIAFDWLMVA-NKLLSLVELRLSNCQLQHFSP-LATVNFS  101 (289)
Q Consensus        25 l~~L~~L~l~~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~~~~~L~~L~l~~~~l~~~~~-~~l~~~~  101 (289)
                      ++.++++++.+|.+..+.... .+.+++.|++|+++.|.+.....   .+ ....+|+++.+.++.+..... ..+..+|
T Consensus        70 ~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~---~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP  146 (418)
T KOG2982|consen   70 VTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIK---SLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLP  146 (418)
T ss_pred             hhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccc---cCcccccceEEEEEcCCCCChhhhhhhhhcch
Confidence            345555555555544433211 13455555555555555444321   11 233455555555554443322 1223344


Q ss_pred             CCcEEeccCC
Q 040144          102 SLTMLDLSHN  111 (289)
Q Consensus       102 ~L~~L~l~~~  111 (289)
                      .++.|.++.|
T Consensus       147 ~vtelHmS~N  156 (418)
T KOG2982|consen  147 KVTELHMSDN  156 (418)
T ss_pred             hhhhhhhccc
Confidence            4555544444

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

Probab=98.14  E-value=3.9e-06  Score=62.69  Aligned_cols=129  Identities=22%  Similarity=0.187  Sum_probs=89.8

Q ss_pred             CcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEe
Q 040144           28 LQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLD  107 (289)
Q Consensus        28 L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~  107 (289)
                      -+++++.+-++......  -.-..+...+||++|.+....    .+.+++.|.+|.+.+|.++.+.+.--..+++++.|.
T Consensus        21 e~e~~LR~lkip~ienl--g~~~d~~d~iDLtdNdl~~l~----~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~   94 (233)
T KOG1644|consen   21 ERELDLRGLKIPVIENL--GATLDQFDAIDLTDNDLRKLD----NLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLI   94 (233)
T ss_pred             ccccccccccccchhhc--cccccccceecccccchhhcc----cCCCccccceEEecCCcceeeccchhhhccccceEE
Confidence            45667766544333321  122556778899998877654    566888999999999999988765555678899999


Q ss_pred             ccCCCCCCcchhhHhhcCCCCCEEEccCceeeeee--ChhhhcCCCCccEEeCCCCC
Q 040144          108 LSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTI--DLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       108 l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~--~~~~~~~~~~L~~L~l~~n~  162 (289)
                      +.+|++..-....-+..+++|++|.+-+|.++..-  ..-.++.+++|+.||+..-.
T Consensus        95 LtnNsi~~l~dl~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen   95 LTNNSIQELGDLDPLASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKVT  151 (233)
T ss_pred             ecCcchhhhhhcchhccCCccceeeecCCchhcccCceeEEEEecCcceEeehhhhh
Confidence            99988752222334567889999999999876321  12356788899999987753

>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=98.14  E-value=1.6e-06  Score=48.74  Aligned_cols=38  Identities=18%  Similarity=0.141  Sum_probs=29.1

Q ss_pred             ccccEEEecCCeeeeccCCCccccccccEEecccccCcc
Q 040144          247 IEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       247 ~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                      ++|++|++++|++++ +|..++++++|+.|++++|+|++
T Consensus         1 ~~L~~L~l~~N~i~~-l~~~l~~l~~L~~L~l~~N~i~~   38 (44)
T PF12799_consen    1 KNLEELDLSNNQITD-LPPELSNLPNLETLNLSNNPISD   38 (44)
T ss_dssp             TT-SEEEETSSS-SS-HGGHGTTCTTSSEEEETSSCCSB
T ss_pred             CcceEEEccCCCCcc-cCchHhCCCCCCEEEecCCCCCC
Confidence            468888888888885 55568888888888888888873

...

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

Probab=98.08  E-value=3.1e-06  Score=76.65  Aligned_cols=83  Identities=30%  Similarity=0.309  Sum_probs=35.1

Q ss_pred             CCCccEEEccCCccCCC-CcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCcc
Q 040144           76 LLSLVELRLSNCQLQHF-SPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSIN  154 (289)
Q Consensus        76 ~~~L~~L~l~~~~l~~~-~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~  154 (289)
                      +|.|+.|.+.+-.+... +.....++|+|..||++++.++   ...+++++++|+.|.+.+=.+........+..+++|+
T Consensus       147 LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~---nl~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~  223 (699)
T KOG3665|consen  147 LPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNIS---NLSGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLR  223 (699)
T ss_pred             CcccceEEecCceecchhHHHHhhccCccceeecCCCCcc---CcHHHhccccHHHHhccCCCCCchhhHHHHhcccCCC
Confidence            45555555544333211 1112234455555555555543   1134444555555544433333111123344455555


Q ss_pred             EEeCCCC
Q 040144          155 RLDLSLN  161 (289)
Q Consensus       155 ~L~l~~n  161 (289)
                      .||++..
T Consensus       224 vLDIS~~  230 (699)
T KOG3665|consen  224 VLDISRD  230 (699)
T ss_pred             eeecccc
Confidence            5555543

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

Probab=98.07  E-value=3.3e-08  Score=86.60  Aligned_cols=125  Identities=32%  Similarity=0.299  Sum_probs=86.7

Q ss_pred             EEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEcc
Q 040144            6 YLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLS   85 (289)
Q Consensus         6 ~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~   85 (289)
                      ..+.++|.++ ....++.=++.++.|+++.|++..+..   +..+++|++||+++|++...+.+  +...+. |+.|.++
T Consensus       168 ~a~fsyN~L~-~mD~SLqll~ale~LnLshNk~~~v~~---Lr~l~~LkhLDlsyN~L~~vp~l--~~~gc~-L~~L~lr  240 (1096)
T KOG1859|consen  168 TASFSYNRLV-LMDESLQLLPALESLNLSHNKFTKVDN---LRRLPKLKHLDLSYNCLRHVPQL--SMVGCK-LQLLNLR  240 (1096)
T ss_pred             hhhcchhhHH-hHHHHHHHHHHhhhhccchhhhhhhHH---HHhcccccccccccchhcccccc--chhhhh-heeeeec
Confidence            3445555544 233455567888999999888777762   67789999999999988877542  222333 8889999


Q ss_pred             CCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceee
Q 040144           86 NCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQ  139 (289)
Q Consensus        86 ~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  139 (289)
                      +|.++..  ..+.++.+|+.||+++|-+.+......++.+..|..|++.+|.+-
T Consensus       241 nN~l~tL--~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl~  292 (1096)
T KOG1859|consen  241 NNALTTL--RGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPLC  292 (1096)
T ss_pred             ccHHHhh--hhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCccc
Confidence            8887764  244577888888999887753333334556677888888888764

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

Probab=98.03  E-value=6.6e-07  Score=62.59  Aligned_cols=106  Identities=25%  Similarity=0.332  Sum_probs=60.3

Q ss_pred             ccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEE
Q 040144           53 LEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLD  132 (289)
Q Consensus        53 L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~  132 (289)
                      +..++|+.|++...++....+....+|+..++++|.+....+..-..++.++.+++.+|.+.  .+|..+..++.|+.++
T Consensus        29 ~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neis--dvPeE~Aam~aLr~lN  106 (177)
T KOG4579|consen   29 LHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEIS--DVPEELAAMPALRSLN  106 (177)
T ss_pred             hhhcccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhh--hchHHHhhhHHhhhcc
Confidence            44455556655443332224445556666666666666543322234456666666666663  4555566666677777


Q ss_pred             ccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144          133 LGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       133 l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      +..|.+. .. +..+..+.++..|+...|.
T Consensus       107 l~~N~l~-~~-p~vi~~L~~l~~Lds~~na  134 (177)
T KOG4579|consen  107 LRFNPLN-AE-PRVIAPLIKLDMLDSPENA  134 (177)
T ss_pred             cccCccc-cc-hHHHHHHHhHHHhcCCCCc
Confidence            7666665 34 5555556666666665555

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

Probab=98.02  E-value=3.8e-06  Score=65.69  Aligned_cols=16  Identities=25%  Similarity=0.173  Sum_probs=10.2

Q ss_pred             CCCCCcEEEccCCeee
Q 040144          203 QFRNLVTFNLVNNSIV  218 (289)
Q Consensus       203 ~~~~L~~L~l~~n~~~  218 (289)
                      ++|-|..|.+.+|.+.
T Consensus       301 ~~p~L~~le~ngNr~~  316 (388)
T COG5238         301 AVPLLVDLERNGNRIK  316 (388)
T ss_pred             ccHHHHHHHHccCcch
Confidence            4556666677777664

>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=98.00  E-value=5.8e-06  Score=46.50  Aligned_cols=40  Identities=35%  Similarity=0.546  Sum_probs=28.8

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccC
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVD   42 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~   42 (289)
                      ++|++|++++|++++ +|+.+++|++|++|++++|.+..++
T Consensus         1 ~~L~~L~l~~N~i~~-l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQITD-LPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS-SS-HGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             CcceEEEccCCCCcc-cCchHhCCCCCCEEEecCCCCCCCc
Confidence            478888888888874 5666888888888888887765443

...

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

Probab=97.98  E-value=1.5e-06  Score=78.62  Aligned_cols=134  Identities=21%  Similarity=0.194  Sum_probs=77.3

Q ss_pred             CCCcEEeCCCccccccCCCccc-CCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCc
Q 040144           26 SNLQFLDLSSKYLLYVDNFLWL-SGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLT  104 (289)
Q Consensus        26 ~~L~~L~l~~~~~~~~~~~~~~-~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~  104 (289)
                      .+|++|++++.......+...+ ..+|.|++|.+++-.+.... +.....++|+|..|++++++++..  ..++++++|+
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~d-F~~lc~sFpNL~sLDIS~TnI~nl--~GIS~LknLq  198 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDD-FSQLCASFPNLRSLDISGTNISNL--SGISRLKNLQ  198 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchh-HHHHhhccCccceeecCCCCccCc--HHHhccccHH
Confidence            4677777776544433332222 23677777777766554432 333556777777777777777665  4556677777


Q ss_pred             EEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeee--eC---hhhhcCCCCccEEeCCCCC
Q 040144          105 MLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGT--ID---LEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       105 ~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~--~~---~~~~~~~~~L~~L~l~~n~  162 (289)
                      .|.+.+=.+........+.++.+|+.||++.......  +.   .+.-..+|+|+.||.++..
T Consensus       199 ~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTd  261 (699)
T KOG3665|consen  199 VLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTD  261 (699)
T ss_pred             HHhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcc
Confidence            7776655554223333455677777777776543311  00   1122346677777777665

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

Probab=97.91  E-value=7.4e-07  Score=73.45  Aligned_cols=142  Identities=16%  Similarity=0.137  Sum_probs=81.2

Q ss_pred             CCCCCcEEeccCC-CCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhh-cCCCCccEEeCCCCCcccCC-CCcccc-c
Q 040144           99 NFSSLTMLDLSHN-QFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEAL-GNLTSINRLDLSLNTGLTGR-IPRSMA-L  174 (289)
Q Consensus        99 ~~~~L~~L~l~~~-~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~-~~~~~~-~  174 (289)
                      .+..++.++.+++ .+++..+.....+..+|+.+.+.+|..-+..-...+ .+++.|+.+++..+....+. +...-. +
T Consensus       292 ~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C  371 (483)
T KOG4341|consen  292 GCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNC  371 (483)
T ss_pred             hhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCC
Confidence            4678899998776 344333333345678999999999874322212222 36788999999988633322 222223 8


Q ss_pred             cCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEe
Q 040144          175 CNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRV  254 (289)
Q Consensus       175 ~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l  254 (289)
                      +.|+.+.++.+-.+.+-++. .+...-.....|..+.++++....                 +.....+..+++|+.+++
T Consensus       372 ~~lr~lslshce~itD~gi~-~l~~~~c~~~~l~~lEL~n~p~i~-----------------d~~Le~l~~c~~Leri~l  433 (483)
T KOG4341|consen  372 PRLRVLSLSHCELITDEGIR-HLSSSSCSLEGLEVLELDNCPLIT-----------------DATLEHLSICRNLERIEL  433 (483)
T ss_pred             chhccCChhhhhhhhhhhhh-hhhhccccccccceeeecCCCCch-----------------HHHHHHHhhCcccceeee
Confidence            88998887432111111111 011222344567777776664431                 222225667788888888


Q ss_pred             cCCe
Q 040144          255 GGNQ  258 (289)
Q Consensus       255 ~~n~  258 (289)
                      -++.
T Consensus       434 ~~~q  437 (483)
T KOG4341|consen  434 IDCQ  437 (483)
T ss_pred             echh
Confidence            7763

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

Probab=97.76  E-value=1.1e-06  Score=61.41  Aligned_cols=106  Identities=22%  Similarity=0.299  Sum_probs=71.7

Q ss_pred             CCCEEEccCceeeeee--ChhhhcCCCCccEEeCCCCCcccCCCCcccc--ccCcceeeccccccccCCccccccccccc
Q 040144          127 HLPFLDLGFNNFQGTI--DLEALGNLTSINRLDLSLNTGLTGRIPRSMA--LCNLKSINLQESLDMRSSSIYGHLTDQLG  202 (289)
Q Consensus       127 ~L~~L~l~~n~~~~~~--~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~--~~~L~~L~l~~~l~l~~~~~~~~~~~~l~  202 (289)
                      -+..+++++|.+. .+  ....+.+...|...++++|. +. .+|..+.  ++..+.+++      +.|++. .+|..++
T Consensus        28 E~h~ldLssc~lm-~i~davy~l~~~~el~~i~ls~N~-fk-~fp~kft~kf~t~t~lNl------~~neis-dvPeE~A   97 (177)
T KOG4579|consen   28 ELHFLDLSSCQLM-YIADAVYMLSKGYELTKISLSDNG-FK-KFPKKFTIKFPTATTLNL------ANNEIS-DVPEELA   97 (177)
T ss_pred             Hhhhcccccchhh-HHHHHHHHHhCCceEEEEecccch-hh-hCCHHHhhccchhhhhhc------chhhhh-hchHHHh
Confidence            4666777888664 33  02234455667778888887 55 4555554  666776665      777777 4555588


Q ss_pred             CCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeee
Q 040144          203 QFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       203 ~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                      .++.|+.|++++|.+.                  ..|. .+..+.++-.|+..+|.+..
T Consensus        98 am~aLr~lNl~~N~l~------------------~~p~-vi~~L~~l~~Lds~~na~~e  137 (177)
T KOG4579|consen   98 AMPALRSLNLRFNPLN------------------AEPR-VIAPLIKLDMLDSPENARAE  137 (177)
T ss_pred             hhHHhhhcccccCccc------------------cchH-HHHHHHhHHHhcCCCCcccc
Confidence            8888888888888777                  4555 45557788888888877664

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

Probab=97.75  E-value=6.7e-05  Score=56.24  Aligned_cols=108  Identities=22%  Similarity=0.192  Sum_probs=72.4

Q ss_pred             CCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCc-ccccCCCCCc
Q 040144           26 SNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSP-LATVNFSSLT  104 (289)
Q Consensus        26 ~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~-~~l~~~~~L~  104 (289)
                      .+...+++++|.+.....   +..++.|.+|.+.+|.+....+.  ....+++|+.|.+.+|.+..... ..+..+|+|+
T Consensus        42 d~~d~iDLtdNdl~~l~~---lp~l~rL~tLll~nNrIt~I~p~--L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~  116 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKLDN---LPHLPRLHTLLLNNNRITRIDPD--LDTFLPNLKTLILTNNSIQELGDLDPLASCPKLE  116 (233)
T ss_pred             cccceecccccchhhccc---CCCccccceEEecCCcceeeccc--hhhhccccceEEecCcchhhhhhcchhccCCccc
Confidence            355677888877666654   56678888888888888776331  22345778888888888776432 4566788888


Q ss_pred             EEeccCCCCCCcch--hhHhhcCCCCCEEEccCcee
Q 040144          105 MLDLSHNQFDNSFI--LSWVFALSHLPFLDLGFNNF  138 (289)
Q Consensus       105 ~L~l~~~~~~~~~~--~~~~~~~~~L~~L~l~~n~~  138 (289)
                      +|.+-+|.++...-  ...+..+++|+.||+..-..
T Consensus       117 ~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kVt~  152 (233)
T KOG1644|consen  117 YLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKVTR  152 (233)
T ss_pred             eeeecCCchhcccCceeEEEEecCcceEeehhhhhH
Confidence            88888887752111  11345678888888765543

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.60  E-value=2.5e-06  Score=66.85  Aligned_cols=100  Identities=22%  Similarity=0.122  Sum_probs=77.3

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      +++.|++++|.+++..  ...+|+.|+.|.++-|.+....+   +..|++|++|+|+.|.+.+... ...+.++|+|+.|
T Consensus        20 ~vkKLNcwg~~L~DIs--ic~kMp~lEVLsLSvNkIssL~p---l~rCtrLkElYLRkN~I~sldE-L~YLknlpsLr~L   93 (388)
T KOG2123|consen   20 NVKKLNCWGCGLDDIS--ICEKMPLLEVLSLSVNKISSLAP---LQRCTRLKELYLRKNCIESLDE-LEYLKNLPSLRTL   93 (388)
T ss_pred             HhhhhcccCCCccHHH--HHHhcccceeEEeeccccccchh---HHHHHHHHHHHHHhcccccHHH-HHHHhcCchhhhH
Confidence            5678899999887532  24678999999999988887765   6789999999999999888643 3478899999999


Q ss_pred             EccCCccCCCCc-----ccccCCCCCcEEec
Q 040144           83 RLSNCQLQHFSP-----LATVNFSSLTMLDL  108 (289)
Q Consensus        83 ~l~~~~l~~~~~-----~~l~~~~~L~~L~l  108 (289)
                      .+..|......+     ..+..+|+|++||=
T Consensus        94 WL~ENPCc~~ag~nYR~~VLR~LPnLkKLDn  124 (388)
T KOG2123|consen   94 WLDENPCCGEAGQNYRRKVLRVLPNLKKLDN  124 (388)
T ss_pred             hhccCCcccccchhHHHHHHHHcccchhccC
Confidence            999887665433     23456788887764

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

Probab=97.45  E-value=8.5e-05  Score=57.89  Aligned_cols=114  Identities=20%  Similarity=0.209  Sum_probs=67.9

Q ss_pred             CCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCC-ccc
Q 040144           18 IPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFS-PLA   96 (289)
Q Consensus        18 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~-~~~   96 (289)
                      +......+..|+.+++.++...+...   +-.+++|++|.++.|.+.....+......+|+|+++.+++|.+..+- ...
T Consensus        35 ~~gl~d~~~~le~ls~~n~gltt~~~---~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~p  111 (260)
T KOG2739|consen   35 LGGLTDEFVELELLSVINVGLTTLTN---FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRP  111 (260)
T ss_pred             cccccccccchhhhhhhccceeeccc---CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccch
Confidence            44444455677777777665554443   45577888888888854433222224456688888888888876421 133


Q ss_pred             ccCCCCCcEEeccCCCCCCc--chhhHhhcCCCCCEEEcc
Q 040144           97 TVNFSSLTMLDLSHNQFDNS--FILSWVFALSHLPFLDLG  134 (289)
Q Consensus        97 l~~~~~L~~L~l~~~~~~~~--~~~~~~~~~~~L~~L~l~  134 (289)
                      +..+.+|..|++..|..+.-  .-...+.-+++|++|+..
T Consensus       112 l~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~  151 (260)
T KOG2739|consen  112 LKELENLKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDGC  151 (260)
T ss_pred             hhhhcchhhhhcccCCccccccHHHHHHHHhhhhcccccc
Confidence            45567777888887766521  111234456677776643

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.40  E-value=0.0012  Score=55.85  Aligned_cols=12  Identities=8%  Similarity=-0.169  Sum_probs=5.6

Q ss_pred             CCCCcEEeCCCc
Q 040144           25 LSNLQFLDLSSK   36 (289)
Q Consensus        25 l~~L~~L~l~~~   36 (289)
                      +.++++|++++|
T Consensus        51 ~~~l~~L~Is~c   62 (426)
T PRK15386         51 ARASGRLYIKDC   62 (426)
T ss_pred             hcCCCEEEeCCC
Confidence            344444444444

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.24  E-value=0.0014  Score=55.41  Aligned_cols=135  Identities=9%  Similarity=0.093  Sum_probs=78.2

Q ss_pred             hhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCccccccCcceeeccccccccCCcccccccccc
Q 040144          122 VFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQL  201 (289)
Q Consensus       122 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l  201 (289)
                      +..+..++.|++++|.+. .+ |.   -.++|++|.++++. --..+|..+ .++|+.|.+      ++|.....+|.  
T Consensus        48 ~~~~~~l~~L~Is~c~L~-sL-P~---LP~sLtsL~Lsnc~-nLtsLP~~L-P~nLe~L~L------s~Cs~L~sLP~--  112 (426)
T PRK15386         48 IEEARASGRLYIKDCDIE-SL-PV---LPNELTEITIENCN-NLTTLPGSI-PEGLEKLTV------CHCPEISGLPE--  112 (426)
T ss_pred             HHHhcCCCEEEeCCCCCc-cc-CC---CCCCCcEEEccCCC-CcccCCchh-hhhhhheEc------cCccccccccc--
Confidence            445788999999999877 56 42   23469999998876 223555443 467888876      55522223443  


Q ss_pred             cCCCCCcEEEccCCee--eecCCCce-EEEeecceee--eeeccccccccccccEEEecCCeeeeccCCCccccccccEE
Q 040144          202 GQFRNLVTFNLVNNSI--VGFIPWSF-ELHIYDNKLN--VTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVAL  276 (289)
Q Consensus       202 ~~~~~L~~L~l~~n~~--~~~~~~~~-~L~l~~n~~~--~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l  276 (289)
                          +|+.|+++++..  -+.+|..+ .|.+.+++..  ..++. .+.  ++|+.|++++|.... .|..+.  .+|+.|
T Consensus       113 ----sLe~L~L~~n~~~~L~~LPssLk~L~I~~~n~~~~~~lp~-~LP--sSLk~L~Is~c~~i~-LP~~LP--~SLk~L  182 (426)
T PRK15386        113 ----SVRSLEIKGSATDSIKNVPNGLTSLSINSYNPENQARIDN-LIS--PSLKTLSLTGCSNII-LPEKLP--ESLQSI  182 (426)
T ss_pred             ----ccceEEeCCCCCcccccCcchHhheecccccccccccccc-ccC--CcccEEEecCCCccc-Cccccc--ccCcEE
Confidence                466677766543  23455555 5555432211  01111 111  577888887776542 444332  467777


Q ss_pred             ecccc
Q 040144          277 GLHSC  281 (289)
Q Consensus       277 ~l~~n  281 (289)
                      +++.+
T Consensus       183 ~ls~n  187 (426)
T PRK15386        183 TLHIE  187 (426)
T ss_pred             Eeccc
Confidence            76654

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

Probab=97.23  E-value=0.0013  Score=46.72  Aligned_cols=84  Identities=19%  Similarity=0.212  Sum_probs=28.5

Q ss_pred             CccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccC
Q 040144           20 QQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVN   99 (289)
Q Consensus        20 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~   99 (289)
                      .+|.++++|+.+.+.. ....++... +.++..|+.+.+..+ +.....  ..+..++.++.+.+.. .+.......+..
T Consensus         6 ~~F~~~~~l~~i~~~~-~~~~I~~~~-F~~~~~l~~i~~~~~-~~~i~~--~~F~~~~~l~~i~~~~-~~~~i~~~~F~~   79 (129)
T PF13306_consen    6 NAFYNCSNLESITFPN-TIKKIGENA-FSNCTSLKSINFPNN-LTSIGD--NAFSNCKSLESITFPN-NLKSIGDNAFSN   79 (129)
T ss_dssp             TTTTT-TT--EEEETS-T--EE-TTT-TTT-TT-SEEEESST-TSCE-T--TTTTT-TT-EEEEETS-TT-EE-TTTTTT
T ss_pred             HHHhCCCCCCEEEECC-CeeEeChhh-ccccccccccccccc-ccccce--eeeecccccccccccc-cccccccccccc
Confidence            3455555555555543 222222222 444445555555442 222211  1334444455555533 222222233344


Q ss_pred             CCCCcEEecc
Q 040144          100 FSSLTMLDLS  109 (289)
Q Consensus       100 ~~~L~~L~l~  109 (289)
                      +++++.+.+.
T Consensus        80 ~~~l~~i~~~   89 (129)
T PF13306_consen   80 CTNLKNIDIP   89 (129)
T ss_dssp             -TTECEEEET
T ss_pred             cccccccccC
Confidence            4444444443

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

Probab=97.09  E-value=8.9e-05  Score=65.28  Aligned_cols=78  Identities=15%  Similarity=0.081  Sum_probs=34.0

Q ss_pred             ccCCCCCcEEEccCCeeeecCCCceEEEeecceee-eeeccccccccccccEEEecCCeeeec-cCCCccc-cccccEEe
Q 040144          201 LGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLN-VTLFELHFANLIEMSWFRVGGNQLTLE-VKHDWIP-HFQLVALG  277 (289)
Q Consensus       201 l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~-~~~~~~~~~~~~~L~~l~l~~n~~~~~-~~~~~~~-~~~L~~l~  277 (289)
                      +..+++++.+.+..+......-   .+.+.+|... ..+.. ......+++.|++..+..... ....... +..+..++
T Consensus       358 ~~~~~~l~~~~l~~~~~~~~~~---~~~l~gc~~l~~~l~~-~~~~~~~l~~L~l~~~~~~t~~~l~~~~~~~~~~~~l~  433 (482)
T KOG1947|consen  358 LRSCPKLTDLSLSYCGISDLGL---ELSLRGCPNLTESLEL-RLCRSDSLRVLNLSDCRLVTDKGLRCLADSCSNLKDLD  433 (482)
T ss_pred             HhcCCCcchhhhhhhhccCcch---HHHhcCCcccchHHHH-HhccCCccceEecccCccccccchHHHhhhhhccccCC
Confidence            4566777777777665322110   1233333211 11111 122223367777776653321 1111111 44556666


Q ss_pred             ccccc
Q 040144          278 LHSCY  282 (289)
Q Consensus       278 l~~n~  282 (289)
                      ++++.
T Consensus       434 ~~~~~  438 (482)
T KOG1947|consen  434 LSGCR  438 (482)
T ss_pred             ccCcc
Confidence            66653

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.03  E-value=2.9e-05  Score=61.12  Aligned_cols=80  Identities=21%  Similarity=0.130  Sum_probs=38.7

Q ss_pred             cccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEE
Q 040144           52 LLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFL  131 (289)
Q Consensus        52 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L  131 (289)
                      ..+.|++-+|.+.+..    ...+|+.|++|.++-|.++..  ..+..|.+|++|++..|.|.+....+.+.++++|+.|
T Consensus        20 ~vkKLNcwg~~L~DIs----ic~kMp~lEVLsLSvNkIssL--~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~L   93 (388)
T KOG2123|consen   20 NVKKLNCWGCGLDDIS----ICEKMPLLEVLSLSVNKISSL--APLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTL   93 (388)
T ss_pred             HhhhhcccCCCccHHH----HHHhcccceeEEeeccccccc--hhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhH
Confidence            4444555555444421    344555555555555555543  2234455555555555555422223334455555555


Q ss_pred             EccCce
Q 040144          132 DLGFNN  137 (289)
Q Consensus       132 ~l~~n~  137 (289)
                      ++..|.
T Consensus        94 WL~ENP   99 (388)
T KOG2123|consen   94 WLDENP   99 (388)
T ss_pred             hhccCC
Confidence            555544

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

Probab=97.03  E-value=0.0036  Score=44.38  Aligned_cols=101  Identities=17%  Similarity=0.242  Sum_probs=58.7

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|+.+.+.. .+......+|..+++|+.+.+..+ ...++... +.+++.++.+.+.. .+.....  ..+..++.++.
T Consensus        12 ~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~-F~~~~~l~~i~~~~-~~~~i~~--~~F~~~~~l~~   85 (129)
T PF13306_consen   12 SNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNA-FSNCKSLESITFPN-NLKSIGD--NAFSNCTNLKN   85 (129)
T ss_dssp             TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTT-TTT-TT-EEEEETS-TT-EE-T--TTTTT-TTECE
T ss_pred             CCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceee-eecccccccccccc-ccccccc--ccccccccccc
Confidence            5788888875 455556677899999999999874 55554433 77888899999976 3333322  15667899999


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSH  110 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~  110 (289)
                      +.+..+ +..+....+.++ .++.+.+..
T Consensus        86 i~~~~~-~~~i~~~~f~~~-~l~~i~~~~  112 (129)
T PF13306_consen   86 IDIPSN-ITEIGSSSFSNC-NLKEINIPS  112 (129)
T ss_dssp             EEETTT--BEEHTTTTTT--T--EEE-TT
T ss_pred             cccCcc-ccEEchhhhcCC-CceEEEECC
Confidence            999765 554445566666 888887765

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

Probab=96.90  E-value=0.00054  Score=53.54  Aligned_cols=104  Identities=21%  Similarity=0.215  Sum_probs=67.2

Q ss_pred             CcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCc-ccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            4 LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFL-WLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         4 L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      ++.+++.++.++.  -..+-.+++|++|.++.|......... ....++.|++++++.|++..... ...+..+.+|..|
T Consensus        45 le~ls~~n~gltt--~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lst-l~pl~~l~nL~~L  121 (260)
T KOG2739|consen   45 LELLSVINVGLTT--LTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLST-LRPLKELENLKSL  121 (260)
T ss_pred             hhhhhhhccceee--cccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccc-cchhhhhcchhhh
Confidence            4445555555442  123556889999999998533332222 13567999999999998876421 2366778889999


Q ss_pred             EccCCccCCCCc---ccccCCCCCcEEeccC
Q 040144           83 RLSNCQLQHFSP---LATVNFSSLTMLDLSH  110 (289)
Q Consensus        83 ~l~~~~l~~~~~---~~l~~~~~L~~L~l~~  110 (289)
                      ++.+|..+....   ..+.-+++|++|+-..
T Consensus       122 dl~n~~~~~l~dyre~vf~ll~~L~~LD~~d  152 (260)
T KOG2739|consen  122 DLFNCSVTNLDDYREKVFLLLPSLKYLDGCD  152 (260)
T ss_pred             hcccCCccccccHHHHHHHHhhhhccccccc
Confidence            999987765311   2344568887776544

>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=96.12  E-value=0.005  Score=28.70  Aligned_cols=21  Identities=19%  Similarity=0.531  Sum_probs=14.4

Q ss_pred             cccEEEecCCeeeeccCCCccc
Q 040144          248 EMSWFRVGGNQLTLEVKHDWIP  269 (289)
Q Consensus       248 ~L~~l~l~~n~~~~~~~~~~~~  269 (289)
                      +|++|++++|+++ .+|..|++
T Consensus         1 ~L~~Ldls~n~l~-~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLT-SIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEES-EEGTTTTT
T ss_pred             CccEEECCCCcCE-eCChhhcC
Confidence            4677888888777 46655554

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 ....

>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=96.07  E-value=0.0039  Score=29.07  Aligned_cols=22  Identities=41%  Similarity=0.739  Sum_probs=15.6

Q ss_pred             CCcEEEccCCcccccCCCccCCC
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNL   25 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l   25 (289)
                      +|++|++++|+++ .+|+.|++|
T Consensus         1 ~L~~Ldls~n~l~-~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGNNLT-SIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSSEES-EEGTTTTT-
T ss_pred             CccEEECCCCcCE-eCChhhcCC
Confidence            5788888888887 566666543

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 ....

>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=95.32  E-value=0.0092  Score=25.80  Aligned_cols=13  Identities=23%  Similarity=0.263  Sum_probs=5.6

Q ss_pred             cccEEecccccCc
Q 040144          272 QLVALGLHSCYIG  284 (289)
Q Consensus       272 ~L~~l~l~~n~~~  284 (289)
                      +|+.|++++|+++
T Consensus         2 ~L~~L~l~~n~L~   14 (17)
T PF13504_consen    2 NLRTLDLSNNRLT   14 (17)
T ss_dssp             T-SEEEETSS--S
T ss_pred             ccCEEECCCCCCC
Confidence            4555556655553

...

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

Probab=94.84  E-value=0.014  Score=51.37  Aligned_cols=114  Identities=24%  Similarity=0.113  Sum_probs=64.9

Q ss_pred             CCCCcEEeCCCccccccCC-CcccCCCCcccEEeccCc-ccccc-c-hhhHhhhcCCCccEEEccCCc-cCCCCcccccC
Q 040144           25 LSNLQFLDLSSKYLLYVDN-FLWLSGISLLEHLDLRYV-NLSIA-F-DWLMVANKLLSLVELRLSNCQ-LQHFSPLATVN   99 (289)
Q Consensus        25 l~~L~~L~l~~~~~~~~~~-~~~~~~l~~L~~L~l~~~-~~~~~-~-~~~~~~~~~~~L~~L~l~~~~-l~~~~~~~l~~   99 (289)
                      ++.|+.+.+.++....... ......++.|+.|+++.+ ..... + ........++.|+.+++.++. +++.....+..
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~  266 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALAS  266 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHh
Confidence            5677777777664333211 111345777777777763 11111 1 111233455777777777776 55443333332


Q ss_pred             -CCCCcEEeccCCC-CCCcchhhHhhcCCCCCEEEccCcee
Q 040144          100 -FSSLTMLDLSHNQ-FDNSFILSWVFALSHLPFLDLGFNNF  138 (289)
Q Consensus       100 -~~~L~~L~l~~~~-~~~~~~~~~~~~~~~L~~L~l~~n~~  138 (289)
                       ++.|+.|.+..+. +++..+......++.|++|++++|..
T Consensus       267 ~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~  307 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHG  307 (482)
T ss_pred             hCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCcc
Confidence             6777777776665 56555555556677788888777754

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=93.04  E-value=0.00059  Score=59.51  Aligned_cols=21  Identities=14%  Similarity=0.086  Sum_probs=14.6

Q ss_pred             cccccccccEEEecCCeeeec
Q 040144          242 HFANLIEMSWFRVGGNQLTLE  262 (289)
Q Consensus       242 ~~~~~~~L~~l~l~~n~~~~~  262 (289)
                      .+..+..++.+.+..|.+.+.
T Consensus       285 ~l~~~~~l~~l~l~~n~l~~~  305 (478)
T KOG4308|consen  285 VLVSCRQLEELSLSNNPLTDY  305 (478)
T ss_pred             HHhhhHHHHHhhcccCccccH
Confidence            445667778888887777654

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

Probab=92.80  E-value=0.012  Score=28.03  Aligned_cols=18  Identities=22%  Similarity=0.136  Sum_probs=9.9

Q ss_pred             cccccEEEecCCeeeecc
Q 040144          246 LIEMSWFRVGGNQLTLEV  263 (289)
Q Consensus       246 ~~~L~~l~l~~n~~~~~~  263 (289)
                      +++|+.|+|++|++++..
T Consensus         1 ~~~L~~L~l~~n~i~~~g   18 (24)
T PF13516_consen    1 NPNLETLDLSNNQITDEG   18 (24)
T ss_dssp             -TT-SEEE-TSSBEHHHH
T ss_pred             CCCCCEEEccCCcCCHHH
Confidence            356777777777776543

...

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=92.73  E-value=0.00045  Score=60.25  Aligned_cols=185  Identities=20%  Similarity=0.197  Sum_probs=100.5

Q ss_pred             ccEEEccCCccCCCCcc----cccCCCCCcEEeccCCCCCCcchhh---HhhcC-CCCCEEEccCceeeee----eChhh
Q 040144           79 LVELRLSNCQLQHFSPL----ATVNFSSLTMLDLSHNQFDNSFILS---WVFAL-SHLPFLDLGFNNFQGT----IDLEA  146 (289)
Q Consensus        79 L~~L~l~~~~l~~~~~~----~l~~~~~L~~L~l~~~~~~~~~~~~---~~~~~-~~L~~L~l~~n~~~~~----~~~~~  146 (289)
                      +..+.+.+|.+......    .+...++|+.|+++.|.+.+.....   .+... ..++.|++..|.++..    + ...
T Consensus        89 l~~L~L~~~~l~~~~~~~l~~~l~t~~~L~~L~l~~n~l~~~g~~~l~~~l~~~~~~l~~L~l~~c~l~~~g~~~l-~~~  167 (478)
T KOG4308|consen   89 LLHLSLANNRLGDRGAEELAQALKTLPTLGQLDLSGNNLGDEGARLLCEGLRLPQCLLQTLELVSCSLTSEGAAPL-AAV  167 (478)
T ss_pred             HHHhhhhhCccccchHHHHHHHhcccccHhHhhcccCCCccHhHHHHHhhcccchHHHHHHHhhcccccccchHHH-HHH
Confidence            66777777777664332    2345677777778777776322221   11122 3456666666766532    2 344


Q ss_pred             hcCCCCccEEeCCCCCcccCC--------CCcccc-ccCcceeeccccccccCCcccccc----cccccCCCC-CcEEEc
Q 040144          147 LGNLTSINRLDLSLNTGLTGR--------IPRSMA-LCNLKSINLQESLDMRSSSIYGHL----TDQLGQFRN-LVTFNL  212 (289)
Q Consensus       147 ~~~~~~L~~L~l~~n~~~~~~--------~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~----~~~l~~~~~-L~~L~l  212 (289)
                      +.....++.+++..|. +...        .+..+. ..++++|+      +..|.++...    ..+++..+. +..+++
T Consensus       168 L~~~~~l~~l~l~~n~-l~~~g~~~l~~~l~~~~~~~~~le~L~------L~~~~~t~~~c~~l~~~l~~~~~~~~el~l  240 (478)
T KOG4308|consen  168 LEKNEHLTELDLSLNG-LIELGLLVLSQALESAASPLSSLETLK------LSRCGVTSSSCALLDEVLASGESLLRELDL  240 (478)
T ss_pred             HhcccchhHHHHHhcc-cchhhhHHHhhhhhhhhcccccHHHHh------hhhcCcChHHHHHHHHHHhccchhhHHHHH
Confidence            5556677777777776 3211        011111 22233333      2455544221    122333333 445666


Q ss_pred             cCCeeeecCCCceEEEeecceeeeeecccccccc-ccccEEEecCCeeeeccC----CCccccccccEEecccccCcc
Q 040144          213 VNNSIVGFIPWSFELHIYDNKLNVTLFELHFANL-IEMSWFRVGGNQLTLEVK----HDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       213 ~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~-~~L~~l~l~~n~~~~~~~----~~~~~~~~L~~l~l~~n~~~~  285 (289)
                      +.|.+.+.+-             ..+.. .+..+ .+++.+++..|.+++...    ..+..++.++++.+++|.+++
T Consensus       241 ~~n~l~d~g~-------------~~L~~-~l~~~~~~l~~l~l~~nsi~~~~~~~L~~~l~~~~~l~~l~l~~n~l~~  304 (478)
T KOG4308|consen  241 ASNKLGDVGV-------------EKLLP-CLSVLSETLRVLDLSRNSITEKGVRDLAEVLVSCRQLEELSLSNNPLTD  304 (478)
T ss_pred             HhcCcchHHH-------------HHHHH-HhcccchhhhhhhhhcCCccccchHHHHHHHhhhHHHHHhhcccCcccc
Confidence            5555542211             01222 34444 678999999999886533    355677889999999998864

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.96  E-value=0.029  Score=42.50  Aligned_cols=80  Identities=25%  Similarity=0.214  Sum_probs=46.9

Q ss_pred             CCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhc-CCCCccEEeCCCCCcccCCCCcccc-ccCcce
Q 040144          102 SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALG-NLTSINRLDLSLNTGLTGRIPRSMA-LCNLKS  179 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~  179 (289)
                      .++.++.++..|. .+-...+.+++.++.|.+.+|..-+....+-++ ..++|+.|++++|..+++..-..+. +++|+.
T Consensus       102 ~IeaVDAsds~I~-~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~  180 (221)
T KOG3864|consen  102 KIEAVDASDSSIM-YEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRR  180 (221)
T ss_pred             eEEEEecCCchHH-HHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHH
Confidence            3567777777665 444445566677777777777544322112222 3467888888877755544333444 666666


Q ss_pred             eec
Q 040144          180 INL  182 (289)
Q Consensus       180 L~l  182 (289)
                      |.+
T Consensus       181 L~l  183 (221)
T KOG3864|consen  181 LHL  183 (221)
T ss_pred             HHh
Confidence            655

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.21  E-value=0.03  Score=42.41  Aligned_cols=83  Identities=19%  Similarity=0.229  Sum_probs=52.9

Q ss_pred             CCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhh-cCCCccEEEccCCc-cCCCCcccccCCCCCc
Q 040144           27 NLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVAN-KLLSLVELRLSNCQ-LQHFSPLATVNFSSLT  104 (289)
Q Consensus        27 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~-l~~~~~~~l~~~~~L~  104 (289)
                      .++.++-+++.+...+ ...+.+++.++.|.+.+|.-.++.. ...+. -.++|+.|++++|. |++.....+..+++|+
T Consensus       102 ~IeaVDAsds~I~~eG-le~L~~l~~i~~l~l~~ck~~dD~~-L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr  179 (221)
T KOG3864|consen  102 KIEAVDASDSSIMYEG-LEHLRDLRSIKSLSLANCKYFDDWC-LERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLR  179 (221)
T ss_pred             eEEEEecCCchHHHHH-HHHHhccchhhhheeccccchhhHH-HHHhcccccchheeeccCCCeechhHHHHHHHhhhhH
Confidence            4556666665555444 2236677788888888886544422 11222 45789999999774 6655555667778888


Q ss_pred             EEeccCC
Q 040144          105 MLDLSHN  111 (289)
Q Consensus       105 ~L~l~~~  111 (289)
                      .|.+.+-
T Consensus       180 ~L~l~~l  186 (221)
T KOG3864|consen  180 RLHLYDL  186 (221)
T ss_pred             HHHhcCc
Confidence            8877653

>smart00370 LRR Leucine-rich repeats, outliers

Probab=88.77  E-value=0.32  Score=23.37  Aligned_cols=16  Identities=31%  Similarity=0.573  Sum_probs=9.7

Q ss_pred             CCCCcEEEccCCcccc
Q 040144            1 MGNLRYLNFSKTRICG   16 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~   16 (289)
                      +++|++|+|.+|.+..
T Consensus         1 L~~L~~L~L~~N~l~~   16 (26)
T smart00370        1 LPNLRELDLSNNQLSS   16 (26)
T ss_pred             CCCCCEEECCCCcCCc
Confidence            3566666666666653

>smart00369 LRR_TYP Leucine-rich repeats, typical (most populated) subfamily

Probab=88.77  E-value=0.32  Score=23.37  Aligned_cols=16  Identities=31%  Similarity=0.573  Sum_probs=9.7

Q ss_pred             CCCCcEEEccCCcccc
Q 040144            1 MGNLRYLNFSKTRICG   16 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~   16 (289)
                      +++|++|+|.+|.+..
T Consensus         1 L~~L~~L~L~~N~l~~   16 (26)
T smart00369        1 LPNLRELDLSNNQLSS   16 (26)
T ss_pred             CCCCCEEECCCCcCCc
Confidence            3566666666666653

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=86.48  E-value=0.48  Score=22.96  Aligned_cols=16  Identities=19%  Similarity=0.355  Sum_probs=8.2

Q ss_pred             cccEEecccccCccCCC
Q 040144          272 QLVALGLHSCYIGSRFP  288 (289)
Q Consensus       272 ~L~~l~l~~n~~~~~~p  288 (289)
                      +|+.|++++|+++ .+|
T Consensus         3 ~L~~L~vs~N~Lt-~LP   18 (26)
T smart00364        3 SLKELNVSNNQLT-SLP   18 (26)
T ss_pred             ccceeecCCCccc-cCc
Confidence            4555555555554 444

>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type

Probab=80.19  E-value=1.2  Score=21.98  Aligned_cols=14  Identities=29%  Similarity=0.304  Sum_probs=8.7

Q ss_pred             ccccEEecccccCc
Q 040144          271 FQLVALGLHSCYIG  284 (289)
Q Consensus       271 ~~L~~l~l~~n~~~  284 (289)
                      ++|++|++++|.|.
T Consensus         2 ~~L~~LdL~~N~i~   15 (28)
T smart00368        2 PSLRELDLSNNKLG   15 (28)
T ss_pred             CccCEEECCCCCCC
Confidence            35666666666664

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	289
3rgx_A	768	Structural Insight Into Brassinosteroid Perception		3e-05
3riz_A	772	Crystal Structure Of The Plant Steroid Receptor Bri		3e-05
1ogq_A	313	The Crystal Structure Of Pgip (Polygalacturonase In		4e-05
2omx_A	462	Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX		8e-05
2omu_A	462	Crystal Structure Of Inla G194s+s Y369s/hec1 Comple		3e-04
2omt_A	462	Crystal Structure Of Inla G194s+sHEC1 COMPLEX Lengt		3e-04
2z64_A	599	Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Comp		4e-04
3vq1_A	606	Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLE		4e-04

>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1 Length = 768

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 85/357 (23%), Positives = 132/357 (36%), Gaps = 98/357 (27%)
Query: 2   GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV 61
           G L++L  S  +I G +   +    NL+FLD+SS    +     +L   S L+HLD+   
Sbjct: 178 GELKHLAISGNKISGDV--DVSRCVNLEFLDVSSNN--FSTGIPFLGDCSALQHLDISGN 233
Query: 62  NLSIAFDWLMVANKLLSLVELRLSNCQLQHFS------PLATVNF--------------- 100
            LS  F     +  + +  EL+L N     F       PL ++ +               
Sbjct: 234 KLSGDF-----SRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDF 288
Query: 101 -----SSLTMLDLSHNQF------------------------DNSFILSWVFALSHLPFL 131
                 +LT LDLS N F                             +  +  +  L  L
Sbjct: 289 LSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVL 348
Query: 132 DLGFNNFQGTIDLEALGNLT-SINRLDLS-------------------------LNTGLT 165
           DL FN F G +  E+L NL+ S+  LDLS                          N G T
Sbjct: 349 DLSFNEFSGELP-ESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFT 407
Query: 166 GRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPW-- 223
           G+IP +++ C+ + ++L  S +  S    G +   LG    L    L  N + G IP   
Sbjct: 408 GKIPPTLSNCS-ELVSLHLSFNYLS----GTIPSSLGSLSKLRDLKLWLNMLEGEIPQEL 462
Query: 224 ----SFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVAL 276
               + E  I D            +N   ++W  +  N+LT E+   WI   + +A+
Sbjct: 463 MYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK-WIGRLENLAI 518

>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1 Ectodomain Length = 772

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 84/360 (23%), Positives = 134/360 (37%), Gaps = 104/360 (28%)
Query: 2   GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV 61
           G L++L  S  +I G +   +    NL+FLD+SS    +     +L   S L+HLD+   
Sbjct: 175 GELKHLAISGNKISGDV--DVSRCVNLEFLDVSSNN--FSTGIPFLGDCSALQHLDISGN 230
Query: 62  NLSIAFDWLMVANKLLSLVELRLSNCQLQHFS------PLATVNF--------------- 100
            LS  F     +  + +  EL+L N     F       PL ++ +               
Sbjct: 231 KLSGDF-----SRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDF 285
Query: 101 -----SSLTMLDLSHNQF------------------------DNSFILSWVFALSHLPFL 131
                 +LT LDLS N F                             +  +  +  L  L
Sbjct: 286 LSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVL 345
Query: 132 DLGFNNFQGTIDLEALGNLT-SINRLDLS-------------------------LNTGLT 165
           DL FN F G +  E+L NL+ S+  LDLS                          N G T
Sbjct: 346 DLSFNEFSGELP-ESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFT 404
Query: 166 GRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF 225
           G+IP +++ C+ + ++L  S +  S    G +   LG    L    L  N + G IP   
Sbjct: 405 GKIPPTLSNCS-ELVSLHLSFNYLS----GTIPSSLGSLSKLRDLKLWLNMLEGEIPQEL 459
Query: 226 ELHIYDNKLNVTLFELH---------FANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVAL 276
              +Y   L   + + +          +N   ++W  +  N+LT E+   WI   + +A+
Sbjct: 460 ---MYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK-WIGRLENLAI 515

>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase Inhibiting Protein), A Leucine Rich Repeat Protein Involved In Plant Defense Length = 313

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 66/241 (27%), Positives = 109/241 (45%), Gaps = 28/241 (11%)
Query: 1   MGNLRYLNF----SKTRICGIIPQQLGNLSNLQFLDLS-SKYLLYVDNFLWLSGISLLEH 55
           + NL YLNF        + G IP  +  L+ L +L ++ +     + +FL  S I  L  
Sbjct: 72  LANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFL--SQIKTLVT 129
Query: 56  LDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSL-TMLDLSHNQFD 114
           LD  Y  LS      + +  L +LV +     ++    P +  +FS L T + +S N+  
Sbjct: 130 LDFSYNALSGTLPPSISS--LPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLT 187
Query: 115 NSFILSWVFALSHLPFLDLGFNNFQGTIDLEAL-GNLTSINRLDLSLNTGLTGRIPRSMA 173
               +   FA  +L F+DL  N  +G  D   L G+  +  ++ L+ N         S+A
Sbjct: 188 GK--IPPTFANLNLAFVDLSRNMLEG--DASVLFGSDKNTQKIHLAKN---------SLA 234
Query: 174 LCNLKSINLQE---SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIY 230
             +L  + L +    LD+R++ IYG L   L Q + L + N+  N++ G IP    L  +
Sbjct: 235 F-DLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRF 293
Query: 231 D 231
           D
Sbjct: 294 D 294

>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX Length = 462

Iteration: 1
 Score = 44.3 bits (103), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 50/158 (31%), Positives = 80/158 (50%), Gaps = 17/158 (10%)
Query: 4   LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNL 63
           L+ LNFS  ++  + P  L NL+ L+ LD+SS     V +   L+ ++ LE L      +
Sbjct: 153 LQQLNFSSNQVTDLKP--LANLTTLERLDISSNK---VSDISVLAKLTNLESLIATNNQI 207
Query: 64  SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVF 123
           S      ++ N    L EL L+  QL+    LA+   ++LT LDL++NQ  N   L+ + 
Sbjct: 208 SDITPLGILTN----LDELSLNGNQLKDIGTLAS--LTNLTDLDLANNQISN---LAPLS 258
Query: 124 ALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
            L+ L  L LG N      ++  L  LT++  L+L+ N
Sbjct: 259 GLTKLTELKLGANQIS---NISPLAGLTALTNLELNEN 293

>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex Length = 462

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 49/158 (31%), Positives = 80/158 (50%), Gaps = 17/158 (10%)
Query: 4   LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNL 63
           L+ L+FS  ++  + P  L NL+ L+ LD+SS     V +   L+ ++ LE L      +
Sbjct: 153 LQQLSFSSNQVTDLKP--LANLTTLERLDISSNK---VSDISVLAKLTNLESLIATNNQI 207
Query: 64  SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVF 123
           S      ++ N    L EL L+  QL+    LA+   ++LT LDL++NQ  N   L+ + 
Sbjct: 208 SDITPLGILTN----LDELSLNGNQLKDIGTLAS--LTNLTDLDLANNQISN---LAPLS 258
Query: 124 ALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
            L+ L  L LG N      ++  L  LT++  L+L+ N
Sbjct: 259 GLTKLTELKLGANQIS---NISPLAGLTALTNLELNEN 293

>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX Length = 462

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 49/158 (31%), Positives = 80/158 (50%), Gaps = 17/158 (10%)
Query: 4   LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNL 63
           L+ L+FS  ++  + P  L NL+ L+ LD+SS     V +   L+ ++ LE L      +
Sbjct: 153 LQQLSFSSNQVTDLKP--LANLTTLERLDISSNK---VSDISVLAKLTNLESLIATNNQI 207
Query: 64  SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVF 123
           S      ++ N    L EL L+  QL+    LA+   ++LT LDL++NQ  N   L+ + 
Sbjct: 208 SDITPLGILTN----LDELSLNGNQLKDIGTLAS--LTNLTDLDLANNQISN---LAPLS 258
Query: 124 ALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
            L+ L  L LG N      ++  L  LT++  L+L+ N
Sbjct: 259 GLTKLTELKLGANQIS---NISPLAGLTALTNLELNEN 293

>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex Length = 599

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 53/170 (31%), Positives = 77/170 (45%), Gaps = 16/170 (9%)
Query: 17  IIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKL 76
           I+      L  LQ LD     L  V  F     +  L +LD+ Y N  I FD + +   L
Sbjct: 385 IMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLG--L 442
Query: 77  LSLVELRLSNCQLQHFSPLATV--NFSSLTMLDLSHNQFDNSFILSW-VF-ALSHLPFLD 132
            SL  L+++    +  + L+ V  N ++LT LDLS  Q +    +SW VF  L  L  L+
Sbjct: 443 TSLNTLKMAGNSFKD-NTLSNVFANTTNLTFLDLSKCQLEQ---ISWGVFDTLHRLQLLN 498
Query: 133 LGFNNFQGTIDLEALGNLTSINRLDLSLN-----TGLTGRIPRSMALCNL 177
           +  NN    +D      L S++ LD S N      G+    P+S+A  NL
Sbjct: 499 MSHNNLL-FLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNL 547

>pdb|3VQ1|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX Length = 606

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 52/162 (32%), Positives = 75/162 (46%), Gaps = 16/162 (9%)
Query: 25  LSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRL 84
           L  LQ LD     L  V  F     +  L +LD+ Y N  I FD + +   L SL  L++
Sbjct: 398 LEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLG--LTSLNTLKM 455
Query: 85  SNCQLQHFSPLATV--NFSSLTMLDLSHNQFDNSFILSW-VF-ALSHLPFLDLGFNNFQG 140
           +    +  + L+ V  N ++LT LDLS  Q +    +SW VF  L  L  L++  NN   
Sbjct: 456 AGNSFKD-NTLSNVFANTTNLTFLDLSKCQLEQ---ISWGVFDTLHRLQLLNMSHNNLL- 510
Query: 141 TIDLEALGNLTSINRLDLSLN-----TGLTGRIPRSMALCNL 177
            +D      L S++ LD S N      G+    P+S+A  NL
Sbjct: 511 FLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNL 552

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	289
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	9e-36
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-31
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-27
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-23
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-21
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-21
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-18
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-23
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-16
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-16
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-23
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-21
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-16
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-22
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-19
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-18
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-17
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-13
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	6e-22
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	7e-21
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-20
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	5e-19
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	4e-14
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-21
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-21
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-21
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-21
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-19
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-17
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	8e-20
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-18
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-18
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-16
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-15
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	7e-08
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-18
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-16
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-15
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-17
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-15
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-13
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	6e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-17
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-17
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-17
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-16
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-15
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-14
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-09
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-16
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-15
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-14
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-12
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-16
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-15
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-12
1o6v_A	466	Internalin A; bacterial infection, extracellular r	8e-08
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-15
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-13
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-11
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-15
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	5e-14
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	6e-09
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	6e-07
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-13
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-14
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-10
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	6e-07
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-14
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	7e-13
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-10
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	3e-14
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-13
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-07
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-14
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-12
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-09
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-14
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	7e-14
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	9e-13
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-10
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-10
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-13
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-13
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-12
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-12
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-10
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	6e-13
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	9e-13
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	4e-10
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	6e-13
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-12
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	4e-08
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	2e-12
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	3e-10
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-12
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-09
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	8e-08
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-05
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	4e-12
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-10
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-11
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-05
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	5e-11
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	9e-09
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	7e-08
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-10
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-09
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-09
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	7e-09
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-07
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-10
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	6e-10
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	7e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	3e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-10
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-07
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	5e-07
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-06
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-09
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	9e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-09
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	7e-06
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	4e-09
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-09
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	8e-09
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-08
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-08
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	3e-07
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-06
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	5e-08
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	6e-08
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	6e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-07
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	6e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	4e-07
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	9e-05
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	4e-07
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	4e-05
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	5e-07
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	1e-06
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	2e-06
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	7e-06
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	9e-06
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	2e-04
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	2e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-06
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	4e-06
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	3e-05
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	9e-04
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	7e-06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	9e-06
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	3e-05
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	5e-04
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	6e-05
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	6e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	7e-04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	2e-04
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	2e-04
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	4e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	3e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04

>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* Length = 768

 Score =  134 bits (340), Expect = 9e-36
 Identities = 60/271 (22%), Positives = 107/271 (39%), Gaps = 24/271 (8%)

Query: 1   MGNLRYLNFSKTRICGIIP--QQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDL 58
             +L  L+ S+  + G +     LG+ S L+FL++SS  L +         ++ LE LDL
Sbjct: 99  SASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDL 158

Query: 59  RYVNLSIAF-DWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSF 117
              ++S A     ++++    L  L +S  ++     ++     +L  LD+S N F  S 
Sbjct: 159 SANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVS--RCVNLEFLDVSSNNF--ST 214

Query: 118 ILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNL 177
            + ++   S L  LD+  N   G      +   T +  L++S N    G IP    L +L
Sbjct: 215 GIPFLGDCSALQHLDISGNKLSGDFSRA-ISTCTELKLLNISSN-QFVGPIPPLP-LKSL 271

Query: 178 KSINLQESLDMRSSSIYGHLTDQL-GQFRNLVTFNLVNNSIVGFIPWSF-------ELHI 229
                 + L +  +   G + D L G    L   +L  N   G +P  F        L +
Sbjct: 272 ------QYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLAL 325

Query: 230 YDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
             N  +  L       +  +    +  N+ +
Sbjct: 326 SSNNFSGELPMDTLLKMRGLKVLDLSFNEFS 356

>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* Length = 768

 Score =  122 bits (309), Expect = 2e-31
 Identities = 54/266 (20%), Positives = 101/266 (37%), Gaps = 22/266 (8%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           +L     +       +   L +L+ L+ L LS+ ++    +       + L  LDL   +
Sbjct: 56  DLSSKPLNVGF--SAVSSSLLSLTGLESLFLSNSHI--NGSVSGFKCSASLTSLDLSRNS 111

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPL-ATVNFSSLTMLDLSHNQFDNSFILSW 121
           LS     L        L  L +S+  L     +   +  +SL +LDLS N    + ++ W
Sbjct: 112 LSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGW 171

Query: 122 VFA--LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
           V +     L  L +  N   G +D   +    ++  LD+S N   +  IP    L +  +
Sbjct: 172 VLSDGCGELKHLAISGNKISGDVD---VSRCVNLEFLDVSSN-NFSTGIP---FLGDCSA 224

Query: 180 INLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWS-----FELHIYDNKL 234
           +   + LD+  + + G  +  +     L   N+ +N  VG IP         L + +NK 
Sbjct: 225 L---QHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKF 281

Query: 235 NVTLFELHFANLIEMSWFRVGGNQLT 260
              + +        ++   + GN   
Sbjct: 282 TGEIPDFLSGACDTLTGLDLSGNHFY 307

>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* Length = 768

 Score =  109 bits (276), Expect = 3e-27
 Identities = 68/294 (23%), Positives = 114/294 (38%), Gaps = 51/294 (17%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFL------WLSGISLLEHL 56
           NL +L+ S       IP  LG+ S LQ LD+S        N L       +S  + L+ L
Sbjct: 201 NLEFLDVSSNNFSTGIPF-LGDCSALQHLDISG-------NKLSGDFSRAISTCTELKLL 252

Query: 57  DLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQ-HFSPLATVNFSSLTMLDLSHNQFDN 115
           ++                 L SL  L L+  +         +    +LT LDLS N F  
Sbjct: 253 NISSNQFVGPIP----PLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYG 308

Query: 116 SFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALC 175
           + +  +  + S L  L L  NNF G + ++ L  +  +  LDLS N   +G +P S+   
Sbjct: 309 A-VPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFN-EFSGELPESLTNL 366

Query: 176 --NLKSINLQ--------------------ESLDMRSSSIYGHLTDQLGQFRNLVTFNLV 213
             +L +++L                     + L ++++   G +   L     LV+ +L 
Sbjct: 367 SASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLS 426

Query: 214 NNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
            N + G IP S        +L ++ N L   + +     +  +    +  N LT
Sbjct: 427 FNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQ-ELMYVKTLETLILDFNDLT 479

>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* Length = 768

 Score = 97.3 bits (243), Expect = 8e-23
 Identities = 42/228 (18%), Positives = 86/228 (37%), Gaps = 25/228 (10%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFL------WLSGISLLE 54
           + NL  L  S     G IP +LG+  +L +LDL++       N         +   S   
Sbjct: 513 LENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNT-------NLFNGTIPAAMFKQSG-- 563

Query: 55  HLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD 114
              +    ++      +  + +        +  + Q          S+    +++   + 
Sbjct: 564 --KIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVY- 620

Query: 115 NSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMAL 174
                        + FLD+ +N   G I  + +G++  +  L+L  N  ++G IP  +  
Sbjct: 621 GGHTSPTFDNNGSMMFLDMSYNMLSGYI-PKEIGSMPYLFILNLGHN-DISGSIPDEVG- 677

Query: 175 CNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
            +L+ +     LD+ S+ + G +   +     L   +L NN++ G IP
Sbjct: 678 -DLRGL---NILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP 721

>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* Length = 768

 Score = 93.8 bits (234), Expect = 1e-21
 Identities = 61/249 (24%), Positives = 86/249 (34%), Gaps = 37/249 (14%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFL------WLSGISLLE 54
              L+ L        G IP  L N S L  L LS        N+L       L  +S L 
Sbjct: 393 KNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLS-------FNYLSGTIPSSLGSLSKLR 445

Query: 55  HLDLRYVNLSIAF-DWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQF 113
            L L    L       LM    + +L  L L    L    P    N ++L  + LS+N+ 
Sbjct: 446 DLKLWLNMLEGEIPQELM---YVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRL 502

Query: 114 DNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA 173
               I  W+  L +L  L L  N+F G I  E LG+  S+  LDL+ N    G IP +M 
Sbjct: 503 -TGEIPKWIGRLENLAILKLSNNSFSGNIPAE-LGDCRSLIWLDLNTN-LFNGTIPAAMF 559

Query: 174 LCNLKSINLQES-----------------LDMRSSSIYGHLTDQLGQFRNLVTFNLVNNS 216
             + K      +                          G  ++QL +       N+ +  
Sbjct: 560 KQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRV 619

Query: 217 IVGFIPWSF 225
             G    +F
Sbjct: 620 YGGHTSPTF 628

>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* Length = 768

 Score = 91.9 bits (229), Expect = 5e-21
 Identities = 66/271 (24%), Positives = 96/271 (35%), Gaps = 53/271 (19%)

Query: 2   GNLRYLNFSKTRICGIIPQQLGN--LSNLQFLDLSSKYLLYVDNFL------WLSGISLL 53
            +L  L+ S     G I   L     + LQ L L        +N         LS  S L
Sbjct: 368 ASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQ-------NNGFTGKIPPTLSNCSEL 420

Query: 54  EHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQF 113
             L L +  LS                             P +  + S L  L L  N  
Sbjct: 421 VSLHLSFNYLSGTI--------------------------PSSLGSLSKLRDLKLWLNML 454

Query: 114 DNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA 173
           +   I   +  +  L  L L FN+  G I    L N T++N + LS N  LTG IP+   
Sbjct: 455 EGE-IPQELMYVKTLETLILDFNDLTGEIPSG-LSNCTNLNWISLSNN-RLTGEIPKW-- 509

Query: 174 LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF---ELHIY 230
           +  L+  NL   L + ++S  G++  +LG  R+L+  +L  N   G IP +       I 
Sbjct: 510 IGRLE--NLA-ILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIA 566

Query: 231 DNKLNVTLFELHFANLIEMSWFRVGGNQLTL 261
            N +    +  +  N          GN L  
Sbjct: 567 ANFIAGKRYV-YIKNDGMKKECHGAGNLLEF 596

>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* Length = 768

 Score = 83.8 bits (208), Expect = 2e-18
 Identities = 57/253 (22%), Positives = 88/253 (34%), Gaps = 45/253 (17%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFL------WLSGISLLE 54
           +  LR L      + G IPQ+L  +  L+ L L         N L       LS  + L 
Sbjct: 441 LSKLRDLKLWLNMLEGEIPQELMYVKTLETLILD-------FNDLTGEIPSGLSNCTNLN 493

Query: 55  HLDLRYVNLSIAF-DWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQF 113
            + L    L+     W+    +L +L  L+LSN       P    +  SL  LDL+ N F
Sbjct: 494 WISLSNNRLTGEIPKWI---GRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 550

Query: 114 ----------------DNSF---ILSWVFALSHLPFLDLGFN--NFQGTIDLEALGNLTS 152
                            N        ++             N   FQG    + L  L++
Sbjct: 551 NGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQ-LNRLST 609

Query: 153 INRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNL 212
            N  +++      G    +    N  S+     LDM  + + G++  ++G    L   NL
Sbjct: 610 RNPCNITSRV-YGGHTSPT--FDNNGSMM---FLDMSYNMLSGYIPKEIGSMPYLFILNL 663

Query: 213 VNNSIVGFIPWSF 225
            +N I G IP   
Sbjct: 664 GHNDISGSIPDEV 676

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 99.6 bits (248), Expect = 1e-23
 Identities = 43/248 (17%), Positives = 78/248 (31%), Gaps = 16/248 (6%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
              L  L     +I  I          ++ L  S   L Y+ N      + ++  +D  Y
Sbjct: 594 NVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSY 653

Query: 61  VNLSIAFDWL---MVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN-- 115
             +      +   M   K ++   + LS  ++Q F        S ++ + LS+N   +  
Sbjct: 654 NKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIP 713

Query: 116 ----SFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRS 171
                           L  +DL FN      D      L  ++ +D+S N   +   P  
Sbjct: 714 ENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNC-FSS-FPTQ 771

Query: 172 MALC-NLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF----E 226
                 LK+  ++   D   + I       +    +L+   + +N I             
Sbjct: 772 PLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKLTPQLYI 831

Query: 227 LHIYDNKL 234
           L I DN  
Sbjct: 832 LDIADNPN 839

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 77.2 bits (190), Expect = 5e-16
 Identities = 39/296 (13%), Positives = 89/296 (30%), Gaps = 45/296 (15%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
            G +  L+ +     G +P  +G L+ L+ L   +              ++     + ++
Sbjct: 322 NGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKH 381

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSF--- 117
                     M  +    L    L    +     +  +     + + L   Q  N     
Sbjct: 382 RIRMHYKK--MFLDYDQRLNLSDLLQDAINRNPEMKPI--KKDSRISLKDTQIGNLTNRI 437

Query: 118 --ILSWVFALSHLPFLDLGFNNFQGTIDL------------------EALGNLTSINRLD 157
             I   +  L+ L  +    + F                         +  NL  +  ++
Sbjct: 438 TFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVE 497

Query: 158 LSLNTGLTGRIPRSMA-LCNLKSINL---QESLDMRSSSIYGHLTDQLGQFRNLVTFNLV 213
           L  N     ++P  +  L  L+S+N+   +     +  + +  L D       +  F + 
Sbjct: 498 LY-NCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMG 556

Query: 214 NNSIVGFIPWSF--------ELHIYDNKLNVTLFELH-FANLIEMSWFRVGGNQLT 260
            N++  F   +          L    NK+      L  F   ++++  ++  NQ+ 
Sbjct: 557 YNNLEEFPASASLQKMVKLGLLDCVHNKVR----HLEAFGTNVKLTDLKLDYNQIE 608

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 76.8 bits (189), Expect = 6e-16
 Identities = 36/277 (12%), Positives = 71/277 (25%), Gaps = 41/277 (14%)

Query: 1   MGNLRYLNFSKTRICGI---------IPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGIS 51
           +  L+ LN +  R             +         +Q   +    L        L  + 
Sbjct: 514 LPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMV 573

Query: 52  LLEHLDLRYVNLSI--AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLS 109
            L  LD  +  +    AF         + L +L+L   Q++            +  L  S
Sbjct: 574 KLGLLDCVHNKVRHLEAF------GTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFS 627

Query: 110 HNQFDNSFILSWVFALSHLPFLDLGFNNFQGTID----LEALGNLTSINRLDLSLNTGLT 165
           HN+      +    ++  +  +D  +N                   + + + LS N  + 
Sbjct: 628 HNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNE-IQ 686

Query: 166 GRIPRSMA-LCNLKSINLQE-SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPW 223
                  A    + +I L    +     +              L T +L  N +      
Sbjct: 687 KFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSD- 745

Query: 224 SFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
                           +     L  +S   V  N  +
Sbjct: 746 ----------------DFRATTLPYLSNMDVSYNCFS 766

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 58.3 bits (141), Expect = 8e-10
 Identities = 23/188 (12%), Positives = 55/188 (29%), Gaps = 4/188 (2%)

Query: 74  NKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDL 133
           +    +  L L+    +   P A    + L +L    +    S  L     L+     + 
Sbjct: 320 DNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPD-MSEE 378

Query: 134 GFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSI 193
             +  +       L     +N  DL  +     R P    +     I+L+++     ++ 
Sbjct: 379 RKHRIRMHYKKMFLDYDQRLNLSDLLQD--AINRNPEMKPIKKDSRISLKDTQIGNLTNR 436

Query: 194 YGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVT-LFELHFANLIEMSWF 252
              ++  + +   L      N+                +        EL ++NL +++  
Sbjct: 437 ITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDV 496

Query: 253 RVGGNQLT 260
            +      
Sbjct: 497 ELYNCPNM 504

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 51.8 bits (124), Expect = 1e-07
 Identities = 30/245 (12%), Positives = 64/245 (26%), Gaps = 33/245 (13%)

Query: 47  LSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTML 106
           L     +  L L            +   +L  L  L            L      +  M 
Sbjct: 319 LDNNGRVTGLSLAGFGAKGRVPDAI--GQLTELKVLSFGTHSETVSGRLFGDEELTPDMS 376

Query: 107 DLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSIN--RLDLSLNTGL 164
           +   ++    +   ++     L   DL  +      +++ +   + I+     +   T  
Sbjct: 377 EERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNR 436

Query: 165 TGRIPRSMA-LCNLKSINLQ-------------ESLDMRSSSIYGHLTDQLGQFRNLVTF 210
              I +++  L  L+ I                E  +   +  Y +        ++L   
Sbjct: 437 ITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDV 496

Query: 211 NLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELH--------FANLIEMSWFRVG 255
            L N   +  +P           L+I  N+                      ++  F +G
Sbjct: 497 ELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMG 556

Query: 256 GNQLT 260
            N L 
Sbjct: 557 YNNLE 561

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 99.0 bits (247), Expect = 2e-23
 Identities = 47/274 (17%), Positives = 85/274 (31%), Gaps = 19/274 (6%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
            L  LN +  +I  I     G    ++ L  +   L Y+ N      +S++  +D  Y  
Sbjct: 354 KLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNE 413

Query: 63  LSIAFDWLMVA-----NKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQF---- 113
           +                K +++  + LSN Q+  F        S L+ ++L  N      
Sbjct: 414 IGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIP 473

Query: 114 --DNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRS 171
                           L  +DL FN      D      L  +  +DLS N+  +   P  
Sbjct: 474 KNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNS-FSK-FPTQ 531

Query: 172 MA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFE---- 226
                 LK   ++   D + +       + +    +L    + +N I             
Sbjct: 532 PLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEKITPNISV 591

Query: 227 LHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
           L I DN         +    IE   + +  ++  
Sbjct: 592 LDIKDNPNISIDLS-YVCPYIEAGMYMLFYDKTQ 624

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 92.0 bits (229), Expect = 4e-21
 Identities = 43/292 (14%), Positives = 88/292 (30%), Gaps = 37/292 (12%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGIS---LLEHLD 57
            G +  L+       G +P  +G L+ L+ L L S      +      GIS     E   
Sbjct: 80  NGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQ 139

Query: 58  LRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSF 117
              ++    F           L++  +++   Q     ++      T +    N    +F
Sbjct: 140 KMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNI--TF 197

Query: 118 ILSWVFALSHLPFLDLGFNNFQGTIDLE------------------ALGNLTSINRLDLS 159
           +   V  L+ L    +G + F      E                     NL  +  +++ 
Sbjct: 198 VSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVY 257

Query: 160 LNTGLTGRIPRSMA-LCNLKSINLQE--SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNS 216
                  ++P  +  L  ++ IN+     +                    +    +  N+
Sbjct: 258 NCP-NLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNN 316

Query: 217 I-VGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
           +    +  S         L    N+L   L    F + I+++   +  NQ+T
Sbjct: 317 LKTFPVETSLQKMKKLGMLECLYNQLEGKLPA--FGSEIKLASLNLAYNQIT 366

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 78.2 bits (193), Expect = 2e-16
 Identities = 36/307 (11%), Positives = 89/307 (28%), Gaps = 61/307 (19%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
            LR      +        +     N ++              L    +  L  +++    
Sbjct: 207 KLRQFYMGNSPFVAENICEAWENENSEYAQQYKT------EDLKWDNLKDLTDVEVYNCP 260

Query: 63  LSIAF-DWLMVANKLLSLVELRLSNCQLQHFSPLAT--------VNFSSLTMLDLSHNQF 113
                  +L     L  +  + ++  +      L               + ++ + +N  
Sbjct: 261 NLTKLPTFL---KALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNL 317

Query: 114 DNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA 173
               + + +  +  L  L+  +N  +G +   A G+   +  L+L+ N  +T        
Sbjct: 318 KTFPVETSLQKMKKLGMLECLYNQLEGKL--PAFGSEIKLASLNLAYN-QITEIPANFCG 374

Query: 174 LC-NLKSINLQ-------------------ESLDMR-------SSSIYGHLTDQLGQFRN 206
               +++++                      ++D             +  L     +  N
Sbjct: 375 FTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGIN 434

Query: 207 LVTFNLVNNSIVGFIPWSF-------ELHIYDNKL------NVTLFELHFANLIEMSWFR 253
           + + NL NN I  F    F        +++  N L      ++     +F N   ++   
Sbjct: 435 VSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSID 494

Query: 254 VGGNQLT 260
           +  N+LT
Sbjct: 495 LRFNKLT 501

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 51.2 bits (123), Expect = 1e-07
 Identities = 29/224 (12%), Positives = 65/224 (29%), Gaps = 31/224 (13%)

Query: 41  VDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNF 100
           +D +    G+SL                     N    +  L L         P A    
Sbjct: 66  LDMWGAQPGVSL---------------------NSNGRVTGLSLEGFGASGRVPDAIGQL 104

Query: 101 SSLTMLDLSHNQF---DNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLD 157
           + L +L L  +     +  F    + A            ++Q T     +      +  D
Sbjct: 105 TELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTF----VDYDPREDFSD 160

Query: 158 LSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSI 217
           L  +   +    +S+   +  ++   + +   S++I   ++  + +   L  F + N+  
Sbjct: 161 LIKDCINSDPQQKSIKKSSRITLKDTQ-IGQLSNNI-TFVSKAVMRLTKLRQFYMGNSPF 218

Query: 218 VGFIPWSFELHIYDNKL-NVTLFELHFANLIEMSWFRVGGNQLT 260
           V         +            +L + NL +++   V      
Sbjct: 219 VAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNL 262

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

 Score = 95.9 bits (239), Expect = 2e-22
 Identities = 43/266 (16%), Positives = 86/266 (32%), Gaps = 11/266 (4%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           +  L+ L  S  +   +      N  +L  L +             L  +  L  LDL +
Sbjct: 300 LSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSH 359

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
            ++  +    +    L  L  L LS  +       A      L +LDL+  +       S
Sbjct: 360 DDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQS 419

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSI 180
               L  L  L+L  +    + + +    L ++  L+L  N    G I ++ +L  L  +
Sbjct: 420 PFQNLHLLKVLNLSHSLLDISSE-QLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRL 478

Query: 181 NLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF------ELHIYDNKL 234
              E L +    +           + +   +L +N +      +        L++  N +
Sbjct: 479 ---EILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHI 535

Query: 235 NVTLFELHFANLIEMSWFRVGGNQLT 260
           +  +       L +     +  N L 
Sbjct: 536 S-IILPSLLPILSQQRTINLRQNPLD 560

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

 Score = 85.8 bits (213), Expect = 5e-19
 Identities = 56/295 (18%), Positives = 94/295 (31%), Gaps = 43/295 (14%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDL--------------------------S 34
              L+ L+F    I  +  + + +L     L L                           
Sbjct: 152 TEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGG 211

Query: 35  SKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSP 94
           ++ LL +   L  S I  L       ++       +      +S+  + L      + S 
Sbjct: 212 TQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISS 271

Query: 95  LATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSIN 154
                FS L  LDL+      S + S +  LS L  L L  N F+  +   +  N  S+ 
Sbjct: 272 NTFHCFSGLQELDLTATHL--SELPSGLVGLSTLKKLVLSANKFEN-LCQISASNFPSLT 328

Query: 155 RLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIY--GHLTDQLGQFRNLVTFNL 212
            L +  NT           L NL+++     LD+    I        QL    +L + NL
Sbjct: 329 HLSIKGNTKRLELGTG--CLENLENL---RELDLSHDDIETSDCCNLQLRNLSHLQSLNL 383

Query: 213 VNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
             N  +     +F        L +   +L V   +  F NL  +    +  + L 
Sbjct: 384 SYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLD 438

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

 Score = 82.8 bits (205), Expect = 5e-18
 Identities = 46/288 (15%), Positives = 80/288 (27%), Gaps = 32/288 (11%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
              L  L  +   +  +    L     L+ L      +  +D    L     LE L L  
Sbjct: 80  QHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIP-LHNQKTLESLYLGS 138

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
            ++S              L  L   N  + + S     +    T L L+ N  D + I  
Sbjct: 139 NHISSIKLP--KGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEP 196

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLE-ALGNLTSINRLDLSLN--TGLTGRIPRSMALCNL 177
             F  +    L+ G       I        + S+            ++  +   +   ++
Sbjct: 197 GAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSV 256

Query: 178 KSINLQ------------------ESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVG 219
           +SINLQ                  + LD+ ++ +   L   L     L    L  N    
Sbjct: 257 ESINLQKHYFFNISSNTFHCFSGLQELDLTATHL-SELPSGLVGLSTLKKLVLSANKFEN 315

Query: 220 FIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
               S         L I  N   + L      NL  +    +  + + 
Sbjct: 316 LCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIE 363

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

 Score = 79.7 bits (197), Expect = 6e-17
 Identities = 46/269 (17%), Positives = 83/269 (30%), Gaps = 22/269 (8%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           +   L FS   +  I       L NL FLDL+   + ++           L+ L L    
Sbjct: 34  STECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDT-FQSQHRLDTLVLTANP 92

Query: 63  LS-IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
           L  +A   L   +   +L  L      +     +   N  +L  L L  N   +S  L  
Sbjct: 93  LIFMAETAL---SGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHI-SSIKLPK 148

Query: 122 VFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT-GLTGRIPRSMALCNLKSI 180
            F    L  LD   N     +  E + +L     L L+LN   + G  P +      +S+
Sbjct: 149 GFPTEKLKVLDFQNNAIH-YLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSL 207

Query: 181 NLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF---------ELHIYD 231
           N   + ++           +    ++L      +       P  F          +++  
Sbjct: 208 NFGGTQNLLVIF----KGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQK 263

Query: 232 NKLNVTLFELHFANLIEMSWFRVGGNQLT 260
           +     +    F     +    +    L+
Sbjct: 264 HYFF-NISSNTFHCFSGLQELDLTATHLS 291

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

 Score = 69.3 bits (170), Expect = 2e-13
 Identities = 38/185 (20%), Positives = 63/185 (34%), Gaps = 8/185 (4%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLW--LSGISLLEHLDL 58
           +  L+ LN S + +     Q    L  LQ L+L   +    +      L  +  LE L L
Sbjct: 424 LHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVL 483

Query: 59  RYVNLS-IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSF 117
            + +LS I          L  +  + LS+ +L   S  A  +   +  L+L+ N   +  
Sbjct: 484 SFCDLSSIDQHAF---TSLKMMNHVDLSHNRLTSSSIEALSHLKGIY-LNLASNHI-SII 538

Query: 118 ILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNL 177
           + S +  LS    ++L  N    T            N   L          P  +    L
Sbjct: 539 LPSLLPILSQQRTINLRQNPLDCTCSNIYFLEWYKENMQKLEDTEDTLCENPPLLRGVRL 598

Query: 178 KSINL 182
             + L
Sbjct: 599 SDVTL 603

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 92.2 bits (230), Expect = 6e-22
 Identities = 57/234 (24%), Positives = 95/234 (40%), Gaps = 39/234 (16%)

Query: 3   NLRYLNFSKT-RICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFL------WLSGISLLEH 55
            L +L       + G IP  +  L+ L +L ++          +      +LS I  L  
Sbjct: 77  YLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITH-------TNVSGAIPDFLSQIKTLVT 129

Query: 56  LDLRYVNL------SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSL-TMLDL 108
           LD  Y  L      SI+         L +LV +     ++    P +  +FS L T + +
Sbjct: 130 LDFSYNALSGTLPPSIS--------SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTI 181

Query: 109 SHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRI 168
           S N+     I      L+ L F+DL  N  +G   +   G+  +  ++ L+ N  L   +
Sbjct: 182 SRNRLTGK-IPPTFANLN-LAFVDLSRNMLEGDASVL-FGSDKNTQKIHLAKN-SLAFDL 237

Query: 169 PRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
            +     NL        LD+R++ IYG L   L Q + L + N+  N++ G IP
Sbjct: 238 GKVGLSKNL------NGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIP 285

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 89.5 bits (223), Expect = 7e-21
 Identities = 56/251 (22%), Positives = 98/251 (39%), Gaps = 36/251 (14%)

Query: 1   MGNLRYLNFSKTRICG--IIPQQLGNLSNLQFLDLSSKYLLYVDNFL------WLSGISL 52
              +  L+ S   +     IP  L NL  L FL +         N L       ++ ++ 
Sbjct: 49  TYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGG------INNLVGPIPPAIAKLTQ 102

Query: 53  LEHLDLRYVNLSIAF-DWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHN 111
           L +L + + N+S A  D+L    ++ +LV L  S   L    P +  +  +L  +    N
Sbjct: 103 LHYLYITHTNVSGAIPDFLS---QIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGN 159

Query: 112 QFDNSFILSWVFALSHL-PFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPR 170
           +  +  I     + S L   + +  N   G I      NL ++  +DLS N  L G    
Sbjct: 160 RI-SGAIPDSYGSFSKLFTSMTISRNRLTGKIPPT-FANL-NLAFVDLSRN-MLEGDASV 215

Query: 171 SMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFE---- 226
                + K+    + + +  +S+   L  ++G  +NL   +L NN I G +P        
Sbjct: 216 L--FGSDKNT---QKIHLAKNSLAFDLG-KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKF 269

Query: 227 ---LHIYDNKL 234
              L++  N L
Sbjct: 270 LHSLNVSFNNL 280

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 88.0 bits (219), Expect = 2e-20
 Identities = 46/227 (20%), Positives = 79/227 (34%), Gaps = 39/227 (17%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFL------WLSGISLLEHL 56
            L YL  + T + G IP  L  +  L  LD S        N L       +S +  L  +
Sbjct: 102 QLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSY-------NALSGTLPPSISSLPNLVGI 154

Query: 57  DLRYVNLS--IAFDWLMVANKLLSLVE-LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQF 113
                 +S  I   +         L   + +S  +L    P  T    +L  +DLS N  
Sbjct: 155 TFDGNRISGAIPDSYG----SFSKLFTSMTISRNRLTGKIP-PTFANLNLAFVDLSRNML 209

Query: 114 DNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA 173
           +         +  +   + L  N+    +    +G   ++N LDL  N  + G +P+ + 
Sbjct: 210 EGD-ASVLFGSDKNTQKIHLAKNSLAFDL--GKVGLSKNLNGLDLRNN-RIYGTLPQGLT 265

Query: 174 -LCNLKSINLQESLDMRSSSIYGHLTDQL---GQFRNLVTFNLVNNS 216
            L  L S+N+           + +L  ++   G  +        NN 
Sbjct: 266 QLKFLHSLNVS----------FNNLCGEIPQGGNLQRFDVSAYANNK 302

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 84.1 bits (209), Expect = 5e-19
 Identities = 45/216 (20%), Positives = 80/216 (37%), Gaps = 26/216 (12%)

Query: 16  GIIPQQLGNLSNLQFLDLSSKYL-LYVDNFLWLSGISLLEHLDLRYVNL-------SIAF 67
           G++         +  LDLS   L         L+ +  L  L +  +N        +IA 
Sbjct: 40  GVLCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIA- 98

Query: 68  DWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSH 127
                  KL  L  L +++  +    P       +L  LD S+N    + +   + +L +
Sbjct: 99  -------KLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGT-LPPSISSLPN 150

Query: 128 LPFLDLGFNNFQGTIDLEALGNLTS-INRLDLSLNTGLTGRIPRSMALCNLKSINLQESL 186
           L  +    N   G I     G+ +     + +S N  LTG+IP + A  NL        +
Sbjct: 151 LVGITFDGNRISGAIPDS-YGSFSKLFTSMTISRNR-LTGKIPPTFANLNL------AFV 202

Query: 187 DMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
           D+  + + G  +   G  +N    +L  NS+   + 
Sbjct: 203 DLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG 238

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 70.3 bits (173), Expect = 4e-14
 Identities = 42/162 (25%), Positives = 63/162 (38%), Gaps = 17/162 (10%)

Query: 84  LSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSF-ILSWVFALSHLPFLDL-GFNNFQGT 141
             N                +  LDLS       + I S +  L +L FL + G NN  G 
Sbjct: 33  CCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGP 92

Query: 142 IDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQL 201
           I    +  LT ++ L ++ +T ++G IP    L  +K   L   LD   +++ G L   +
Sbjct: 93  IPPA-IAKLTQLHYLYIT-HTNVSGAIPDF--LSQIK--TLVT-LDFSYNALSGTLPPSI 145

Query: 202 GQFRNLVTFNLVNNSIVGFIPWSF--------ELHIYDNKLN 235
               NLV      N I G IP S+         + I  N+L 
Sbjct: 146 SSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLT 187

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 67.9 bits (167), Expect = 2e-13
 Identities = 39/194 (20%), Positives = 67/194 (34%), Gaps = 43/194 (22%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSS-----------KYLLYVDNFLWLSGIS 51
            L  L+FS   + G +P  + +L NL  +                    +   + +S   
Sbjct: 126 TLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNR 185

Query: 52  L-------LEHLDLRYVNLSIAFDWLMVANKL-----------LSLVELRLSNCQLQ-HF 92
           L         +L+L +V+LS         N L            +  ++ L+   L    
Sbjct: 186 LTGKIPPTFANLNLAFVDLS--------RNMLEGDASVLFGSDKNTQKIHLAKNSLAFDL 237

Query: 93  SPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTS 152
             +      +L  LDL +N+   + +   +  L  L  L++ FNN  G I     GNL  
Sbjct: 238 GKVG--LSKNLNGLDLRNNRIYGT-LPQGLTQLKFLHSLNVSFNNLCGEIP--QGGNLQR 292

Query: 153 INRLDLSLNTGLTG 166
            +    + N  L G
Sbjct: 293 FDVSAYANNKCLCG 306

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 93.5 bits (233), Expect = 1e-21
 Identities = 62/291 (21%), Positives = 110/291 (37%), Gaps = 24/291 (8%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           N+  LN +  ++  +        S L  LD+    +  ++  L    + +L+ L+L++  
Sbjct: 26  NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPEL-CQKLPMLKVLNLQHNE 84

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           LS   D         +L EL L +  +Q       V   +L  LDLSHN   +S  L   
Sbjct: 85  LSQLSDKTF--AFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGL-SSTKLGTQ 141

Query: 123 FALSHLPFLDLGFNNFQGTIDLE-ALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
             L +L  L L  N  Q     E  +   +S+ +L+LS N  +    P       +  + 
Sbjct: 142 VQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQ-IKEFSPG--CFHAIGRL- 197

Query: 182 LQESLDMRSSSIYGHLTDQLGQF---RNLVTFNLVNNSIVGFIPWSF---------ELHI 229
               L + +  +   LT++L       ++   +L N+ +      +F          L +
Sbjct: 198 --FGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDL 255

Query: 230 YDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHS 280
             N LN  +    FA L ++ +F +  N +     H     F +  L L  
Sbjct: 256 SYNNLN-VVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKR 305

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 93.1 bits (232), Expect = 2e-21
 Identities = 46/277 (16%), Positives = 92/277 (33%), Gaps = 27/277 (9%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY-- 60
           NL  L+ S   +  +       L  L++  L    + ++ +   L G+  + +L+L+   
Sbjct: 249 NLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSH-SLHGLFNVRYLNLKRSF 307

Query: 61  VNLSIAFDWLMVAN-----KLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN 115
              SI+   L   +      L  L  L + +  +            +L  L LS++    
Sbjct: 308 TKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSL 367

Query: 116 SFILSWVFA---LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSM 172
             + +  F     S L  L+L  N        +A   L  +  LDL LN  +   +    
Sbjct: 368 RTLTNETFVSLAHSPLHILNLTKNKISKIES-DAFSWLGHLEVLDLGLN-EIGQELTGQ- 424

Query: 173 ALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSI--VGFIPWSF----- 225
               L++I     + +  +       +      +L    L   ++  V   P  F     
Sbjct: 425 EWRGLENI---FEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRN 481

Query: 226 --ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
              L + +N +   + +     L ++    +  N L 
Sbjct: 482 LTILDLSNNNIA-NINDDMLEGLEKLEILDLQHNNLA 517

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 92.8 bits (231), Expect = 3e-21
 Identities = 61/262 (23%), Positives = 93/262 (35%), Gaps = 21/262 (8%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           +  L+ LN     +  +  +     +NL  L L S  +  + N         L  LDL +
Sbjct: 72  LPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNP-FVKQKNLITLDLSH 130

Query: 61  VNLS-IAFDWLMVANKLLSLVELRLSNCQLQHFSP--LATVNFSSLTMLDLSHNQFDNSF 117
             LS           +L +L EL LSN ++Q      L     SSL  L+LS NQ    F
Sbjct: 131 NGLSSTKLGTQ---VQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQI-KEF 186

Query: 118 ILSWVFALSHLPFLDLGFNNFQGTI--DLEALGNLTSINRLDLSLNTGLTGRIPRSMALC 175
                 A+  L  L L       ++   L      TSI  L LS N+ L+     +    
Sbjct: 187 SPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLS-NSQLSTTSNTT--FL 243

Query: 176 NLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELH 228
            LK  NL   LD+  +++     D       L  F L  N+I      S         L+
Sbjct: 244 GLKWTNLTM-LDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLN 302

Query: 229 IYDNKLNVTLFELHFANLIEMS 250
           +  +    ++       + + S
Sbjct: 303 LKRSFTKQSISLASLPKIDDFS 324

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 91.2 bits (227), Expect = 8e-21
 Identities = 60/274 (21%), Positives = 96/274 (35%), Gaps = 19/274 (6%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           NL  L+     I  I         NL  LDLS   L           +  L+ L L    
Sbjct: 98  NLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKL-GTQVQLENLQELLLSNNK 156

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS--FILS 120
           +       +      SL +L LS+ Q++ FSP        L  L L++ Q   S    L 
Sbjct: 157 IQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLC 216

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNL--TSINRLDLSLNTGLTGRIPRSMALC-NL 177
              A + +  L L  +    T +      L  T++  LDLS N  L      S A    L
Sbjct: 217 LELANTSIRNLSLSNSQLSTTSN-TTFLGLKWTNLTMLDLSYN-NLNVVGNDSFAWLPQL 274

Query: 178 KSINLQE-SLDMRSSSIYGHLTD--QLGQFRNLVTFNLVNNSIVGFIPWSF-------EL 227
           +   L+  ++    S     L +   L   R+    ++   S+     +SF        L
Sbjct: 275 EYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHL 334

Query: 228 HIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL 261
           ++ DN +   +    F  LI + +  +  +  +L
Sbjct: 335 NMEDNDIP-GIKSNMFTGLINLKYLSLSNSFTSL 367

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 86.2 bits (214), Expect = 4e-19
 Identities = 58/250 (23%), Positives = 94/250 (37%), Gaps = 17/250 (6%)

Query: 1   MGNLRYLNFSKTRICGIIPQQ-LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLR 59
           +G+L  L+     I   +  Q    L N+  + LS    L +      + +  L+ L LR
Sbjct: 404 LGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTR-NSFALVPSLQRLMLR 462

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQF------ 113
            V L            L +L  L LSN  + + +         L +LDL HN        
Sbjct: 463 RVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKH 522

Query: 114 -DNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSM 172
            +    + ++  LSHL  L+L  N F   I +E   +L  +  +DL LN  L        
Sbjct: 523 ANPGGPIYFLKGLSHLHILNLESNGFDE-IPVEVFKDLFELKIIDLGLN-NLNTLPAS-- 578

Query: 173 ALCNLKSINLQESLDMRSSSIYGHLTDQLG-QFRNLVTFNLVNNSIVGFIPWSFELHIYD 231
              N  S+   +SL+++ + I        G  FRNL   ++  N              + 
Sbjct: 579 VFNNQVSL---KSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWI 635

Query: 232 NKLNVTLFEL 241
           N+ +  + EL
Sbjct: 636 NETHTNIPEL 645

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 79.3 bits (196), Expect = 8e-17
 Identities = 54/302 (17%), Positives = 95/302 (31%), Gaps = 33/302 (10%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           +    + S  ++  + P  L   +N+  L+L+   L  +      +  S L  LD+ +  
Sbjct: 5   SHEVADCSHLKLTQV-PDDL--PTNITVLNLTHNQLRRLPAAN-FTRYSQLTSLDVGFNT 60

Query: 63  LSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFI 118
           +S              KL  L  L L + +L   S       ++LT L L  N       
Sbjct: 61  ISKLEPELC------QKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSI-QKIK 113

Query: 119 LSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLK 178
            +      +L  LDL  N       L     L ++  L LS N  +       + +    
Sbjct: 114 NNPFVKQKNLITLDLSHNGLSS-TKLGTQVQLENLQELLLSNN-KIQALKSEELDIFANS 171

Query: 179 SINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF----------ELH 228
           S+   + L++ S+ I             L    L N  +   +               L 
Sbjct: 172 SL---KKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLS 228

Query: 229 IYDNKLNVTLFELHFANLIEMS--WFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSR 286
           + +++L+ T     F  L   +     +  N L +     +    QL    L    I   
Sbjct: 229 LSNSQLS-TTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHL 287

Query: 287 FP 288
           F 
Sbjct: 288 FS 289

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 88.2 bits (219), Expect = 8e-20
 Identities = 48/247 (19%), Positives = 87/247 (35%), Gaps = 16/247 (6%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + +L  L  +   I  +       LS+LQ L      L  ++NF  +  +  L+ L++ +
Sbjct: 75  LSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP-IGHLKTLKELNVAH 133

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTM----LDLSHNQFDNS 116
             +         +N L +L  L LS+ ++Q            + +    LDLS N    +
Sbjct: 134 NLIQSFKLPEYFSN-LTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPM--N 190

Query: 117 FILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR---IPRSMA 173
           FI    F    L  L L  N     +    +  L  +    L L               A
Sbjct: 191 FIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSA 250

Query: 174 LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELH 228
           L  L ++ ++E            + D      N+ +F+LV+ +I     +S+      L 
Sbjct: 251 LEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLE 310

Query: 229 IYDNKLN 235
           + + K  
Sbjct: 311 LVNCKFG 317

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 84.7 bits (210), Expect = 1e-18
 Identities = 51/222 (22%), Positives = 95/222 (42%), Gaps = 13/222 (5%)

Query: 1   MGNLRYLNFSKTRI--CGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDL 58
           + +L +L+ S+  +   G   Q     ++L++LDLS   ++ + +     G+  LEHLD 
Sbjct: 346 LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSS--NFLGLEQLEHLDF 403

Query: 59  RYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFI 118
           ++ NL    ++ +  + L +L+ L +S+   +          SSL +L ++ N F  +F+
Sbjct: 404 QHSNLKQMSEFSVFLS-LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFL 462

Query: 119 LSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLK 178
                 L +L FLDL     +  +   A  +L+S+  L++S N               L 
Sbjct: 463 PDIFTELRNLTFLDLSQCQLEQ-LSPTAFNSLSSLQVLNMSHN-NFFSLDTFP--YKCLN 518

Query: 179 SINLQESLDMRSSSIYGHLTDQLGQ-FRNLVTFNLVNNSIVG 219
           S+   + LD   + I      +L     +L   NL  N    
Sbjct: 519 SL---QVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFAC 557

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 83.2 bits (206), Expect = 4e-18
 Identities = 58/272 (21%), Positives = 102/272 (37%), Gaps = 19/272 (6%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           + + L+ S   +  +      +   LQ LDLS   +  +++      +S L  L L    
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGA-YQSLSHLSTLILTGNP 87

Query: 63  LS-IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
           +  +A       + L SL +L      L         +  +L  L+++HN   +  +  +
Sbjct: 88  IQSLALGAF---SGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY 144

Query: 122 VFALSHLPFLDLGFNNFQGTI--DLEALGNLTSIN-RLDLSLNTGLTGRIPRSMALCNLK 178
              L++L  LDL  N  Q     DL  L  +  +N  LDLSLN  +    P +     L 
Sbjct: 145 FSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNP-MNFIQPGAFKEIRLH 203

Query: 179 SINLQE---SLDMRSSSIYGH-----LTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIY 230
            + L+    SL++  + I G          LG+FRN       + S +  +         
Sbjct: 204 KLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFR 263

Query: 231 DNKLNVTLFEL--HFANLIEMSWFRVGGNQLT 260
              L+  L ++   F  L  +S F +    + 
Sbjct: 264 LAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIE 295

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 78.9 bits (195), Expect = 1e-16
 Identities = 41/183 (22%), Positives = 64/183 (34%), Gaps = 4/183 (2%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + NL YL+ S T            LS+L+ L ++             + +  L  LDL  
Sbjct: 420 LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ 479

Query: 61  VNLS-IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
             L  ++       N L SL  L +S+              +SL +LD S N    S   
Sbjct: 480 CQLEQLSPTAF---NSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQ 536

Query: 120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
                 S L FL+L  N+F  T + ++        R  L     +    P       + S
Sbjct: 537 ELQHFPSSLAFLNLTQNDFACTCEHQSFLQWIKDQRQLLVEVERMECATPSDKQGMPVLS 596

Query: 180 INL 182
           +N+
Sbjct: 597 LNI 599

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 74.7 bits (184), Expect = 3e-15
 Identities = 55/298 (18%), Positives = 95/298 (31%), Gaps = 55/298 (18%)

Query: 1   MGNLRYLNFSKTRICGI------IPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLE 54
           +  L  L   + R+  +      I      L+N+    L S  +  V +F +  G   LE
Sbjct: 251 LEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLE 310

Query: 55  HLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD 114
            ++ ++              KL SL  L  ++   +  +  + V+  SL  LDLS N   
Sbjct: 311 LVNCKFGQFP--------TLKLKSLKRLTFTS--NKGGNAFSEVDLPSLEFLDLSRNGLS 360

Query: 115 NSFILSWVFA------------------------LSHLPFLDLGFNNFQGTIDLEALGNL 150
                S                            L  L  LD   +N +   +     +L
Sbjct: 361 FKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSL 420

Query: 151 TSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHL-TDQLGQFRNLVT 209
            ++  LD+S +T              L S+   E L M  +S   +   D   + RNL  
Sbjct: 421 RNLIYLDIS-HTHTRVAFNG--IFNGLSSL---EVLKMAGNSFQENFLPDIFTELRNLTF 474

Query: 210 FNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
            +L    +    P +F        L++  N    +L    +  L  +       N + 
Sbjct: 475 LDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF-SLDTFPYKCLNSLQVLDYSLNHIM 531

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 69.7 bits (171), Expect = 1e-13
 Identities = 50/252 (19%), Positives = 83/252 (32%), Gaps = 40/252 (15%)

Query: 18  IPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLS-IAFDWLMVANKL 76
           IP  L    + + LDLS   L ++ ++        L+ LDL    +  I          L
Sbjct: 22  IPDNL--PFSTKNLDLSFNPLRHLGSYS-FFSFPELQVLDLSRCEIQTIEDGAY---QSL 75

Query: 77  LSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFN 136
             L  L L+   +Q  +  A    SSL  L         S     +  L  L  L++  N
Sbjct: 76  SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNL-ASLENFPIGHLKTLKELNVAHN 134

Query: 137 NFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGH 196
             Q     E   NLT++  LDLS N  +         L  L  + L              
Sbjct: 135 LIQSFKLPEYFSNLTNLEHLDLSSN-KIQSIYCTD--LRVLHQMPLL------------- 178

Query: 197 LTDQLGQFRNLVTFNLVNNSIVGFIPWSF------ELHIYDNKLNVTLFELHFANLIEMS 250
                      ++ +L  N +    P +F      +L + +N  ++ + +     L  + 
Sbjct: 179 ----------NLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLE 228

Query: 251 WFRVGGNQLTLE 262
             R+   +   E
Sbjct: 229 VHRLVLGEFRNE 240

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 52.3 bits (126), Expect = 7e-08
 Identities = 38/202 (18%), Positives = 69/202 (34%), Gaps = 24/202 (11%)

Query: 100 FSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL 158
             S   LDLS N      + S+ F     L  LDL     Q   D  A  +L+ ++ L L
Sbjct: 27  PFSTKNLDLSFNPL--RHLGSYSFFSFPELQVLDLSRCEIQTIED-GAYQSLSHLSTLIL 83

Query: 159 SLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV 218
           + N  +        A   L S+   + L    +++       +G  + L   N+ +N I 
Sbjct: 84  TGN-PIQSLALG--AFSGLSSL---QKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 137

Query: 219 GFIPWSF--------ELHIYDNKLNVTLFELHFANLIEMSWFRV----GGNQLTLEVKHD 266
            F    +         L +  NK+  +++      L +M    +      N +   ++  
Sbjct: 138 SFKLPEYFSNLTNLEHLDLSSNKIQ-SIYCTDLRVLHQMPLLNLSLDLSLNPMN-FIQPG 195

Query: 267 WIPHFQLVALGLHSCYIGSRFP 288
                +L  L L + +      
Sbjct: 196 AFKEIRLHKLTLRNNFDSLNVM 217

>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} Length = 477

 Score = 84.0 bits (208), Expect = 2e-18
 Identities = 56/269 (20%), Positives = 94/269 (34%), Gaps = 23/269 (8%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
             +L  L  ++  +  + P    NL NL+ L L S  L  +   +  +G+S L  LD+  
Sbjct: 55  FPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGV-FTGLSNLTKLDISE 113

Query: 61  VNLS-IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
             +  +          L +L  L + +  L + S  A    +SL  L L       + I 
Sbjct: 114 NKIVILLDYMF---QDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNL--TSIP 168

Query: 120 SWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLK 178
           +   + L  L  L L   N    I   +   L  +  L++S    L    P  +   NL 
Sbjct: 169 TEALSHLHGLIVLRLRHLNIN-AIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLT 227

Query: 179 SINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYD 231
           S+++        +++       +     L   NL  N I               E+ +  
Sbjct: 228 SLSIT---HCNLTAVP---YLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVG 281

Query: 232 NKLNVTLFELHFANLIEMSWFRVGGNQLT 260
            +L   +    F  L  +    V GNQLT
Sbjct: 282 GQLA-VVEPYAFRGLNYLRVLNVSGNQLT 309

>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} Length = 477

 Score = 77.4 bits (191), Expect = 3e-16
 Identities = 62/271 (22%), Positives = 108/271 (39%), Gaps = 29/271 (10%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + NLR L     R+  I       LSNL  LD+S   ++ + +++    +  L+ L++  
Sbjct: 79  LFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYM-FQDLYNLKSLEVGD 137

Query: 61  VNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS 116
            +L      AF        L SL +L L  C L      A  +   L +L L H     +
Sbjct: 138 NDLVYISHRAFS------GLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNI--N 189

Query: 117 FILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALC 175
            I  + F  L  L  L++    +  T+    L  L ++  L ++ +  LT  +P   A+ 
Sbjct: 190 AIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGL-NLTSLSIT-HCNLT-AVPYL-AVR 245

Query: 176 NLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFE-------LH 228
           +L    L+  L++  + I       L +   L    LV   +    P++F        L+
Sbjct: 246 HLV--YLRF-LNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLN 302

Query: 229 IYDNKLNVTLFELHFANLIEMSWFRVGGNQL 259
           +  N+L  TL E  F ++  +    +  N L
Sbjct: 303 VSGNQLT-TLEESVFHSVGNLETLILDSNPL 332

>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} Length = 477

 Score = 74.4 bits (183), Expect = 3e-15
 Identities = 54/266 (20%), Positives = 100/266 (37%), Gaps = 45/266 (16%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
             R L+  K RI  +   +  +  +L+ L+L+             + +S +E        
Sbjct: 33  ETRLLDLGKNRIKTLNQDEFASFPHLEELELNE------------NIVSAVE-------- 72

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
              AF+       L +L  L L + +L+          S+LT LD+S N+     +L ++
Sbjct: 73  -PGAFN------NLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKI--VILLDYM 123

Query: 123 FA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
           F  L +L  L++G N+    I   A   L S+ +L L     LT  IP   AL +L  + 
Sbjct: 124 FQDLYNLKSLEVGDNDLV-YISHRAFSGLNSLEQLTLEKCN-LT-SIPTE-ALSHLHGL- 178

Query: 182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKL 234
               L +R  +I         +   L    + +   +  +  +         L I    L
Sbjct: 179 --IVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNL 236

Query: 235 NVTLFELHFANLIEMSWFRVGGNQLT 260
              +  L   +L+ + +  +  N ++
Sbjct: 237 -TAVPYLAVRHLVYLRFLNLSYNPIS 261

>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} Length = 477

 Score = 43.9 bits (104), Expect = 3e-05
 Identities = 34/169 (20%), Positives = 61/169 (36%), Gaps = 18/169 (10%)

Query: 100 FSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL 158
            +   +LDL  N+     +    FA   HL  L+L  N     ++  A  NL ++  L L
Sbjct: 31  PTETRLLDLGKNRI--KTLNQDEFASFPHLEELELNENIVS-AVEPGAFNNLFNLRTLGL 87

Query: 159 SLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV 218
             N  L   IP       L ++     LD+  + I   L        NL +  + +N +V
Sbjct: 88  RSN-RLK-LIPLG-VFTGLSNL---TKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLV 141

Query: 219 GFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
                +F       +L +    L  ++     ++L  +   R+    + 
Sbjct: 142 YISHRAFSGLNSLEQLTLEKCNLT-SIPTEALSHLHGLIVLRLRHLNIN 189

>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} Length = 347

 Score = 80.3 bits (199), Expect = 1e-17
 Identities = 53/263 (20%), Positives = 105/263 (39%), Gaps = 34/263 (12%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           ++  L  +  ++  I    +  L+NL++L+L+   +  +     L     L +L +    
Sbjct: 45  SITKLVVAGEKVASIQG--IEYLTNLEYLNLNGNQITDISPLSNLVK---LTNLYIGTNK 99

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           ++     +     L +L EL L+   +   SPLA  N + +  L+L  N   N   LS +
Sbjct: 100 ITD----ISALQNLTNLRELYLNEDNISDISPLA--NLTKMYSLNLGANH--NLSDLSPL 151

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
             ++ L +L +  +  +   D+  + NLT +  L L+ N     +I     L +L S+  
Sbjct: 152 SNMTGLNYLTVTESKVK---DVTPIANLTDLYSLSLNYN-----QIEDISPLASLTSL-- 201

Query: 183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLNVT 237
                   + I       +     L +  + NN I    P +       L I  N+++  
Sbjct: 202 -HYFTAYVNQITD--ITPVANMTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQIS-D 257

Query: 238 LFELHFANLIEMSWFRVGGNQLT 260
           +      +L ++    VG NQ++
Sbjct: 258 INA--VKDLTKLKMLNVGSNQIS 278

>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} Length = 347

 Score = 73.3 bits (181), Expect = 5e-15
 Identities = 48/241 (19%), Positives = 90/241 (37%), Gaps = 33/241 (13%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           +  +  LN         +   L N++ L +L ++   +  V      + ++ L  L L Y
Sbjct: 131 LTKMYSLNLGANHNLSDLSP-LSNMTGLNYLTVTESKVKDVTPI---ANLTDLYSLSLNY 186

Query: 61  VNLS--IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFI 118
             +              L SL        Q+   +P+A  N + L  L + +N+  +   
Sbjct: 187 NQIEDISPLA------SLTSLHYFTAYVNQITDITPVA--NMTRLNSLKIGNNKITDLSP 238

Query: 119 LSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLK 178
           L+    LS L +L++G N      D+ A+ +LT +  L++  N     +I     L NL 
Sbjct: 239 LA---NLSQLTWLEIGTNQIS---DINAVKDLTKLKMLNVGSN-----QISDISVLNNLS 287

Query: 179 SINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWS-----FELHIYDNK 233
            +    SL + ++ +     + +G   NL T  L  N I    P +           +  
Sbjct: 288 QL---NSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHITDIRPLASLSKMDSADFANQV 344

Query: 234 L 234
           +
Sbjct: 345 I 345

>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} Length = 347

 Score = 68.0 bits (167), Expect = 3e-13
 Identities = 52/259 (20%), Positives = 94/259 (36%), Gaps = 34/259 (13%)

Query: 7   LNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIA 66
           L      I  I P    +L+      L    +  V     L     +  L +    ++  
Sbjct: 5   LATLPAPINQIFP--DADLAEGIRAVLQKASVTDVVTQEELES---ITKLVVAGEKVAS- 58

Query: 67  FDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALS 126
              +     L +L  L L+  Q+   SPL+  N   LT L +  N+  +   +S +  L+
Sbjct: 59  ---IQGIEYLTNLEYLNLNGNQITDISPLS--NLVKLTNLYIGTNKITD---ISALQNLT 110

Query: 127 HLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESL 186
           +L  L L  +N     D+  L NLT +  L+L  N      +     L N+  +     L
Sbjct: 111 NLRELYLNEDNIS---DISPLANLTKMYSLNLGANH-NLSDLS---PLSNMTGL---NYL 160

Query: 187 DMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLNVTLFEL 241
            +  S +       +    +L + +L  N I    P +          Y N++       
Sbjct: 161 TVTESKVKD--VTPIANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITDITP-- 216

Query: 242 HFANLIEMSWFRVGGNQLT 260
             AN+  ++  ++G N++T
Sbjct: 217 -VANMTRLNSLKIGNNKIT 234

>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} Length = 347

 Score = 49.1 bits (118), Expect = 6e-07
 Identities = 29/187 (15%), Positives = 61/187 (32%), Gaps = 25/187 (13%)

Query: 79  LVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNF 138
              L      +    P A  + +      L      +         L  +  L +     
Sbjct: 2   AATLATLPAPINQIFPDA--DLAEGIRAVLQKASVTDVVTQEE---LESITKLVVAGEKV 56

Query: 139 QGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLT 198
                ++ +  LT++  L+L+ N     +I     L NL  +    +L + ++ I     
Sbjct: 57  A---SIQGIEYLTNLEYLNLNGN-----QITDISPLSNLVKL---TNLYIGTNKI--TDI 103

Query: 199 DQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLNVTLFELHFANLIEMSWFR 253
             L    NL    L  ++I    P +       L++  N     L  L  +N+  +++  
Sbjct: 104 SALQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPL--SNMTGLNYLT 161

Query: 254 VGGNQLT 260
           V  +++ 
Sbjct: 162 VTESKVK 168

>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 = 79.7 bits (197), Expect = 6e-17
 Identities = 48/305 (15%), Positives = 94/305 (30%), Gaps = 55/305 (18%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNF--------LWLSGISL-- 52
            +     + T        +   L+N+  + L+   + Y+++         L +    L  
Sbjct: 262 TIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQ 321

Query: 53  --------LEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNF--SS 102
                   L+ L L     SI+F  +     L SL  L LS   L      +  +   +S
Sbjct: 322 FPTLDLPFLKSLTLTMNKGSISFKKV----ALPSLSYLDLSRNALSFSGCCSYSDLGTNS 377

Query: 103 LTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT 162
           L  LDLS N      + +    L  L  LD   +  +   +  A  +L  +  LD+S   
Sbjct: 378 LRHLDLSFNGA--IIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYT- 434

Query: 163 GLTGRIPRSMA-LCNLKSINLQ-------------------ESLDMRSSSIYGHLTDQLG 202
                       L +L ++ +                      LD+    +         
Sbjct: 435 NTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFD 494

Query: 203 QFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVG 255
               L   N+ +N+++      +        L    N++  T   +       +++F + 
Sbjct: 495 TLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRIE-TSKGILQHFPKSLAFFNLT 553

Query: 256 GNQLT 260
            N + 
Sbjct: 554 NNSVA 558

>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 = 79.3 bits (196), Expect = 8e-17
 Identities = 47/273 (17%), Positives = 90/273 (32%), Gaps = 21/273 (7%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + +L  L  +   I    P     L++L+ L      L  +++F  +  +  L+ L++ +
Sbjct: 79  LHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFP-IGQLITLKKLNVAH 137

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTM----LDLSHNQFDNS 116
             +  +       + L +LV + LS   +Q  +                LD+S N     
Sbjct: 138 NFIH-SCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPI--D 194

Query: 117 FILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR---IPRSMA 173
           FI    F    L  L L  N     I    L NL  ++   L L      R   I     
Sbjct: 195 FIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSI 254

Query: 174 LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELH 228
           +  L  + + E   +  ++ +     +     N+   +L   SI              L 
Sbjct: 255 MEGLCDVTIDE-FRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLS 313

Query: 229 IYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL 261
           I   +L     +    +L  +    +  N+ ++
Sbjct: 314 IIRCQLK----QFPTLDLPFLKSLTLTMNKGSI 342

>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 = 78.9 bits (195), Expect = 9e-17
 Identities = 38/273 (13%), Positives = 93/273 (34%), Gaps = 25/273 (9%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + +L  L   +T++  +    +G L  L+ L+++  ++       + S ++ L H+DL Y
Sbjct: 103 LTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSY 162

Query: 61  VNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS 116
             +         +L         + L +S   +      A      L  L L  N   ++
Sbjct: 163 NYIQTITVNDLQFL--RENPQVNLSLDMSLNPIDFIQDQAFQGI-KLHELTLRGNFNSSN 219

Query: 117 FILSWVFALSHLPFLDLGFNNFQG-----TIDLEALGNLTSINRLDLSLNTGLTGRIPRS 171
            + + +  L+ L    L    F+        +   +  L  +   +  L           
Sbjct: 220 IMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLT-YTNDFSDDI 278

Query: 172 MALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF----EL 227
           +    L ++    ++ +   SI     + + +     + +++   +  F          L
Sbjct: 279 VKFHCLANV---SAMSLAGVSI--KYLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSL 333

Query: 228 HIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
            +  NK +++        L  +S+  +  N L+
Sbjct: 334 TLTMNKGSIS---FKKVALPSLSYLDLSRNALS 363

>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 = 76.2 bits (188), Expect = 9e-16
 Identities = 52/296 (17%), Positives = 109/296 (36%), Gaps = 20/296 (6%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           + + ++ S   +  +      N S LQ+LDLS   +  +++     G+  L +L L    
Sbjct: 33  STKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKA-WHGLHHLSNLILTGNP 91

Query: 63  LS-IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
           +   +       + L SL  L     +L            +L  L+++HN   +  + ++
Sbjct: 92  IQSFSPGSF---SGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAY 148

Query: 122 VFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN---TGLTGRIPRSMALCNLK 178
              L++L  +DL +N  Q  I +  L  L    +++LSL+     +     ++     L 
Sbjct: 149 FSNLTNLVHVDLSYNYIQT-ITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLH 207

Query: 179 SINL---QESLDMRSSSIYG-----HLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIY 230
            + L     S ++  + +            LG+F++     +   SI+  +         
Sbjct: 208 ELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFR 267

Query: 231 DNKLN-VTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS 285
               N  +   + F  L  +S   + G  +      D   HF+  +L +  C +  
Sbjct: 268 LTYTNDFSDDIVKFHCLANVSAMSLAGVSIK--YLEDVPKHFKWQSLSIIRCQLKQ 321

>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 = 76.2 bits (188), Expect = 1e-15
 Identities = 49/245 (20%), Positives = 87/245 (35%), Gaps = 23/245 (9%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYV-DNFLWLSGISLLEHLDLR 59
           +  L+ L  +  +    I  +   L +L +LDLS   L +         G + L HLDL 
Sbjct: 327 LPFLKSLTLTMNKG--SISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLS 384

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLAT-VNFSSLTMLDLSHNQFDNSFI 118
           +    I     M    L  L  L   +  L+  +  +  ++   L  LD+S+        
Sbjct: 385 FNGAIIMSANFM---GLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKI--D 439

Query: 119 LSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNL 177
              +F  L+ L  L +  N+F+         N T++  LDLS    L   I        L
Sbjct: 440 FDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKC-QLEQ-ISWG-VFDTL 496

Query: 178 KSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIY 230
             +   + L+M  +++    +    Q  +L T +   N I                 ++ 
Sbjct: 497 HRL---QLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNLT 553

Query: 231 DNKLN 235
           +N + 
Sbjct: 554 NNSVA 558

>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 = 70.4 bits (173), Expect = 7e-14
 Identities = 30/159 (18%), Positives = 49/159 (30%), Gaps = 3/159 (1%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           +  L YL+ S T            L++L  L ++             +  + L  LDL  
Sbjct: 423 LEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSK 482

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
             L     W +    L  L  L +S+  L            SL+ LD S N+   +    
Sbjct: 483 CQLE-QISWGVFDT-LHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRI-ETSKGI 539

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLS 159
                  L F +L  N+     + +         +  L 
Sbjct: 540 LQHFPKSLAFFNLTNNSVACICEHQKFLQWVKEQKQFLV 578

>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 = 56.6 bits (137), Expect = 2e-09
 Identities = 38/290 (13%), Positives = 85/290 (29%), Gaps = 26/290 (8%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
               L+ S   I  I  Q    +  L  L L   +         L  ++ L    L    
Sbjct: 182 VNLSLDMSLNPIDFIQDQAFQGI-KLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGE 240

Query: 63  LSIAFDWLMVANKL------LSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS 116
                +  +    +      +++ E RL+         +     ++++ + L+       
Sbjct: 241 FKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYL 300

Query: 117 FILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCN 176
             +   F    L  +      F          +L  +  L L++N G      + +AL +
Sbjct: 301 EDVPKHFKWQSLSIIRCQLKQFPT-------LDLPFLKSLTLTMNKGSI--SFKKVALPS 351

Query: 177 LKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF------ELHIY 230
           L  ++L  +    + S  G  +       +L   +L  N  +              L   
Sbjct: 352 LSYLDLSRN----ALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQ 407

Query: 231 DNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHS 280
            + L        F +L ++ +  +      ++    ++    L  L +  
Sbjct: 408 HSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAG 457

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 78.3 bits (193), Expect = 2e-16
 Identities = 51/269 (18%), Positives = 96/269 (35%), Gaps = 25/269 (9%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + +L+ LN +  +I  I  +    L NLQ L+LS   L  + +     G+  + ++DL+ 
Sbjct: 289 LKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSS-NFYGLPKVAYIDLQK 347

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHF---SPLATVNFS------------SLTM 105
            +++I  D       L  L  L L +  L        +  +  S            +  +
Sbjct: 348 NHIAIIQDQTF--KFLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANL 405

Query: 106 LDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLT 165
           + LS N+ +N  IL ++  + HL  L L  N F      +      S+ +L L  N  L 
Sbjct: 406 IHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGEN-MLQ 464

Query: 166 GRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF 225
                 +     + ++  + L +  + +             L   +L +N +        
Sbjct: 465 LAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDL 524

Query: 226 -----ELHIYDNKLNVTLFELHFANLIEM 249
                 L I  N+L        F +L  +
Sbjct: 525 PANLEILDISRNQLL-APNPDVFVSLSVL 552

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 76.0 bits (187), Expect = 1e-15
 Identities = 42/240 (17%), Positives = 74/240 (30%), Gaps = 11/240 (4%)

Query: 24  NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELR 83
            L+  + L LS  Y+  V        +  L+ L+L      +  D     N L +L  L 
Sbjct: 22  VLNTTERLLLSFNYIRTVTASS-FPFLEQLQLLELGSQYTPLTIDKEAFRN-LPNLRILD 79

Query: 84  LSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTI 142
           L + ++    P A      L  L L      ++ +    F  L  L  LDL  N  +   
Sbjct: 80  LGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLY 139

Query: 143 DLEALGNLTSINRLDLSLN--TGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQ 200
              + G L S+  +D S N    +       +    L   +L  +      S+       
Sbjct: 140 LHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMN 199

Query: 201 LGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
             +   L   ++  N     I  +F   I  ++               +     G + + 
Sbjct: 200 PFRNMVLEILDVSGNGWTVDITGNFSNAISKSQA------FSLILAHHIMGAGFGFHNIK 253

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 71.4 bits (175), Expect = 5e-14
 Identities = 51/283 (18%), Positives = 96/283 (33%), Gaps = 26/283 (9%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVD-NFLWLSGISLLEHLDLR 59
           + NLR L+   ++I  + P     L +L  L L    L        +   +  L  LDL 
Sbjct: 72  LPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLS 131

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSP--LATVNFSSLTMLDLSHNQFDNSF 117
              +   +        L SL  +  S+ Q+       L  +   +L+   L+ N   +  
Sbjct: 132 KNQIRSLYLHPSFGK-LNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRV 190

Query: 118 ILSW-----VFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTG------ 166
            + W      F    L  LD+  N +   I       ++      L L   + G      
Sbjct: 191 SVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFH 250

Query: 167 --RIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWS 224
             + P       L   +++  LD+    ++   +      ++L   NL  N I      +
Sbjct: 251 NIKDPDQNTFAGLARSSVRH-LDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEA 309

Query: 225 F-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
           F        L++  N L   L+  +F  L ++++  +  N + 
Sbjct: 310 FYGLDNLQVLNLSYNLLG-ELYSSNFYGLPKVAYIDLQKNHIA 351

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 65.2 bits (159), Expect = 5e-12
 Identities = 48/326 (14%), Positives = 101/326 (30%), Gaps = 49/326 (15%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSN------LQFLDLSSKYL-----------LYVDN 43
              L + + +   +   +    G   N      L+ LD+S               +    
Sbjct: 173 GKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQ 232

Query: 44  FLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSL 103
              L     +      + N+              S+  L LS+  +   +         L
Sbjct: 233 AFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDL 292

Query: 104 TMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN- 161
            +L+L++N+   + I    F  L +L  L+L +N     +       L  +  +DL  N 
Sbjct: 293 KVLNLAYNKI--NKIADEAFYGLDNLQVLNLSYNLLG-ELYSSNFYGLPKVAYIDLQKNH 349

Query: 162 -TGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTF---------- 210
              +  +  +   L  L++++L+++  + +      + D       LVT           
Sbjct: 350 IAIIQDQTFKF--LEKLQTLDLRDNA-LTTIHFIPSIPDIFLSGNKLVTLPKINLTANLI 406

Query: 211 NLVNNSIVGFIPWSF--------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLE 262
           +L  N +       F         L +  N+ +    +   +    +    +G N L L 
Sbjct: 407 HLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLA 466

Query: 263 VKHDWIPHF-----QLVALGLHSCYI 283
            + +           L  L L+  Y+
Sbjct: 467 WETELCWDVFEGLSHLQVLYLNHNYL 492

>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 Length = 466

 Score = 76.5 bits (189), Expect = 5e-16
 Identities = 67/263 (25%), Positives = 111/263 (42%), Gaps = 36/263 (13%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           NL  L  S   I  I    L  L++LQ L   ++    V +   L+ ++ LE LD+    
Sbjct: 135 NLNRLELSSNTISDISA--LSGLTSLQQLSFGNQ----VTDLKPLANLTTLERLDISSNK 188

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           +S     + V  KL +L  L  +N Q+   +PL     ++L  L L+ NQ  +   +  +
Sbjct: 189 VSD----ISVLAKLTNLESLIATNNQISDITPLG--ILTNLDELSLNGNQLKD---IGTL 239

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
            +L++L  LDL  N      +L  L  LT +  L L  N     +I     L  L ++  
Sbjct: 240 ASLTNLTDLDLANNQIS---NLAPLSGLTKLTELKLGAN-----QISNISPLAGLTAL-- 289

Query: 183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLNVT 237
             +L++  + +       +   +NL    L  N+I    P S       L  Y+NK++  
Sbjct: 290 -TNLELNENQLED--ISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDV 346

Query: 238 LFELHFANLIEMSWFRVGGNQLT 260
                 ANL  ++W   G NQ++
Sbjct: 347 ---SSLANLTNINWLSAGHNQIS 366

>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 Length = 466

 Score = 73.5 bits (181), Expect = 6e-15
 Identities = 61/279 (21%), Positives = 109/279 (39%), Gaps = 42/279 (15%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNF--------LWLS---- 48
           +  L  +  +  +I  I P  L NL+NL  L L +  +  +D          L LS    
Sbjct: 89  LTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTI 146

Query: 49  -GISLLEHLD-LRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTML 106
             IS L  L  L+ ++       L     L +L  L +S+ ++   S LA    ++L  L
Sbjct: 147 SDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLA--KLTNLESL 204

Query: 107 DLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTG 166
             ++NQ  +   ++ +  L++L  L L  N  +   D+  L +LT++  LDL+ N     
Sbjct: 205 IATNNQISD---ITPLGILTNLDELSLNGNQLK---DIGTLASLTNLTDLDLANN----- 253

Query: 167 RIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF- 225
           +I     L  L  +     L + ++ I       L     L    L  N +    P S  
Sbjct: 254 QISNLAPLSGLTKL---TELKLGANQISN--ISPLAGLTALTNLELNENQLEDISPISNL 308

Query: 226 ----ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
                L +Y N ++        ++L ++       N+++
Sbjct: 309 KNLTYLTLYFNNISDI---SPVSSLTKLQRLFFYNNKVS 344

>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 Length = 466

 Score = 66.1 bits (162), Expect = 2e-12
 Identities = 43/225 (19%), Positives = 86/225 (38%), Gaps = 25/225 (11%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           NL  L+ +  +I  + P  L  L+ L  L L +  +  +     L+G++ L +L+L    
Sbjct: 244 NLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISP---LAGLTALTNLELNENQ 298

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           L      +   + L +L  L L    +   SP++  + + L  L   +N+  +   +S +
Sbjct: 299 LED----ISPISNLKNLTYLTLYFNNISDISPVS--SLTKLQRLFFYNNKVSD---VSSL 349

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
             L+++ +L  G N      DL  L NLT I +L L+     T       A  ++ +   
Sbjct: 350 ANLTNINWLSAGHNQIS---DLTPLANLTRITQLGLNDQA-WTNAPVNYKANVSIPNTVK 405

Query: 183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFEL 227
             +  + + +             +    ++  N        S+  
Sbjct: 406 NVTGALIAPATISDGG-------SYTEPDITWNLPSYTNEVSYTF 443

>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 Length = 466

 Score = 51.9 bits (125), Expect = 8e-08
 Identities = 39/219 (17%), Positives = 81/219 (36%), Gaps = 31/219 (14%)

Query: 47  LSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTML 106
            + ++      L   N++      +    L  +  L+     ++    +     ++LT +
Sbjct: 20  DTALAEKMKTVLGKTNVTD----TVSQTDLDQVTTLQADRLGIKSIDGVE--YLNNLTQI 73

Query: 107 DLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTG 166
           + S+NQ  +   ++ +  L+ L  + +  N      D+  L NLT++  L L  N     
Sbjct: 74  NFSNNQLTD---ITPLKNLTKLVDILMNNNQIA---DITPLANLTNLTGLTLFNN----- 122

Query: 167 RIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF- 225
           +I     L NL ++     L++ S++I       L    +L   +   N +    P +  
Sbjct: 123 QITDIDPLKNLTNL---NRLELSSNTISD--ISALSGLTSLQQLSF-GNQVTDLKPLANL 176

Query: 226 ----ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
                L I  NK++        A L  +       NQ++
Sbjct: 177 TTLERLDISSNKVSDISV---LAKLTNLESLIATNNQIS 212

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 75.9 bits (187), Expect = 1e-15
 Identities = 50/260 (19%), Positives = 91/260 (35%), Gaps = 17/260 (6%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + +L  L  +   I  +       LS+LQ L      L  ++NF  +  +  L+ L++ +
Sbjct: 75  LSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP-IGHLKTLKELNVAH 133

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTM----LDLSHNQFDNS 116
             +  +F      + L +L  L LS+ ++Q            + +    LDLS N    +
Sbjct: 134 NLIQ-SFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPM--N 190

Query: 117 FILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR---IPRSMA 173
           FI    F    L  L L  N     +    +  L  +    L L               A
Sbjct: 191 FIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSA 250

Query: 174 LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELH 228
           L  L ++ ++E            + D      N+ +F+LV+ +I     +S+      L 
Sbjct: 251 LEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLE 310

Query: 229 IYDNKLNVTLFELHFANLIE 248
           + + K       L   +L  
Sbjct: 311 LVNCKFG-QFPTLKLKSLKR 329

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 71.7 bits (176), Expect = 3e-14
 Identities = 59/272 (21%), Positives = 103/272 (37%), Gaps = 19/272 (6%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           + + L+ S   +  +      +   LQ LDLS   +  +++      +S L  L L    
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGA-YQSLSHLSTLILTGNP 87

Query: 63  L-SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
           + S+A       + L SL +L      L         +  +L  L+++HN   +  +  +
Sbjct: 88  IQSLALGAF---SGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY 144

Query: 122 VFALSHLPFLDLGFNNFQG--TIDLEALGNLTSIN-RLDLSLNTGLTGRIPRSMALCNLK 178
              L++L  LDL  N  Q     DL  L  +  +N  LDLSLN  +    P +     L 
Sbjct: 145 FSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLN-PMNFIQPGAFKEIRLH 203

Query: 179 SINL---QESLDMRSSSIYG-----HLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIY 230
            + L    +SL++  + I G          LG+FRN       + S +  +         
Sbjct: 204 KLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFR 263

Query: 231 DNKLNVTLFELH--FANLIEMSWFRVGGNQLT 260
              L+  L ++   F  L  +S F +    + 
Sbjct: 264 LAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIE 295

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 70.9 bits (174), Expect = 4e-14
 Identities = 44/257 (17%), Positives = 83/257 (32%), Gaps = 17/257 (6%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + +L+ L   +T +  +    +G+L  L+ L+++   +       + S ++ LEHLDL  
Sbjct: 99  LSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 158

Query: 61  VNLS--IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFI 118
             +      D  ++    L  + L LS   +    P A      L  L L +N    + +
Sbjct: 159 NKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEI-RLHKLTLRNNFDSLNVM 217

Query: 119 LSWVFALSHLPFLDLGFNNFQG-----TIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA 173
            + +  L+ L    L    F+        D  AL  L ++   +  L             
Sbjct: 218 KTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDL 277

Query: 174 LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF----ELHI 229
              L +++    + +    +                  LVN     F          L  
Sbjct: 278 FNCLTNVSSFSLVSVTIERV-----KDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTF 332

Query: 230 YDNKLNVTLFELHFANL 246
             NK      E+   +L
Sbjct: 333 TSNKGGNAFSEVDLPSL 349

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 67.8 bits (166), Expect = 5e-13
 Identities = 38/140 (27%), Positives = 65/140 (46%), Gaps = 4/140 (2%)

Query: 3   NLRYLNFSKTRICGIIPQ-QLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV 61
            L +L+F  + +  +       +L NL +LD+S  +     N +  +G+S LE L +   
Sbjct: 397 QLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGI-FNGLSSLEVLKMAGN 455

Query: 62  NLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
           +    F    +  +L +L  L LS CQL+  SP A  + SSL +L+++ NQ   S     
Sbjct: 456 SFQENFLP-DIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQL-KSVPDGI 513

Query: 122 VFALSHLPFLDLGFNNFQGT 141
              L+ L  + L  N +  +
Sbjct: 514 FDRLTSLQKIWLHTNPWDCS 533

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 65.5 bits (160), Expect = 3e-12
 Identities = 51/267 (19%), Positives = 88/267 (32%), Gaps = 31/267 (11%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
            L YL++    I  +       L+N+    L S  +  V +F +  G   LE ++ ++  
Sbjct: 263 RLAYLDYYLDDIIDLFN----CLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQ 318

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
                       KL SL  L  ++ +  +      V+  SL  LDLS N        S  
Sbjct: 319 FP--------TLKLKSLKRLTFTSNKGGNAFSE--VDLPSLEFLDLSRNGLSFKGCCSQS 368

Query: 123 FA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
               + L +LDL FN             L  +  LD   ++ L  ++       +L+++ 
Sbjct: 369 DFGTTSLKYLDLSFNGVITMSS--NFLGLEQLEHLDFQ-HSNLK-QMSEFSVFLSLRNL- 423

Query: 182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF--------ELHIYDNK 233
               LD+  +              +L    +  NS                  L +   +
Sbjct: 424 --IYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ 481

Query: 234 LNVTLFELHFANLIEMSWFRVGGNQLT 260
           L   L    F +L  +    +  NQL 
Sbjct: 482 LE-QLSPTAFNSLSSLQVLNMASNQLK 507

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 62.4 bits (152), Expect = 3e-11
 Identities = 39/164 (23%), Positives = 67/164 (40%), Gaps = 10/164 (6%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNF-LWLSGISLLEHLDLR 59
           + +L+ L F+  +          +L +L+FLDLS   L +         G + L++LDL 
Sbjct: 324 LKSLKRLTFTSNKGGNAFS--EVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPL-ATVNFSSLTMLDLSHNQFDNSFI 118
           +  +       +    L  L  L   +  L+  S     ++  +L  LD+SH        
Sbjct: 382 FNGVITMSSNFL---GLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHT--RVA 436

Query: 119 LSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
            + +F  LS L  L +  N+FQ     +    L ++  LDLS  
Sbjct: 437 FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 480

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 49.7 bits (119), Expect = 5e-07
 Identities = 43/291 (14%), Positives = 84/291 (28%), Gaps = 35/291 (12%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQF----LDLSSKYLLYVDNFLWLSGISLLEHL 56
           + NL +L+ S  +I  I    L  L  +      LDLS   + ++        I L   L
Sbjct: 148 LTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGA-FKEIRL-HKL 205

Query: 57  DLRYVNLSI-----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHN 111
            LR    S+         L        ++    +   L+ F   A     +LT+ +    
Sbjct: 206 TLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLA 265

Query: 112 QFDNSF--ILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIP 169
             D     I+     L+++    L     +   D         +  ++            
Sbjct: 266 YLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFG-QFPTLKL 324

Query: 170 RSMALCNLKSINLQ-----------ESLDMRSSSIY--GHLTDQLGQFRNLVTFNLVNNS 216
           +S+      S               E LD+  + +   G  +       +L   +L  N 
Sbjct: 325 KSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNG 384

Query: 217 IVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
           ++  +  +F        L    + L        F +L  + +  +      
Sbjct: 385 VI-TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTR 434

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 44.7 bits (106), Expect = 2e-05
 Identities = 30/169 (17%), Positives = 54/169 (31%), Gaps = 41/169 (24%)

Query: 100 FSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL 158
             S   LDLS N      + S+ F     L  LDL     Q TI+  A  +L+ ++ L L
Sbjct: 27  PFSTKNLDLSFNPL--RHLGSYSFFSFPELQVLDLSRCEIQ-TIEDGAYQSLSHLSTLIL 83

Query: 159 SLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV 218
           + N               ++S+                         +L     V  ++ 
Sbjct: 84  TGN--------------PIQSLA----------------LGAFSGLSSLQKLVAVETNLA 113

Query: 219 GFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
               +         EL++  N +       +F+NL  +    +  N++ 
Sbjct: 114 SLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQ 162

>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 Length = 605

 Score = 74.8 bits (183), Expect = 3e-15
 Identities = 41/233 (17%), Positives = 78/233 (33%), Gaps = 27/233 (11%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
                N  K  +   +      L+++  +  ++  +  V    +L     +  L L    
Sbjct: 22  ETIKDNLKKKSVTDAVT--QNELNSIDQIIANNSDIKSVQGIQYLPN---VTKLFLNGNK 76

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           L+     +     L +L  L L   +++  S L   +   L  L L HN   +   ++ +
Sbjct: 77  LTD----IKPLTNLKNLGWLFLDENKIKDLSSLK--DLKKLKSLSLEHNGISD---INGL 127

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
             L  L  L LG N      D+  L  LT ++ L L  +  ++  I     L  L+++ L
Sbjct: 128 VHLPQLESLYLGNNKIT---DITVLSRLTKLDTLSLE-DNQIS-DIVPLAGLTKLQNLYL 182

Query: 183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLN 235
                   S +       L   +NL    L +   +          +  N + 
Sbjct: 183 S---KNHISDL-----RALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVK 227

>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 Length = 605

 Score = 70.9 bits (173), Expect = 5e-14
 Identities = 50/230 (21%), Positives = 85/230 (36%), Gaps = 24/230 (10%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           N+  L  +  ++  I P  L NL NL +L L    +  + +   L  +  L+ L L +  
Sbjct: 66  NVTKLFLNGNKLTDIKP--LTNLKNLGWLFLDENKIKDLSS---LKDLKKLKSLSLEHNG 120

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           +S     +     L  L  L L N ++   + L+    + L  L L  NQ  +   +  +
Sbjct: 121 ISD----INGLVHLPQLESLYLGNNKITDITVLS--RLTKLDTLSLEDNQISD---IVPL 171

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
             L+ L  L L  N+     DL AL  L +++ L+L     L   I     L    ++  
Sbjct: 172 AGLTKLQNLYLSKNHIS---DLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKN 228

Query: 183 QESLDMRSSSIYGH-------LTDQLGQFRNLVTFNLVNNSIVGFIPWSF 225
            +   +    I          +   L +F N V+F       +G     F
Sbjct: 229 TDGSLVTPEIISDDGDYEKPNVKWHLPEFTNEVSFIFYQPVTIGKAKARF 278

>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 Length = 605

 Score = 55.9 bits (134), Expect = 6e-09
 Identities = 38/193 (19%), Positives = 78/193 (40%), Gaps = 27/193 (13%)

Query: 47  LSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTML 106
               +     +L+  +++      +  N+L S+ ++  +N  ++    +      ++T L
Sbjct: 17  DDAFAETIKDNLKKKSVTD----AVTQNELNSIDQIIANNSDIKSVQGIQ--YLPNVTKL 70

Query: 107 DLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTG 166
            L+ N+  +   L+    L +L +L L  N  +   DL +L +L  +  L L  N     
Sbjct: 71  FLNGNKLTDIKPLT---NLKNLGWLFLDENKIK---DLSSLKDLKKLKSLSLEHN----- 119

Query: 167 RIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF- 225
            I     L +L  +   ESL + ++ I       L +   L T +L +N I   +P +  
Sbjct: 120 GISDINGLVHLPQL---ESLYLGNNKI--TDITVLSRLTKLDTLSLEDNQISDIVPLAGL 174

Query: 226 ----ELHIYDNKL 234
                L++  N +
Sbjct: 175 TKLQNLYLSKNHI 187

>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 Length = 605

 Score = 49.3 bits (117), Expect = 6e-07
 Identities = 28/154 (18%), Positives = 42/154 (27%), Gaps = 34/154 (22%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           +  L  L     +I  I    L  L+ L  L L         N   +S I  L  L    
Sbjct: 130 LPQLESLYLGNNKITDITV--LSRLTKLDTLSLED-------NQ--ISDIVPLAGLT--- 175

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
                             L  L LS   +     LA     +L +L+L   +  N  I +
Sbjct: 176 -----------------KLQNLYLSKNHISDLRALA--GLKNLDVLELFSQECLNKPI-N 215

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSIN 154
               L     +     +      +   G+    N
Sbjct: 216 HQSNLVVPNTVKNTDGSLVTPEIISDDGDYEKPN 249

>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} Length = 306

 Score = 72.0 bits (177), Expect = 1e-14
 Identities = 42/189 (22%), Positives = 76/189 (40%), Gaps = 18/189 (9%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVD-NFLWLSGISLLEHLDLRY- 60
           +   L     ++  +       L+ L  L LSS  L +         G + L++LDL + 
Sbjct: 29  SATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFN 88

Query: 61  --VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLAT-VNFSSLTMLDLSHNQFDNSF 117
             + +S  F        L  L  L   +  L+  S  +  ++  +L  LD+SH       
Sbjct: 89  GVITMSSNFL------GLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHT--RV 140

Query: 118 ILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSM--AL 174
             + +F  LS L  L +  N+FQ     +    L ++  LDLS    L  ++  +   +L
Sbjct: 141 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLE-QLSPTAFNSL 198

Query: 175 CNLKSINLQ 183
            +L+ +N+ 
Sbjct: 199 SSLQVLNMS 207

>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} Length = 306

 Score = 68.1 bits (167), Expect = 2e-13
 Identities = 46/162 (28%), Positives = 79/162 (48%), Gaps = 8/162 (4%)

Query: 3   NLRYLNFSKTRICGIIPQQL-GNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV 61
            L +L+F  + +  +    +  +L NL +LD+S  +     N    +G+S LE L +   
Sbjct: 102 QLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG-IFNGLSSLEVLKMAGN 160

Query: 62  NLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
           +    F   +    L +L  L LS CQL+  SP A  + SSL +L++SHN F    + ++
Sbjct: 161 SFQENFLPDIFTE-LRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNF--FSLDTF 217

Query: 122 VFA-LSHLPFLDLGFNNFQGTIDLEALGNL-TSINRLDLSLN 161
            +  L+ L  LD   N+   T   + L +  +S+  L+L+ N
Sbjct: 218 PYKCLNSLQVLDYSLNHIM-TSKKQELQHFPSSLAFLNLTQN 258

>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} Length = 306

 Score = 43.5 bits (103), Expect = 3e-05
 Identities = 39/186 (20%), Positives = 66/186 (35%), Gaps = 21/186 (11%)

Query: 86  NCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQ-GTID 143
            C  +  + + T   SS T L+L  N+  +  +   VF  L+ L  L L  N        
Sbjct: 13  RCNSKGLTSVPTGIPSSATRLELESNKLQS--LPHGVFDKLTQLTKLSLSSNGLSFKGCC 70

Query: 144 LEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQES--LDMRSSSIYGHLTDQL 201
            ++    TS+  LDLS N G+       + L  L+ ++ Q S    M   S++  L    
Sbjct: 71  SQSDFGTTSLKYLDLSFN-GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLR--- 126

Query: 202 GQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRV 254
               NL+  ++ +          F        L +  N          F  L  +++  +
Sbjct: 127 ----NLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDL 182

Query: 255 GGNQLT 260
              QL 
Sbjct: 183 SQCQLE 188

>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* Length = 330

 Score = 71.6 bits (176), Expect = 2e-14
 Identities = 49/272 (18%), Positives = 96/272 (35%), Gaps = 30/272 (11%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           +   L+    +I  I      NL NL  L L +  +  +      + +  LE L L    
Sbjct: 53  DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGA-FAPLVKLERLYLSKNQ 111

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           L       +      +L ELR+   ++           + + +++L  N   +S I +  
Sbjct: 112 LKE-----LPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA 166

Query: 123 FA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
           F  +  L ++ +   N   TI      +LT    L L  N  +T ++  + +L  L ++ 
Sbjct: 167 FQGMKKLSYIRIADTNIT-TIPQGLPPSLTE---LHLDGNK-IT-KVDAA-SLKGLNNL- 218

Query: 182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKL 234
               L +  +SI       L    +L   +L NN +V  +P           +++++N +
Sbjct: 219 --AKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNI 275

Query: 235 -----NVTLFELHFANLIEMSWFRVGGNQLTL 261
                N      +       S   +  N +  
Sbjct: 276 SAIGSNDFCPPGYNTKKASYSGVSLFSNPVQY 307

>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* Length = 330

 Score = 59.2 bits (144), Expect = 3e-10
 Identities = 46/240 (19%), Positives = 86/240 (35%), Gaps = 28/240 (11%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + NL  L     +I  I P     L  L+ L LS   L  +   +  +    L+ L +  
Sbjct: 75  LKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMPKT----LQELRVHE 130

Query: 61  VNLSI----AFDWLMVANKLLSLVELRLSNCQLQ--HFSPLATVNFSSLTMLDLSHNQFD 114
             ++      F      N L  ++ + L    L+       A      L+ + ++     
Sbjct: 131 NEITKVRKSVF------NGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNI- 183

Query: 115 NSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMAL 174
            + I   +     L  L L  N     +D  +L  L ++ +L LS N  ++  +    +L
Sbjct: 184 -TTIPQGLP--PSLTELHLDGNKIT-KVDAASLKGLNNLAKLGLSFN-SIS-AVDNG-SL 236

Query: 175 CNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKL 234
            N    +L+E L + ++ +   +   L   + +    L NN+I       F    Y+ K 
Sbjct: 237 ANTP--HLRE-LHLNNNKLV-KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKK 292

>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* Length = 330

 Score = 49.2 bits (118), Expect = 6e-07
 Identities = 23/117 (19%), Positives = 42/117 (35%), Gaps = 8/117 (6%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + NL  L  S   I  +    L N  +L+ L L++  L+ V     L+    ++ + L  
Sbjct: 215 LNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPG--GLADHKYIQVVYLHN 272

Query: 61  VNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFS--PLATVNFSSLTMLDLSHN 111
            N+S      F       K  S   + L +  +Q++   P           + L + 
Sbjct: 273 NNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGNY 329

>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* Length = 330

 Score = 40.8 bits (96), Expect = 3e-04
 Identities = 32/170 (18%), Positives = 49/170 (28%), Gaps = 45/170 (26%)

Query: 100 FSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL 158
                +LDL +N+     I    F  L +L  L L  N     I   A   L  + RL L
Sbjct: 51  PPDTALLDLQNNKITE--IKDGDFKNLKNLHTLILINNKIS-KISPGAFAPLVKLERLYL 107

Query: 159 SLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV 218
           S N               LK +                        + L    +  N I 
Sbjct: 108 SKN--------------QLKEL-------------------PEKMPKTLQELRVHENEIT 134

Query: 219 GFIPWSF-------ELHIYDNKLNVTLFELH-FANLIEMSWFRVGGNQLT 260
                 F        + +  N L  +  E   F  + ++S+ R+    +T
Sbjct: 135 KVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT 184

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 70.8 bits (174), Expect = 2e-14
 Identities = 42/253 (16%), Positives = 82/253 (32%), Gaps = 35/253 (13%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           N++ L+ S   +  I    L   + L+ L+LSS  L    +      +S L  LDL    
Sbjct: 35  NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDL---ESLSTLRTLDLNNNY 91

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           +              S+  L  +N  +   S            + L++N+   + +    
Sbjct: 92  VQELL-------VGPSIETLHAANNNISRVSCSR---GQGKKNIYLANNKI--TMLRDLD 139

Query: 123 FA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
               S + +LDL  N        E   +  ++  L+L  N  +   +   +    LK+++
Sbjct: 140 EGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYN-FIY-DVKGQVVFAKLKTLD 197

Query: 182 LQE-SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNK 233
           L    L          +  +      +   +L NN +V  I  +           +  N 
Sbjct: 198 LSSNKLA--------FMGPEFQSAAGVTWISLRNNKLV-LIEKALRFSQNLEHFDLRGNG 248

Query: 234 LNVTLFELHFANL 246
            +       F+  
Sbjct: 249 FHCGTLRDFFSKN 261

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 66.6 bits (163), Expect = 7e-13
 Identities = 33/179 (18%), Positives = 62/179 (34%), Gaps = 7/179 (3%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
             + +  +  +I  +     G  S +Q+LDL    +  V+     +    LEHL+L+Y  
Sbjct: 121 GKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNF 180

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           +      +        L  L LS+ +L    P    + + +T + L +N+     I   +
Sbjct: 181 IYD----VKGQVVFAKLKTLDLSSNKLAFMGP-EFQSAAGVTWISLRNNKL--VLIEKAL 233

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
               +L   DL  N F      +       +  +       LTG+      +  L    
Sbjct: 234 RFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYG 292

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 59.2 bits (144), Expect = 3e-10
 Identities = 45/250 (18%), Positives = 79/250 (31%), Gaps = 31/250 (12%)

Query: 18  IPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLS-IAFDWLMVANKL 76
           I +   N +  +   ++   L      L       ++ LDL    LS I+   L      
Sbjct: 2   IHEIKQNGNRYKIEKVTDSSLKQALASL-RQSAWNVKELDLSGNPLSQISAADL---APF 57

Query: 77  LSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFN 136
             L  L LS+  L     L   + S+L  LDL++N       +  +     +  L    N
Sbjct: 58  TKLELLNLSSNVLYETLDLE--SLSTLRTLDLNNNY------VQELLVGPSIETLHAANN 109

Query: 137 NFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYG- 195
           N    +             + L+ N  +T  +           +   + LD++ + I   
Sbjct: 110 NIS-RVSCSRGQGKK---NIYLANN-KIT-MLRDL-DEGCRSRV---QYLDLKLNEIDTV 159

Query: 196 HLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLNVTLFELHFANLIEMS 250
           +  +       L   NL  N I              L +  NKL        F +   ++
Sbjct: 160 NFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKL--AFMGPEFQSAAGVT 217

Query: 251 WFRVGGNQLT 260
           W  +  N+L 
Sbjct: 218 WISLRNNKLV 227

>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* Length = 285

 Score = 70.4 bits (173), Expect = 3e-14
 Identities = 43/166 (25%), Positives = 59/166 (35%), Gaps = 18/166 (10%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
             + +     RI  +         NL  L L S  L  +D     +G++LLE LDL   N
Sbjct: 33  ASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAA-AFTGLALLEQLDLSD-N 90

Query: 63  LSI------AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS 116
             +       F        L  L  L L  C LQ   P      ++L  L L  N     
Sbjct: 91  AQLRSVDPATFH------GLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNAL--Q 142

Query: 117 FILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
            +    F  L +L  L L  N    ++   A   L S++RL L  N
Sbjct: 143 ALPDDTFRDLGNLTHLFLHGNRIS-SVPERAFRGLHSLDRLLLHQN 187

>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* Length = 285

 Score = 66.9 bits (164), Expect = 4e-13
 Identities = 39/163 (23%), Positives = 54/163 (33%), Gaps = 8/163 (4%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
             NL  L      +  I       L+ L+ LDLS    L   +     G+  L  L L  
Sbjct: 55  CRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDR 114

Query: 61  VNL-SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
             L  +          L +L  L L +  LQ        +  +LT L L  N+   S + 
Sbjct: 115 CGLQELGPGLF---RGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRI--SSVP 169

Query: 120 SWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
              F  L  L  L L  N     +   A  +L  +  L L  N
Sbjct: 170 ERAFRGLHSLDRLLLHQNRVA-HVHPHAFRDLGRLMTLYLFAN 211

>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* Length = 285

 Score = 50.0 bits (120), Expect = 2e-07
 Identities = 25/118 (21%), Positives = 39/118 (33%), Gaps = 11/118 (9%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           +  L+YL      +  +      +L NL  L L    +  V       G+  L+ L L  
Sbjct: 128 LAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERA-FRGLHSLDRLLLHQ 186

Query: 61  VNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD 114
             ++     AF        L  L+ L L    L      A     +L  L L+ N + 
Sbjct: 187 NRVAHVHPHAFR------DLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWV 238

>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* Length = 285

 Score = 41.9 bits (99), Expect = 1e-04
 Identities = 33/171 (19%), Positives = 63/171 (36%), Gaps = 21/171 (12%)

Query: 100 FSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL 158
            ++   + L  N+   S + +  F    +L  L L  N     ID  A   L  + +LDL
Sbjct: 31  PAASQRIFLHGNRI--SHVPAASFRACRNLTILWLHSNVLA-RIDAAAFTGLALLEQLDL 87

Query: 159 SLNTGLTGRIPRSM--ALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNS 216
           S N  L   +  +    L  L +++L          +   L   L   + L    L +N+
Sbjct: 88  SDNAQLR-SVDPATFHGLGRLHTLHLD---RCGLQELGPGLFRGLAALQYL---YLQDNA 140

Query: 217 IVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
           +      +F        L ++ N++  ++ E  F  L  +    +  N++ 
Sbjct: 141 LQALPDDTFRDLGNLTHLFLHGNRI-SSVPERAFRGLHSLDRLLLHQNRVA 190

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 71.4 bits (175), Expect = 3e-14
 Identities = 42/258 (16%), Positives = 83/258 (32%), Gaps = 35/258 (13%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           N++ L+ S   +  I    L   + L+ L+LSS  L    +      +S L  LDL    
Sbjct: 35  NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDL---ESLSTLRTLDLNNNY 91

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           +              S+  L  +N  +   S            + L++N+   + +    
Sbjct: 92  VQELL-------VGPSIETLHAANNNISRVSCSR---GQGKKNIYLANNKI--TMLRDLD 139

Query: 123 FA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
               S + +LDL  N        E   +  ++  L+L  N  +   +   +    LK+++
Sbjct: 140 EGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYN-FIY-DVKGQVVFAKLKTLD 197

Query: 182 LQE-SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNK 233
           L    L          +  +      +   +L NN +V  I  +           +  N 
Sbjct: 198 LSSNKLA--------FMGPEFQSAAGVTWISLRNNKLV-LIEKALRFSQNLEHFDLRGNG 248

Query: 234 LNVTLFELHFANLIEMSW 251
            +       F+    +  
Sbjct: 249 FHCGTLRDFFSKNQRVQT 266

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 66.8 bits (163), Expect = 1e-12
 Identities = 33/179 (18%), Positives = 62/179 (34%), Gaps = 7/179 (3%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
             + +  +  +I  +     G  S +Q+LDL    +  V+     +    LEHL+L+Y  
Sbjct: 121 GKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNF 180

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           +      +        L  L LS+ +L    P    + + +T + L +N+     I   +
Sbjct: 181 IYD----VKGQVVFAKLKTLDLSSNKLAFMGP-EFQSAAGVTWISLRNNKL--VLIEKAL 233

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
               +L   DL  N F      +       +  +       LTG+      +  L    
Sbjct: 234 RFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYG 292

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 57.5 bits (139), Expect = 1e-09
 Identities = 45/250 (18%), Positives = 80/250 (32%), Gaps = 31/250 (12%)

Query: 18  IPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLS-IAFDWLMVANKL 76
           I +   N +  +   ++   L      L       ++ LDL    LS I+   L      
Sbjct: 2   IHEIKQNGNRYKIEKVTDSSLKQALASL-RQSAWNVKELDLSGNPLSQISAADL---APF 57

Query: 77  LSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFN 136
             L  L LS+  L     L   + S+L  LDL++N       +  +     +  L    N
Sbjct: 58  TKLELLNLSSNVLYETLDLE--SLSTLRTLDLNNNY------VQELLVGPSIETLHAANN 109

Query: 137 NFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYG- 195
           N    +         +   + L+ N  +T  +           +   + LD++ + I   
Sbjct: 110 NIS-RVSCSRGQGKKN---IYLANN-KIT-MLRDL-DEGCRSRV---QYLDLKLNEIDTV 159

Query: 196 HLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLNVTLFELHFANLIEMS 250
           +  +       L   NL  N I              L +  NKL        F +   ++
Sbjct: 160 NFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKL--AFMGPEFQSAAGVT 217

Query: 251 WFRVGGNQLT 260
           W  +  N+L 
Sbjct: 218 WISLRNNKLV 227

>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 Length = 452

 Score = 70.9 bits (174), Expect = 4e-14
 Identities = 58/265 (21%), Positives = 88/265 (33%), Gaps = 46/265 (17%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           N RYLN  +  I  I      +L +L+ L L              + I  +E        
Sbjct: 76  NTRYLNLMENNIQMIQADTFRHLHHLEVLQLGR------------NSIRQIE-------- 115

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
              AF+       L SL  L L +  L      A    S L  L L +N      I S+ 
Sbjct: 116 -VGAFN------GLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPI--ESIPSYA 166

Query: 123 FA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
           F  +  L  LDLG       I   A   L ++  L+L +       I     L  L    
Sbjct: 167 FNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMC-----NIKDMPNLTPLV--G 219

Query: 182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKL 234
           L+E L+M  +              +L    ++N+ +      +F       EL++  N L
Sbjct: 220 LEE-LEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNL 278

Query: 235 NVTLFELHFANLIEMSWFRVGGNQL 259
           + +L    F  L  +    +  N  
Sbjct: 279 S-SLPHDLFTPLRYLVELHLHHNPW 302

>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 Length = 452

 Score = 70.2 bits (172), Expect = 7e-14
 Identities = 36/162 (22%), Positives = 60/162 (37%), Gaps = 8/162 (4%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + +L  L      +  I       LS L+ L L +  +  + ++ + + +  L  LDL  
Sbjct: 122 LASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAF-NRVPSLMRLDLGE 180

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
           +              L +L  L L  C ++    L       L  L++S N F    I  
Sbjct: 181 LKKLEYISEGAFEG-LFNLKYLNLGMCNIKDMPNLT--PLVGLEELEMSGNHF--PEIRP 235

Query: 121 WVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
             F  LS L  L +  +     I+  A   L S+  L+L+ N
Sbjct: 236 GSFHGLSSLKKLWVMNSQVS-LIERNAFDGLASLVELNLAHN 276

>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 Length = 452

 Score = 67.1 bits (164), Expect = 9e-13
 Identities = 35/163 (21%), Positives = 66/163 (40%), Gaps = 10/163 (6%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + +L  L   +  I  I       L++L  L+L   +L  + +      +S L  L LR 
Sbjct: 98  LHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPS-GAFEYLSKLRELWLRN 156

Query: 61  VNLS-IAFDWLMVANKLLSLVELRLSNC-QLQHFSPLATVNFSSLTMLDLSHNQFDNSFI 118
             +  I        N++ SL+ L L    +L++ S  A     +L  L+L      +   
Sbjct: 157 NPIESIPSYAF---NRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKD--- 210

Query: 119 LSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
           +  +  L  L  L++  N+F   I   +   L+S+ +L +  +
Sbjct: 211 MPNLTPLVGLEELEMSGNHFP-EIRPGSFHGLSSLKKLWVMNS 252

>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 Length = 452

 Score = 60.5 bits (147), Expect = 1e-10
 Identities = 49/222 (22%), Positives = 77/222 (34%), Gaps = 33/222 (14%)

Query: 53  LEHLDLRYVNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDL 108
             +L+L   N+ +     F        L  L  L+L    ++     A    +SL  L+L
Sbjct: 77  TRYLNLMENNIQMIQADTFR------HLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLEL 130

Query: 109 SHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR 167
             N    + I S  F  LS L  L L  N  + +I   A   + S+ RLDL     L   
Sbjct: 131 FDNWL--TVIPSGAFEYLSKLRELWLRNNPIE-SIPSYAFNRVPSLMRLDLGELKKLE-Y 186

Query: 168 IPRSM--ALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF 225
           I       L NLK +NL          +       L     L    +  N      P SF
Sbjct: 187 ISEGAFEGLFNLKYLNLG---MCNIKDM-----PNLTPLVGLEELEMSGNHFPEIRPGSF 238

Query: 226 -------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
                  +L + +++++  +    F  L  +    +  N L+
Sbjct: 239 HGLSSLKKLWVMNSQVS-LIERNAFDGLASLVELNLAHNNLS 279

>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 Length = 452

 Score = 60.1 bits (146), Expect = 1e-10
 Identities = 35/145 (24%), Positives = 60/145 (41%), Gaps = 17/145 (11%)

Query: 1   MGNLRYLNFSKT-RICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLR 59
           + +L  L+  +  ++  I       L NL++L+L    +  + N   L G   LE L++ 
Sbjct: 170 VPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVG---LEELEMS 226

Query: 60  YVNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN 115
             +       +F        L SL +L + N Q+      A    +SL  L+L+HN    
Sbjct: 227 GNHFPEIRPGSFH------GLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNL-- 278

Query: 116 SFILSWVFA-LSHLPFLDLGFNNFQ 139
           S +   +F  L +L  L L  N + 
Sbjct: 279 SSLPHDLFTPLRYLVELHLHHNPWN 303

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 68.9 bits (169), Expect = 1e-13
 Identities = 42/243 (17%), Positives = 81/243 (33%), Gaps = 33/243 (13%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           +   L+     I  +       L +L  L L +  +  +      S +  L+ L +   +
Sbjct: 55  DTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKA-FSPLRKLQKLYISKNH 113

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           L       +  N   SLVELR+ + +++           ++  +++  N  +NS      
Sbjct: 114 LV-----EIPPNLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGA 168

Query: 123 FALSHLPFLDLGFNNFQG--------------------TIDLEALGNLTSINRLDLSLNT 162
           F    L +L +      G                     I+LE L   + + RL L  N 
Sbjct: 169 FDGLKLNYLRISEAKLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHN- 227

Query: 163 GLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP 222
            +   I    +L  L ++     L + ++ +   +   L   + L    L  N+I     
Sbjct: 228 QIR-MIENG-SLSFLPTL---RELHLDNNKLS-RVPAGLPDLKLLQVVYLHTNNITKVGV 281

Query: 223 WSF 225
             F
Sbjct: 282 NDF 284

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 50.8 bits (122), Expect = 2e-07
 Identities = 21/118 (17%), Positives = 38/118 (32%), Gaps = 8/118 (6%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
              L  L     +I  I    L  L  L+ L L +  L  V     L  + LL+ + L  
Sbjct: 216 YSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRVPA--GLPDLKLLQVVYLHT 273

Query: 61  VNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFS--PLATVNFSSLTMLDLSHNQ 112
            N++      F  +    K      + L N  + ++   P      +    +   + +
Sbjct: 274 NNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGNYK 331

>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* Length = 549

 Score = 69.0 bits (169), Expect = 2e-13
 Identities = 48/266 (18%), Positives = 90/266 (33%), Gaps = 39/266 (14%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
            ++ L+ S  +I  I    L   +NLQ L L S  +  ++                    
Sbjct: 27  AMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGD------------------ 68

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
              AF        L SL  L LS+  L   S       SSL  L+L  N +    + S  
Sbjct: 69  ---AFY------SLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLF 119

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
             L++L  L +G       I       LTS+N L++   +          +L +++ I  
Sbjct: 120 PNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRN--YQSQ-SLKSIRDI-- 174

Query: 183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKL------NV 236
              L +  S     L        ++    L + ++  F      +    + +        
Sbjct: 175 -HHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGS 233

Query: 237 TLFELHFANLIEMSWFRVGGNQLTLE 262
            L +  F  L+++  + +  +++  +
Sbjct: 234 VLTDESFNELLKLLRYILELSEVEFD 259

>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* Length = 549

 Score = 66.7 bits (163), Expect = 1e-12
 Identities = 47/270 (17%), Positives = 96/270 (35%), Gaps = 34/270 (12%)

Query: 18  IPQQLGNLSNLQFLDLSSKYLLYVDN--FLWLSGISLLEHLDLRYVNLS---IAFDWLMV 72
           + + +  LS ++F D +   L   +      +S +  +E + +R +++    + +D   V
Sbjct: 246 LLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTV 305

Query: 73  ANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVF--ALSHLPF 130
            + L  +  + + N ++       + +  SL  LDLS N     ++ +     A   L  
Sbjct: 306 YSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQT 365

Query: 131 LDLGFNNFQG-TIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQ------ 183
           L L  N+ +      E L  L ++  LD+S NT              ++ +NL       
Sbjct: 366 LVLSQNHLRSMQKTGEILLTLKNLTSLDISRNT-FHPMPDSCQWPEKMRFLNLSSTGIRV 424

Query: 184 ---------ESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHI 229
                    E LD+ ++    +L         L    +  N +      S       + I
Sbjct: 425 VKTCIPQTLEVLDVSNN----NLDSFSLFLPRLQELYISRNKLKTLPDASLFPVLLVMKI 480

Query: 230 YDNKLNVTLFELHFANLIEMSWFRVGGNQL 259
             N+L  ++ +  F  L  +    +  N  
Sbjct: 481 SRNQLK-SVPDGIFDRLTSLQKIWLHTNPW 509

>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* Length = 549

 Score = 64.7 bits (158), Expect = 6e-12
 Identities = 44/265 (16%), Positives = 88/265 (33%), Gaps = 19/265 (7%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           +G+L +L+ S   +  +     G LS+L++L+L       +        ++ L+ L +  
Sbjct: 73  LGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGN 132

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
           V        +  A  L SL EL +    L+++   +  +   +  L L  ++  ++F+L 
Sbjct: 133 VETFSEIRRIDFAG-LTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSE--SAFLLE 189

Query: 121 WVF-ALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
                LS + +L+L   N         L      + +      G          L  L  
Sbjct: 190 IFADILSSVRYLELRDTNLA-RFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLR 248

Query: 180 INLQ----ESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLN 235
             L+    E  D   + +      +      L     V             LHI    L 
Sbjct: 249 YILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIR---------RLHIPQFYLF 299

Query: 236 VTLFELHFANLIEMSWFRVGGNQLT 260
                  ++ L ++    V  +++ 
Sbjct: 300 -YDLSTVYSLLEKVKRITVENSKVF 323

>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* Length = 549

 Score = 60.9 bits (148), Expect = 1e-10
 Identities = 32/144 (22%), Positives = 53/144 (36%), Gaps = 14/144 (9%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + NL  L+ S+      +P        ++FL+LSS  +      +       LE LD+  
Sbjct: 386 LKNLTSLDISRNTFH-PMPDSCQWPEKMRFLNLSSTGI----RVVKTCIPQTLEVLDVSN 440

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
            NL         +  L  L EL +S  +L+         F  L ++ +S NQ   S    
Sbjct: 441 NNLD------SFSLFLPRLQELYISRNKLKTLPD--ASLFPVLLVMKISRNQL-KSVPDG 491

Query: 121 WVFALSHLPFLDLGFNNFQGTIDL 144
               L+ L  + L  N +  +   
Sbjct: 492 IFDRLTSLQKIWLHTNPWDCSCPR 515

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 67.5 bits (165), Expect = 6e-13
 Identities = 58/266 (21%), Positives = 91/266 (34%), Gaps = 48/266 (18%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           N R LN  + +I  I      +L +L+ L LS             + I  +E        
Sbjct: 65  NTRLLNLHENQIQIIKVNSFKHLRHLEILQLSR------------NHIRTIE-------- 104

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
              AF+       L +L  L L + +L      A V  S L  L L +N      I S+ 
Sbjct: 105 -IGAFN------GLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPI--ESIPSYA 155

Query: 123 FA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
           F  +  L  LDLG       I   A   L+++  L+L++   L   IP    L  L  ++
Sbjct: 156 FNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMC-NLR-EIPNLTPLIKLDELD 213

Query: 182 LQE-SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNK 233
           L    L       +  L        +L    ++ + I      +F       E+++  N 
Sbjct: 214 LSGNHLSAIRPGSFQGLM-------HLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNN 266

Query: 234 LNVTLFELHFANLIEMSWFRVGGNQL 259
           L   L    F  L  +    +  N  
Sbjct: 267 LT-LLPHDLFTPLHHLERIHLHHNPW 291

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 67.1 bits (164), Expect = 9e-13
 Identities = 49/220 (22%), Positives = 86/220 (39%), Gaps = 16/220 (7%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + +L  L  S+  I  I       L+NL  L+L    L  + N      +S L+ L LR 
Sbjct: 87  LRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPN-GAFVYLSKLKELWLRN 145

Query: 61  VNLS-IAFDWLMVANKLLSLVELRLSNC-QLQHFSPLATVNFSSLTMLDLSHNQFDNSFI 118
             +  I        N++ SL  L L    +L + S  A    S+L  L+L+         
Sbjct: 146 NPIESIPSYAF---NRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLRE--- 199

Query: 119 LSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLK 178
           +  +  L  L  LDL  N+    I   +   L  + +L +  +  +   I R+ A  NL+
Sbjct: 200 IPNLTPLIKLDELDLSGNHLS-AIRPGSFQGLMHLQKLWMIQS-QIQ-VIERN-AFDNLQ 255

Query: 179 SINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV 218
           S+     +++  +++     D      +L   +L +N   
Sbjct: 256 SL---VEINLAHNNLTLLPHDLFTPLHHLERIHLHHNPWN 292

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 59.0 bits (143), Expect = 4e-10
 Identities = 51/222 (22%), Positives = 80/222 (36%), Gaps = 33/222 (14%)

Query: 53  LEHLDLRYVNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDL 108
              L+L    + I    +F        L  L  L+LS   ++     A    ++L  L+L
Sbjct: 66  TRLLNLHENQIQIIKVNSFK------HLRHLEILQLSRNHIRTIEIGAFNGLANLNTLEL 119

Query: 109 SHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR 167
             N+   + I +  F  LS L  L L  N  + +I   A   + S+ RLDL     L+  
Sbjct: 120 FDNRL--TTIPNGAFVYLSKLKELWLRNNPIE-SIPSYAFNRIPSLRRLDLGELKRLS-Y 175

Query: 168 IPRSM--ALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF 225
           I       L NL+ +NL          I       L     L   +L  N +    P SF
Sbjct: 176 ISEGAFEGLSNLRYLNLA---MCNLREI-----PNLTPLIKLDELDLSGNHLSAIRPGSF 227

Query: 226 -------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
                  +L +  +++   +    F NL  +    +  N LT
Sbjct: 228 QGLMHLQKLWMIQSQIQ-VIERNAFDNLQSLVEINLAHNNLT 268

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 67.4 bits (165), Expect = 6e-13
 Identities = 44/282 (15%), Positives = 94/282 (33%), Gaps = 39/282 (13%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + N + + F  + +  +    L +   ++ L+L+   +  +D +   +    ++ L + +
Sbjct: 44  LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYA-FAYAHTIQKLYMGF 102

Query: 61  VNLS-IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
             +  +          +  L  L L    L         N   LT L +S+N      I 
Sbjct: 103 NAIRYLPPHVF---QNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNL--ERIE 157

Query: 120 SWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLK 178
              F   + L  L L  N     +DL  + +L      ++S N      +        ++
Sbjct: 158 DDTFQATTSLQNLQLSSNRLT-HVDLSLIPSLF---HANVSYN-----LLSTLAIPIAVE 208

Query: 179 SINLQE-SLDMRSSSIYGHLT------------DQLGQFRNLVTFNLVNNSIVGFIPWSF 225
            ++    S+++    +   LT              L  +  LV  +L  N +   +   F
Sbjct: 209 ELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPF 268

Query: 226 -------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
                   L+I +N+L      L+   +  +    +  N L 
Sbjct: 269 VKMQRLERLYISNNRL--VALNLYGQPIPTLKVLDLSHNHLL 308

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 63.9 bits (156), Expect = 7e-12
 Identities = 54/257 (21%), Positives = 86/257 (33%), Gaps = 44/257 (17%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
              L  L+ S   +  I        ++LQ L LSS  L +VD    LS I  L H ++ Y
Sbjct: 140 TPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD----LSLIPSLFHANVSY 195

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
             LS            +++ EL  S+  +             LT+L L HN   +    +
Sbjct: 196 NLLS-------TLAIPIAVEELDASHNSINVVRGPV---NVELTILKLQHNNLTD---TA 242

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSI 180
           W+     L  +DL +N  +  I       +  + RL +S N  L         +  LK +
Sbjct: 243 WLLNYPGLVEVDLSYNELE-KIMYHPFVKMQRLERLYIS-NNRLVALNLYGQPIPTLKVL 300

Query: 181 NLQ-----------------ESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSI-----V 218
           +L                  E+L +  +SI    T +L     L    L +N        
Sbjct: 301 DLSHNHLLHVERNQPQFDRLENLYLDHNSIV---TLKLSTHHTLKNLTLSHNDWDCNSLR 357

Query: 219 GFIPWSFELHIYDNKLN 235
                     + D   +
Sbjct: 358 ALFRNVARPAVDDADQH 374

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 52.7 bits (127), Expect = 4e-08
 Identities = 37/229 (16%), Positives = 79/229 (34%), Gaps = 39/229 (17%)

Query: 55  HLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD 114
           H+D++  ++   F+ +     L +   +   N  ++        +F  + +L+L+  Q  
Sbjct: 27  HIDMQTQDVYFGFEDI----TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQI- 81

Query: 115 NSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN--TGLTGRIPRS 171
              I ++ FA    +  L +GFN  +  +      N+  +  L L  N  + L   I  +
Sbjct: 82  -EEIDTYAFAYAHTIQKLYMGFNAIR-YLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHN 139

Query: 172 MALCNLKSINLQ------------------ESLDMRSSSIYGHLTDQLGQFRNLVTFNLV 213
                L ++++                   ++L + S+ +       L    +L   N+ 
Sbjct: 140 --TPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL---THVDLSLIPSLFHANVS 194

Query: 214 NNSIVGFIPWSF--ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
            N +          EL    N +N  +       L  +    +  N LT
Sbjct: 195 YNLLSTLAIPIAVEELDASHNSIN-VVRGPVNVELTILK---LQHNNLT 239

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 65.6 bits (160), Expect = 2e-12
 Identities = 38/166 (22%), Positives = 62/166 (37%), Gaps = 15/166 (9%)

Query: 3   NLRYLNFSKTRICGIIPQQ-LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV 61
               L+ S   +  +  +     L+NL  L LS  +L ++ +  +   +  L +LDL   
Sbjct: 40  YTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAF-VPVPNLRYLDLSSN 98

Query: 62  NLSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN-- 115
           +L       F        L +L  L L N  +      A  + + L  L LS NQ     
Sbjct: 99  HLHTLDEFLFS------DLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFP 152

Query: 116 SFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
             ++     L  L  LDL  N  +  + L  L  L +  +  L L+
Sbjct: 153 VELIKDGNKLPKLMLLDLSSNKLK-KLPLTDLQKLPAWVKNGLYLH 197

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 59.1 bits (143), Expect = 3e-10
 Identities = 33/144 (22%), Positives = 52/144 (36%), Gaps = 17/144 (11%)

Query: 26  SNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSI----AFDWLMVANKLLSLVE 81
           S    LDLS   L  +      + ++ L  L L + +L+     AF        + +L  
Sbjct: 39  SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFV------PVPNLRY 92

Query: 82  LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQG 140
           L LS+  L         +  +L +L L +N      +    F  ++ L  L L  N    
Sbjct: 93  LDLSSNHLHTLDEFLFSDLQALEVLLLYNNHI--VVVDRNAFEDMAQLQKLYLSQNQIS- 149

Query: 141 TIDLEA---LGNLTSINRLDLSLN 161
              +E       L  +  LDLS N
Sbjct: 150 RFPVELIKDGNKLPKLMLLDLSSN 173

>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} Length = 597

 Score = 66.1 bits (161), Expect = 2e-12
 Identities = 45/285 (15%), Positives = 94/285 (32%), Gaps = 45/285 (15%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + N + + F  + +  +    L +   ++ L+L+   +  +D +   +    ++ L + +
Sbjct: 50  LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYA-FAYAHTIQKLYMGF 108

Query: 61  VNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS 116
             +       F        +  L  L L    L         N   LT L +S+N     
Sbjct: 109 NAIRYLPPHVFQ------NVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNL--E 160

Query: 117 FILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALC 175
            I    F   + L  L L  N     +DL  + +L      ++S N      +       
Sbjct: 161 RIEDDTFQATTSLQNLQLSSNRLT-HVDLSLIPSLF---HANVSYN-----LLSTLAIPI 211

Query: 176 NLKSINLQE-SLDMRSSSIYGHLT------------DQLGQFRNLVTFNLVNNSIVGFIP 222
            ++ ++    S+++    +   LT              L  +  LV  +L  N +   + 
Sbjct: 212 AVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMY 271

Query: 223 WSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
             F        L+I +N+L      L+   +  +    +  N L 
Sbjct: 272 HPFVKMQRLERLYISNNRL--VALNLYGQPIPTLKVLDLSHNHLL 314

>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} Length = 597

 Score = 55.7 bits (134), Expect = 5e-09
 Identities = 48/246 (19%), Positives = 85/246 (34%), Gaps = 36/246 (14%)

Query: 24  NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSI----AFDWLMVANKLLSL 79
            L+N + +   +  +  +   L L     +E L+L  + +      AF          ++
Sbjct: 49  TLNNQKIVTFKNSTMRKLPAAL-LDSFRQVELLNLNDLQIEEIDTYAFA------YAHTI 101

Query: 80  VELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNF 138
            +L +    +++  P    N   LT+L L  N    S +   +F     L  L +  NN 
Sbjct: 102 QKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDL--SSLPRGIFHNTPKLTTLSMSNNNL 159

Query: 139 QGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLT 198
           +  I+ +     TS+  L LS N  LT  +  S  + +L   N+           Y  L+
Sbjct: 160 E-RIEDDTFQATTSLQNLQLSSN-RLT-HVDLS-LIPSLFHANVS----------YNLLS 205

Query: 199 DQLGQFRNLVTFNLVNNSIVGFIPWSF----ELHIYDNKLNVTLFELHFANLIEMSWFRV 254
             L     +   +  +NSI             L +  N L  T       N   +    +
Sbjct: 206 -TLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDT---AWLLNYPGLVEVDL 261

Query: 255 GGNQLT 260
             N+L 
Sbjct: 262 SYNELE 267

>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} Length = 597

 Score = 52.2 bits (125), Expect = 8e-08
 Identities = 37/229 (16%), Positives = 82/229 (35%), Gaps = 39/229 (17%)

Query: 55  HLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD 114
           H+D++  ++   F+ +     L +   +   N  ++        +F  + +L+L+  Q  
Sbjct: 33  HIDMQTQDVYFGFEDI----TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQI- 87

Query: 115 NSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN--TGLTGRIPRS 171
              I ++ FA    +  L +GFN  +  +      N+  +  L L  N  + L   I  +
Sbjct: 88  -EEIDTYAFAYAHTIQKLYMGFNAIR-YLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHN 145

Query: 172 MALCNLKSINLQ------------------ESLDMRSSSIYGHLTDQLGQFRNLVTFNLV 213
                L ++++                   ++L + S+ +       L    +L   N+ 
Sbjct: 146 --TPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL---THVDLSLIPSLFHANVS 200

Query: 214 NNSIVGFIPWSF--ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
            N +          EL    N +N     +     +E++  ++  N LT
Sbjct: 201 YNLLSTLAIPIAVEELDASHNSIN----VVRGPVNVELTILKLQHNNLT 245

>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} Length = 597

 Score = 47.6 bits (113), Expect = 3e-06
 Identities = 32/159 (20%), Positives = 56/159 (35%), Gaps = 17/159 (10%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           +L + N S   +       L     ++ LD S   +  V   + +     L  L L++ N
Sbjct: 193 SLFHANVSYNLL-----STLAIPIAVEELDASHNSINVVRGPVNVE----LTILKLQHNN 243

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           L+              LVE+ LS  +L+       V    L  L +S+N+     +  + 
Sbjct: 244 LTD----TAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRL--VALNLYG 297

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
             +  L  LDL  N+    ++         +  L L  N
Sbjct: 298 QPIPTLKVLDLSHNHLL-HVE-RNQPQFDRLENLYLDHN 334

>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} Length = 597

 Score = 45.3 bits (107), Expect = 1e-05
 Identities = 24/198 (12%), Positives = 64/198 (32%), Gaps = 27/198 (13%)

Query: 74  NKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLD 132
                  ++ +       +     +  ++  ++   ++      + + +      +  L+
Sbjct: 24  QYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTM--RKLPAALLDSFRQVELLN 81

Query: 133 LGFNNFQGTIDLEALGNLTSINRLDLSLN--TGLTGRIPRSMALCNLKSINLQE-SLDMR 189
           L     +  ID  A     +I +L +  N    L   + ++  +  L  + L+   L   
Sbjct: 82  LNDLQIE-EIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQN--VPLLTVLVLERNDLSSL 138

Query: 190 SSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELH 242
              I+ +          L T ++ NN++      +F        L +  N+L      + 
Sbjct: 139 PRGIFHNTP-------KLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT----HVD 187

Query: 243 FANLIEMSWFRVGGNQLT 260
            + +  +    V  N L+
Sbjct: 188 LSLIPSLFHANVSYNLLS 205

>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 Length = 290

 Score = 64.0 bits (156), Expect = 4e-12
 Identities = 32/163 (19%), Positives = 54/163 (33%), Gaps = 16/163 (9%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY-- 60
           +   L+ S+  +       L   + L  L+L    L  +        + +L  LDL +  
Sbjct: 32  DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVD---GTLPVLGTLDLSHNQ 88

Query: 61  -VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
             +L +          L +L  L +S  +L      A      L  L L  N+     + 
Sbjct: 89  LQSLPLLGQ------TLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNEL--KTLP 140

Query: 120 SWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
             +      L  L L  NN    +    L  L +++ L L  N
Sbjct: 141 PGLLTPTPKLEKLSLANNNLT-ELPAGLLNGLENLDTLLLQEN 182

>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} Length = 328

 Score = 63.0 bits (154), Expect = 1e-11
 Identities = 43/245 (17%), Positives = 74/245 (30%), Gaps = 39/245 (15%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDN---------FLWLSGIS 51
                 L      +    P Q   LS+LQ + + +  L+ + +          L L+   
Sbjct: 80  QPGRVALELRSVPL-PQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNP 138

Query: 52  L------------LEHLDLRYVNLSIAF-------DWLMVANKLLSLVELRLSNCQLQHF 92
           L            L  L +R               D       L++L  LRL    ++  
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSL 198

Query: 93  SPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTS 152
            P +  N  +L  L + ++    S +   +  L  L  LDL              G    
Sbjct: 199 -PASIANLQNLKSLKIRNSPL--SALGPAIHHLPKLEELDLRGCTALRNY-PPIFGGRAP 254

Query: 153 INRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNL 212
           + RL L   + L   +P    +  L    L++ LD+R       L   + Q        +
Sbjct: 255 LKRLILKDCSNLL-TLPLD--IHRLT--QLEK-LDLRGCVNLSRLPSLIAQLPANCIILV 308

Query: 213 VNNSI 217
             +  
Sbjct: 309 PPHLQ 313

>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} Length = 328

 Score = 59.6 bits (145), Expect = 2e-10
 Identities = 41/238 (17%), Positives = 78/238 (32%), Gaps = 33/238 (13%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           +   +    +          +  N +N Q    + + L    + L  +       L+LR 
Sbjct: 32  LSQWQRHYNADRNRW-HSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVALELRS 90

Query: 61  VNL-----SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN 115
           V L                +L  L  + +    L    P     F+ L  L L+ N    
Sbjct: 91  VPLPQFPDQAF--------RLSHLQHMTIDAAGLMEL-PDTMQQFAGLETLTLARNPL-- 139

Query: 116 SFILSWVFALSHLPFLDLGFNN--------FQGTIDLEALGNLTSINRLDLSLNTGLTGR 167
             + + + +L+ L  L +               T        L ++  L L   TG+   
Sbjct: 140 RALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLE-WTGIR-S 197

Query: 168 IPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF 225
           +P S  + NL+++   +SL +R+S +   L   +     L   +L   + +   P  F
Sbjct: 198 LPAS--IANLQNL---KSLKIRNSPL-SALGPAIHHLPKLEELDLRGCTALRNYPPIF 249

>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* Length = 276

 Score = 62.7 bits (153), Expect = 1e-11
 Identities = 42/166 (25%), Positives = 65/166 (39%), Gaps = 18/166 (10%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL--LYVDNFLWLSGISLLEHLDLRY 60
           + + L+ S   +  +      +   LQ LDLS   +  +    +  LS    L  L L  
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSH---LSTLILTG 85

Query: 61  VNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS 116
             +      AF        L SL +L      L         +  +L  L+++HN    S
Sbjct: 86  NPIQSLALGAFS------GLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLI-QS 138

Query: 117 FILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
           F L   F+ L++L  LDL  N  Q +I    L  L  +  L+LSL+
Sbjct: 139 FKLPEYFSNLTNLEHLDLSSNKIQ-SIYCTDLRVLHQMPLLNLSLD 183

>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* Length = 276

 Score = 43.8 bits (104), Expect = 2e-05
 Identities = 27/137 (19%), Positives = 50/137 (36%), Gaps = 25/137 (18%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           +L+ L   +T +  +    +G+L  L+ L+++   +       + S ++ LEHLDL    
Sbjct: 101 SLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK 160

Query: 63  LSI----AFDWL-----------MVANKL----------LSLVELRLSNCQLQHFSPLAT 97
           +          L           +  N +          + L EL L   QL+       
Sbjct: 161 IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIF 220

Query: 98  VNFSSLTMLDLSHNQFD 114
              +SL  + L  N +D
Sbjct: 221 DRLTSLQKIWLHTNPWD 237

>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* Length = 276

 Score = 41.5 bits (98), Expect = 2e-04
 Identities = 31/169 (18%), Positives = 58/169 (34%), Gaps = 41/169 (24%)

Query: 100 FSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL 158
             S   LDLS N      + S+ F     L  LDL     Q TI+  A  +L+ ++ L L
Sbjct: 27  PFSTKNLDLSFNPL--RHLGSYSFFSFPELQVLDLSRCEIQ-TIEDGAYQSLSHLSTLIL 83

Query: 159 SLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV 218
           + N               ++S+         +   +  L+       +L     V  ++ 
Sbjct: 84  TGN--------------PIQSL---------ALGAFSGLS-------SLQKLVAVETNLA 113

Query: 219 GFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
               +         EL++  N +       +F+NL  +    +  N++ 
Sbjct: 114 SLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQ 162

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 61.7 bits (150), Expect = 5e-11
 Identities = 31/190 (16%), Positives = 65/190 (34%), Gaps = 12/190 (6%)

Query: 2   GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV 61
           G+L +L+ S   +  +       LS+L FL+L       +      S ++ L+ L +   
Sbjct: 100 GSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGN- 158

Query: 62  NLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
             +           L  L EL +    LQ + P +  +  +++ L L   Q     +L  
Sbjct: 159 MDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQH--ILLLEI 216

Query: 122 VFA-LSHLPFLDLGFNNFQG-------TIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA 173
                S +  L+L   +          T +  +L    +   + ++  + L   +     
Sbjct: 217 FVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDES-LFQVMKLLNQ 275

Query: 174 LCNLKSINLQ 183
           +  L  +   
Sbjct: 276 ISGLLELEFS 285

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 54.7 bits (132), Expect = 9e-09
 Identities = 40/159 (25%), Positives = 59/159 (37%), Gaps = 27/159 (16%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
            ++ L+ S  RI  I    L    NLQ L L+S            +GI+ +E        
Sbjct: 53  AVKSLDLSNNRITYISNSDLQRCVNLQALVLTS------------NGINTIE-------- 92

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
              +F        L SL  L LS   L + S       SSLT L+L  N +      S  
Sbjct: 93  -EDSFS------SLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLF 145

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
             L+ L  L +G  +    I  +    LT +  L++  +
Sbjct: 146 SHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDAS 184

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 52.0 bits (125), Expect = 7e-08
 Identities = 29/149 (19%), Positives = 57/149 (38%), Gaps = 17/149 (11%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           +  L  L    + +    P+ L ++ N+  L L  K  + +     +   S +E L+LR 
Sbjct: 173 LTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIF-VDVTSSVECLELRD 231

Query: 61  VNL---------SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHN 111
            +L         +   + L+   K  +   +++++  L     L     S L  L+ S N
Sbjct: 232 TDLDTFHFSELSTGETNSLI---KKFTFRNVKITDESLFQVMKLLN-QISGLLELEFSRN 287

Query: 112 QFDNSFILSWVFA-LSHLPFLDLGFNNFQ 139
           Q     +   +F  L+ L  + L  N + 
Sbjct: 288 QL--KSVPDGIFDRLTSLQKIWLHTNPWD 314

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 58.4 bits (142), Expect = 1e-10
 Identities = 28/161 (17%), Positives = 62/161 (38%), Gaps = 12/161 (7%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           M +L Y+  +   +  +    +    N++ L +++ +    +    +SG+S LE L +  
Sbjct: 43  MNSLTYITLANINVTDLTG--IEYAHNIKDLTINNIHATNYNP---ISGLSNLERLRIMG 97

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
            +  +  D +   + L SL  L +S+                +  +DLS+N       + 
Sbjct: 98  KD--VTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITD--IM 153

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
            +  L  L  L++ F+      D   + +   +N+L     
Sbjct: 154 PLKTLPELKSLNIQFDGVH---DYRGIEDFPKLNQLYAFSQ 191

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 55.4 bits (134), Expect = 2e-09
 Identities = 26/159 (16%), Positives = 65/159 (40%), Gaps = 10/159 (6%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
             +                   +++L ++ L++  +  +     +     ++ L +  ++
Sbjct: 21  TFKAYLNGLLGQSSTANITEAQMNSLTYITLANINVTDLTG---IEYAHNIKDLTINNIH 77

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
            +   ++  ++  L +L  LR+    +           +SLT+LD+SH+  D+S IL+ +
Sbjct: 78  AT---NYNPISG-LSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDS-ILTKI 132

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
             L  +  +DL +N      D+  L  L  +  L++  +
Sbjct: 133 NTLPKVNSIDLSYNG--AITDIMPLKTLPELKSLNIQFD 169

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 53.8 bits (130), Expect = 6e-09
 Identities = 25/166 (15%), Positives = 62/166 (37%), Gaps = 18/166 (10%)

Query: 75  KLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLG 134
           ++ SL  + L+N  +   + +      ++  L +++    N    + +  LS+L  L + 
Sbjct: 42  QMNSLTYITLANINVTDLTGIE--YAHNIKDLTINNIHATN---YNPISGLSNLERLRIM 96

Query: 135 FNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIY 194
             +   +  +  L  LTS+  LD+S +      + +   L  + SI+L  +  +      
Sbjct: 97  GKDVT-SDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMPL 155

Query: 195 GHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLN 235
             L         L + N+  + +  +          +L+ +   + 
Sbjct: 156 KTLP-------ELKSLNIQFDGVHDYRGIEDFPKLNQLYAFSQTIG 194

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 53.8 bits (130), Expect = 7e-09
 Identities = 19/110 (17%), Positives = 33/110 (30%), Gaps = 6/110 (5%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           NL  L      +       L  L++L  LD+S            ++ +  +  +DL Y  
Sbjct: 89  NLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSI-LTKINTLPKVNSIDLSYNG 147

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQ 112
                  L     L  L  L +    +  +  +   +F  L  L      
Sbjct: 148 AITDIMPL---KTLPELKSLNIQFDGVHDYRGIE--DFPKLNQLYAFSQT 192

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 59.7 bits (145), Expect = 1e-10
 Identities = 34/174 (19%), Positives = 64/174 (36%), Gaps = 24/174 (13%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNF--------LWLSG----- 49
           N    N  K  +  ++      LS +Q  +  +  +  +           L LS      
Sbjct: 20  NAVKQNLGKQSVTDLVS--QKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISD 77

Query: 50  ISLLEHLD-LRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDL 108
           +S L+ L  L  ++++      +       L  L L N +L+    L   +  +L +L +
Sbjct: 78  LSPLKDLTKLEELSVNRNRLKNLNGIPSACLSRLFLDNNELRDTDSLI--HLKNLEILSI 135

Query: 109 SHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT 162
            +N+  +   +  +  LS L  LDL  N      +   L  L  +N +DL+   
Sbjct: 136 RNNKLKS---IVMLGFLSKLEVLDLHGNEIT---NTGGLTRLKKVNWIDLTGQK 183

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 50.4 bits (121), Expect = 2e-07
 Identities = 37/197 (18%), Positives = 76/197 (38%), Gaps = 26/197 (13%)

Query: 22  LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE 81
              L+N    +L  + +  + +      +S +++ +    N+      L       +L E
Sbjct: 15  DPGLANAVKQNLGKQSVTDLVS---QKELSGVQNFNGDNSNIQS----LAGMQFFTNLKE 67

Query: 82  LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGT 141
           L LS+ Q+   SPL   + + L  L ++ N+  N   +      + L  L L  N  +  
Sbjct: 68  LHLSHNQISDLSPLK--DLTKLEELSVNRNRLKNLNGIP----SACLSRLFLDNNELR-- 119

Query: 142 IDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQL 201
            D ++L +L ++  L +  N     ++   + L  L  +   E LD+  + I       L
Sbjct: 120 -DTDSLIHLKNLEILSIRNN-----KLKSIVMLGFLSKL---EVLDLHGNEITNT--GGL 168

Query: 202 GQFRNLVTFNLVNNSIV 218
            + + +   +L     V
Sbjct: 169 TRLKKVNWIDLTGQKCV 185

>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 Length = 291

 Score = 59.3 bits (144), Expect = 2e-10
 Identities = 41/233 (17%), Positives = 79/233 (33%), Gaps = 27/233 (11%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
                N  K  +   +      L+++  +  ++  +  V     +  +  +  L L    
Sbjct: 25  ETIKDNLKKKSVTDAVT--QNELNSIDQIIANNSDIKSVQG---IQYLPNVTKLFLNGNK 79

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           L+     +     L +L  L L   +++  S L   +   L  L L HN   +   ++ +
Sbjct: 80  LTD----IKPLANLKNLGWLFLDENKVKDLSSLK--DLKKLKSLSLEHNGISD---INGL 130

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
             L  L  L LG N      D+  L  LT ++ L L  N     +I   + L  L  +  
Sbjct: 131 VHLPQLESLYLGNNKIT---DITVLSRLTKLDTLSLEDN-----QISDIVPLAGLTKL-- 180

Query: 183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLN 235
            ++L +  + I       L   +NL    L +   +          +  N + 
Sbjct: 181 -QNLYLSKNHI--SDLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVK 230

>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 Length = 291

 Score = 57.8 bits (140), Expect = 6e-10
 Identities = 42/180 (23%), Positives = 71/180 (39%), Gaps = 17/180 (9%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           N+  L  +  ++  I P  L NL NL +L L    +  + +   L  +  L+ L L +  
Sbjct: 69  NVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENKVKDLSS---LKDLKKLKSLSLEHNG 123

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           +S     +     L  L  L L N ++   + L+    + L  L L  NQ  +   +  +
Sbjct: 124 ISD----INGLVHLPQLESLYLGNNKITDITVLS--RLTKLDTLSLEDNQISD---IVPL 174

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
             L+ L  L L  N+     DL AL  L +++ L+L     L   I     L    ++  
Sbjct: 175 AGLTKLQNLYLSKNHIS---DLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKN 231

>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 Length = 291

 Score = 51.6 bits (124), Expect = 7e-08
 Identities = 37/198 (18%), Positives = 67/198 (33%), Gaps = 29/198 (14%)

Query: 22  LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE 81
               +     +L  K +         + ++ ++ +     ++      +     L ++ +
Sbjct: 20  DDAFAETIKDNLKKKSVTDAVT---QNELNSIDQIIANNSDIKS----VQGIQYLPNVTK 72

Query: 82  LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGT 141
           L L+  +L    PLA  N  +L  L L  N+  +   L     L  L  L L  N     
Sbjct: 73  LFLNGNKLTDIKPLA--NLKNLGWLFLDENKVKDLSSLK---DLKKLKSLSLEHNGIS-- 125

Query: 142 IDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTD-- 199
            D+  L +L  +  L L  N     +I     L  L  +   ++L +  + I    +D  
Sbjct: 126 -DINGLVHLPQLESLYLGNN-----KITDITVLSRLTKL---DTLSLEDNQI----SDIV 172

Query: 200 QLGQFRNLVTFNLVNNSI 217
            L     L    L  N I
Sbjct: 173 PLAGLTKLQNLYLSKNHI 190

>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} Length = 520

 Score = 59.9 bits (145), Expect = 3e-10
 Identities = 33/162 (20%), Positives = 64/162 (39%), Gaps = 7/162 (4%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDN-FLWLSGISLLEHLDLR 59
           +    +L+FS   +   + +  G+L+ L+ L L    L  +       + +  L+ LD+ 
Sbjct: 323 ISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDIS 382

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
             ++S         +   SL+ L +S+  L             + +LDL  N+     I 
Sbjct: 383 QNSVSYDEKKG-DCSWTKSLLSLNMSSNILTDTIF--RCLPPRIKVLDLHSNKI--KSIP 437

Query: 120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
             V  L  L  L++  N  + ++       LTS+ ++ L  N
Sbjct: 438 KQVVKLEALQELNVASNQLK-SVPDGIFDRLTSLQKIWLHTN 478

>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} Length = 520

 Score = 54.1 bits (130), Expect = 2e-08
 Identities = 49/249 (19%), Positives = 85/249 (34%), Gaps = 18/249 (7%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
               LN S+  I  +    + +LS L+ L +S   + Y+D  +       LE+LDL +  
Sbjct: 22  KTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISV-FKFNQELEYLDLSHNK 80

Query: 63  L-SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLAT-VNFSSLTMLDLSHNQFDNSFILS 120
           L  I+    +      +L  L LS              N S L  L LS    + S +L 
Sbjct: 81  LVKISCHPTV------NLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVL- 133

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSI 180
               ++HL    +     +   + E    L   N   L +           + +      
Sbjct: 134 ---PIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVA 190

Query: 181 NLQES---LDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVT 237
           NL+ S     +  +     L+       N    NL  N+I     W+  + I     + T
Sbjct: 191 NLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNI--ETTWNSFIRILQLVWHTT 248

Query: 238 LFELHFANL 246
           ++    +N+
Sbjct: 249 VWYFSISNV 257

>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} Length = 520

 Score = 44.9 bits (106), Expect = 2e-05
 Identities = 26/116 (22%), Positives = 50/116 (43%), Gaps = 9/116 (7%)

Query: 1   MGNLRYLNFSKTRICGIIPQQL-GNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLR 59
           M +L+ L+ S+  +     +       +L  L++SS  L    + ++      ++ LDL 
Sbjct: 373 MKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILT---DTIFRCLPPRIKVLDLH 429

Query: 60  YVNL-SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD 114
              + SI    +    KL +L EL +++ QL+          +SL  + L  N +D
Sbjct: 430 SNKIKSIPKQVV----KLEALQELNVASNQLKSVPDGIFDRLTSLQKIWLHTNPWD 481

>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} Length = 520

 Score = 44.5 bits (105), Expect = 2e-05
 Identities = 27/262 (10%), Positives = 71/262 (27%), Gaps = 49/262 (18%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
                ++  + +  +      +   L  ++ +    + +   +W + +      +++   
Sbjct: 202 EDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQG 261

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
                D+      L +L   ++ +             FS++ + + + +      +    
Sbjct: 262 QLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSG--TRMVHMLC 319

Query: 123 F-ALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
              +S    LD   N        E  G+LT +  L L +N               LK   
Sbjct: 320 PSKISPFLHLDFSNNLLT-DTVFENCGHLTELETLILQMN--------------QLKE-- 362

Query: 182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFEL 241
                          L+        + +                +L I  N ++    + 
Sbjct: 363 ---------------LSKIAEMTTQMKSLQ--------------QLDISQNSVSYDEKKG 393

Query: 242 HFANLIEMSWFRVGGNQLTLEV 263
             +    +    +  N LT  +
Sbjct: 394 DCSWTKSLLSLNMSSNILTDTI 415

>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* Length = 455

 Score = 59.4 bits (144), Expect = 3e-10
 Identities = 38/241 (15%), Positives = 80/241 (33%), Gaps = 14/241 (5%)

Query: 26  SNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLS 85
           +++ ++DLS   +  ++     S +  L+ L +      +          L SL+ L+L 
Sbjct: 30  AHVNYVDLSLNSIAELNETS-FSRLQDLQFLKVEQQTPGLVIR-NNTFRGLSSLIILKLD 87

Query: 86  NCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDL 144
             Q       A    ++L +L L+    D + +    F  L+ L  L L  NN +     
Sbjct: 88  YNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPA 147

Query: 145 EALGNLTSINRLDLSLN--TGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLG 202
               N+   + LDL+ N    +      +    +   + L  S+ ++  + Y    ++ G
Sbjct: 148 SFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLS-SITLQDMNEYWLGWEKCG 206

Query: 203 QFRNLVTF---NLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQL 259
                 +    +L  N     +   F      + +  T  +    +         G    
Sbjct: 207 NPFKNTSITTLDLSGNGFKESMAKRF-----FDAIAGTKIQSLILSNSYNMGSSFGHTNF 261

Query: 260 T 260
            
Sbjct: 262 K 262

>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* Length = 455

 Score = 50.5 bits (121), Expect = 2e-07
 Identities = 31/172 (18%), Positives = 56/172 (32%), Gaps = 16/172 (9%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL--LYVDNFLWLSGISLLEHLDLRY 60
           ++   + ++  +           +++  LDLS           F      + ++ L L  
Sbjct: 189 SITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSN 248

Query: 61  VNLSIAFDWLMVANKL----------LSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSH 110
                +                      +    LS  ++         +F+ L  L L+ 
Sbjct: 249 SYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQ 308

Query: 111 NQFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
           N+   + I    F  L+HL  L+L  N    +ID     NL  +  LDLS N
Sbjct: 309 NEI--NKIDDNAFWGLTHLLKLNLSQNFLG-SIDSRMFENLDKLEVLDLSYN 357

>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* Length = 455

 Score = 49.4 bits (118), Expect = 5e-07
 Identities = 31/118 (26%), Positives = 47/118 (39%), Gaps = 15/118 (12%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL--LYVDNFLWLSGISLLEHLDLRY 60
           +L  L  ++  I  I       L++L  L+LS  +L  +    F  L     LE LDL Y
Sbjct: 300 DLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDK---LEVLDLSY 356

Query: 61  VNLSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD 114
            ++      +F        L +L EL L   QL+          +SL  + L  N +D
Sbjct: 357 NHIRALGDQSFL------GLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWD 408

>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* Length = 455

 Score = 47.4 bits (113), Expect = 3e-06
 Identities = 35/143 (24%), Positives = 54/143 (37%), Gaps = 19/143 (13%)

Query: 26  SNLQFLDLSSKYLLYVDN--FLWLSGISLLEHLDLRYVNLSI----AFDWLMVANKLLSL 79
           S ++  DLS   +  +    F   +    LE L L    ++     AF        L  L
Sbjct: 275 SGVKTCDLSKSKIFALLKSVFSHFTD---LEQLTLAQNEINKIDDNAFW------GLTHL 325

Query: 80  VELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFNNF 138
           ++L LS   L         N   L +LDLS+N      +    F  L +L  L L  N  
Sbjct: 326 LKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHI--RALGDQSFLGLPNLKELALDTNQL 383

Query: 139 QGTIDLEALGNLTSINRLDLSLN 161
           + ++       LTS+ ++ L  N
Sbjct: 384 K-SVPDGIFDRLTSLQKIWLHTN 405

>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 Length = 308

 Score = 55.8 bits (135), Expect = 3e-09
 Identities = 48/265 (18%), Positives = 89/265 (33%), Gaps = 57/265 (21%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           N   +   K+ +   +     +L  +  L                 G++ +E +      
Sbjct: 20  NAIKIAAGKSNVTDTVT--QADLDGITTLSAFGT------------GVTTIEGVQ----- 60

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
                        L +L+ L L + Q+   +PL   N + +T L+LS N   N   ++  
Sbjct: 61  ------------YLNNLIGLELKDNQITDLAPLK--NLTKITELELSGNPLKNVSAIA-- 104

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
             L  +  LDL          L  L NL     L L LN     +I     L  L ++  
Sbjct: 105 -GLQSIKTLDLTSTQITDVTPLAGLSNLQV---LYLDLN-----QITNISPLAGLTNL-- 153

Query: 183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWS-----FELHIYDNKLNVT 237
            + L + ++ +       L     L T    +N I    P +      E+H+ +N+++  
Sbjct: 154 -QYLSIGNAQVSD--LTPLANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQISD- 209

Query: 238 LFELHFANLIEMSWFRVGGNQLTLE 262
                 AN   +    +    +T +
Sbjct: 210 --VSPLANTSNLFIVTLTNQTITNQ 232

>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 Length = 308

 Score = 48.5 bits (116), Expect = 9e-07
 Identities = 36/162 (22%), Positives = 68/162 (41%), Gaps = 15/162 (9%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + NL+ L     +I  I P  L  L+NLQ+L + +  +  +     L+ +S L  L    
Sbjct: 128 LSNLQVLYLDLNQITNISP--LAGLTNLQYLSIGNAQVSDLTP---LANLSKLTTLKADD 182

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
             +S     +     L +L+E+ L N Q+   SPLA  N S+L ++ L++    N  +  
Sbjct: 183 NKISD----ISPLASLPNLIEVHLKNNQISDVSPLA--NTSNLFIVTLTNQTITNQPVF- 235

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT 162
                ++L   ++        I    + +  +    +L+ N 
Sbjct: 236 ---YNNNLVVPNVVKGPSGAPIAPATISDNGTYASPNLTWNL 274

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 56.4 bits (136), Expect = 3e-09
 Identities = 47/263 (17%), Positives = 81/263 (30%), Gaps = 50/263 (19%)

Query: 2   GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV 61
             LR L  S  ++   +P     L  L        +L  +         S L  L +   
Sbjct: 81  PELRTLEVSGNQL-TSLPVLPPGLLELSIFSNPLTHLPAL--------PSGLCKLWIFGN 131

Query: 62  NLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
            L+       +      L EL +S+ QL     L     S L  L   +NQ  +  +L  
Sbjct: 132 QLT------SLPVLPPGLQELSVSDNQLASLPAL----PSELCKLWAYNNQLTSLPML-- 179

Query: 122 VFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
               S L  L +  N    ++       L  +   +  L +     +P       LK + 
Sbjct: 180 ---PSGLQELSVSDNQLA-SLP-TLPSELYKLWAYNNRLTS-----LPAL--PSGLKELI 227

Query: 182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF----ELHIYDNKLNVT 237
           +  +           L     + + L    +  N +   +P        L +Y N+L  T
Sbjct: 228 VSGNR-------LTSLPVLPSELKEL---MVSGNRLTS-LPMLPSGLLSLSVYRNQL--T 274

Query: 238 LFELHFANLIEMSWFRVGGNQLT 260
                  +L   +   + GN L+
Sbjct: 275 RLPESLIHLSSETTVNLEGNPLS 297

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 46.0 bits (109), Expect = 7e-06
 Identities = 40/250 (16%), Positives = 72/250 (28%), Gaps = 48/250 (19%)

Query: 25  LSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRL 84
            +    L++    L  + + L     + +  L +   NL+       +      L  L +
Sbjct: 39  NNGNAVLNVGESGLTTLPDCLP----AHITTLVIPDNNLTS------LPALPPELRTLEV 88

Query: 85  SNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDL 144
           S  QL    P+       L++                    S L  L +  N       L
Sbjct: 89  SGNQLTSL-PVLPPGLLELSIFSNPLTHLPAL--------PSGLCKLWIFGNQLTSLPVL 139

Query: 145 EALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQ--------------ESLDMRS 190
                L  ++  D  L +     +P       L  +                 + L +  
Sbjct: 140 --PPGLQELSVSDNQLAS-----LPAL--PSELCKLWAYNNQLTSLPMLPSGLQELSVSD 190

Query: 191 SSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMS 250
           + +   L     +   L  +N    S+        EL +  N+L  +L  L      E+ 
Sbjct: 191 NQL-ASLPTLPSELYKLWAYNNRLTSLPALPSGLKELIVSGNRLT-SLPVL----PSELK 244

Query: 251 WFRVGGNQLT 260
              V GN+LT
Sbjct: 245 ELMVSGNRLT 254

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 55.3 bits (133), Expect = 4e-09
 Identities = 43/193 (22%), Positives = 62/193 (32%), Gaps = 14/193 (7%)

Query: 3   NLRYLNFSKTRICGIIPQQ---LGNLSNLQFLDLSSKYLLYVDNFLWLSGISL-LEHLDL 58
           +L+ L     RI   I      +  +S LQ L L +  +        L      L  L+L
Sbjct: 69  SLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNL 128

Query: 59  RYVNLSIAFDWL--MVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS 116
           R V+ +    WL  +       L  L ++     +FS      F +L+ LDLS N     
Sbjct: 129 RNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGE 188

Query: 117 FILSWVF---ALSHLPFLDLGFNNFQ--GTIDLEALGNLTSINRLDLSLNTGLTGRIPRS 171
             L           L  L L     +    +          +  LDLS N  L       
Sbjct: 189 RGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHN-SLRDAAGAP 247

Query: 172 MALC--NLKSINL 182
                  L S+NL
Sbjct: 248 SCDWPSQLNSLNL 260

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 41.4 bits (97), Expect = 2e-04
 Identities = 34/233 (14%), Positives = 61/233 (26%), Gaps = 22/233 (9%)

Query: 46  WLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQL---QHFSPLATVNFSS 102
              G   LE+L L+ V+            K LSL  L +   ++     F  L  +  S 
Sbjct: 38  LYGGGRSLEYL-LKRVDTEADLGQFTDIIKSLSLKRLTVRAARIPSRILFGALRVLGISG 96

Query: 103 LTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNL-----TSINRLD 157
           L  L L + +   +         +      L   N         L  L       +  L 
Sbjct: 97  LQELTLENLEVTGTAPPPL-LEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLS 155

Query: 158 LSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNN-- 215
           ++    L     +      L +++L ++                 +F  L    L N   
Sbjct: 156 IAQAHSLNFSCEQVRVFPALSTLDLSDNP--ELGERGLISALCPLKFPTLQVLALRNAGM 213

Query: 216 -SIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
            +  G              L +  N L             +++   +    L 
Sbjct: 214 ETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLK 266

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 55.7 bits (134), Expect = 5e-09
 Identities = 43/274 (15%), Positives = 83/274 (30%), Gaps = 37/274 (13%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
               L  ++  +   +P  L     +  L+++   L+ +         + LE+LD     
Sbjct: 60  QFSELQLNRLNLS-SLPDNLP--PQITVLEITQNALISLPE-----LPASLEYLDACDNR 111

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           LS       +     SL  L + N QL     L     + L  ++  +NQ     +    
Sbjct: 112 LST------LPELPASLKHLDVDNNQLTMLPEL----PALLEYINADNNQ-----LTMLP 156

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
              + L  L +  N      +L    +L     LD+S    L   +P         S   
Sbjct: 157 ELPTSLEVLSVRNNQLTFLPEL--PESLE---ALDVS-TNLLE-SLPAVPVRN-HHSEET 208

Query: 183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELH 242
           +     R + I  H+ + +       T  L +N +   I  S          +       
Sbjct: 209 EIFFRCRENRI-THIPENILSLDPTCTIILEDNPLSSRIRESLSQQTAQPDYHGPRIYFS 267

Query: 243 FANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVAL 276
            ++  + +  R        +    W P  +   +
Sbjct: 268 MSDGQQNTLHRPLA-----DAVTAWFPENKQSDV 296

>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 = 54.8 bits (132), Expect = 8e-09
 Identities = 36/188 (19%), Positives = 63/188 (33%), Gaps = 35/188 (18%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           N   L F  T++  I         +L+ +++S   +L V      S +  L  + +   N
Sbjct: 31  NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKAN 90

Query: 63  L-----SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQF---- 113
                   AF        L +L  L +SN  ++H   +  ++     +LD+  N      
Sbjct: 91  NLLYINPEAFQ------NLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTI 144

Query: 114 -DNSF-------------------ILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSI 153
             NSF                   I +  F  + L  L+L  NN    +  +     +  
Sbjct: 145 ERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGP 204

Query: 154 NRLDLSLN 161
             LD+S  
Sbjct: 205 VILDISRT 212

>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 = 47.5 bits (113), Expect = 2e-06
 Identities = 33/184 (17%), Positives = 54/184 (29%), Gaps = 33/184 (17%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + NL+YL  S T I  +      +      LD+        DN      I  +E      
Sbjct: 103 LPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQ-------DN----INIHTIERN---- 147

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
                +F  L         V L L+   +Q     A        +    +N  +   + +
Sbjct: 148 -----SFVGLSF-----ESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEE--LPN 195

Query: 121 WVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
            VF   S    LD+       ++    L NL  +             ++P    L  L  
Sbjct: 196 DVFHGASGPVILDISRTRIH-SLPSYGLENLKKLRARSTYNLK----KLPTLEKLVALME 250

Query: 180 INLQ 183
            +L 
Sbjct: 251 ASLT 254

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 53.5 bits (129), Expect = 2e-08
 Identities = 43/269 (15%), Positives = 79/269 (29%), Gaps = 34/269 (12%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
            L YLN    ++  +    +     L +L+ +   L  +D    +S  + L  LD     
Sbjct: 107 KLTYLNCDTNKLTKL---DVSQNPLLTYLNCARNTLTEID----VSHNTQLTELDCHLNK 159

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
                D          L  L  S  ++             L  L+   N       L+  
Sbjct: 160 KITKLD----VTPQTQLTTLDCSFNKITELDVS---QNKLLNRLNCDTNNI-TKLDLN-- 209

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTS-------INRLDLSLNTGLTGRIPRSMALC 175
                L FLD   N     ID+  L  LT        +  LD+S  + LT        L 
Sbjct: 210 -QNIQLTFLDCSSNKLT-EIDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQTDLL 267

Query: 176 NLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSI----VGFIPWSFELHIYD 231
            +   +  + +  ++          +     L   +     I    +   P    L++ +
Sbjct: 268 EIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNN 327

Query: 232 NKLNVTLFELHFANLIEMSWFRVGGNQLT 260
            +L     EL  ++  ++         + 
Sbjct: 328 TELT----ELDVSHNTKLKSLSCVNAHIQ 352

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 50.1 bits (120), Expect = 3e-07
 Identities = 45/264 (17%), Positives = 85/264 (32%), Gaps = 42/264 (15%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           N      +   +          L+ L  LD  +  +  +        ++ L  L     N
Sbjct: 19  NFASEVAAAFEMQATDTISEEQLATLTSLDCHNSSITDMTGI---EKLTGLTKLICTSNN 75

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           ++   D     ++  +L  L   + +L +         + LT L+   N+     +    
Sbjct: 76  IT-TLDL----SQNTNLTYLACDSNKLTNLDVT---PLTKLTYLNCDTNKLTKLDVSQ-- 125

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
                L +L+   N     ID+     LT    LD  LN  +T           L +++ 
Sbjct: 126 --NPLLTYLNCARNTLT-EIDVSHNTQLTE---LDCHLNKKIT--KLDVTPQTQLTTLDC 177

Query: 183 QESLDMRSSSIYGHLTD-QLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLNV 236
                      +  +T+  + Q + L   N   N+I   +  +       L    NKL  
Sbjct: 178 S----------FNKITELDVSQNKLLNRLNCDTNNITK-LDLNQNIQLTFLDCSSNKLT- 225

Query: 237 TLFELHFANLIEMSWFRVGGNQLT 260
              E+    L ++++F    N LT
Sbjct: 226 ---EIDVTPLTQLTYFDCSVNPLT 246

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 54/279 (19%), Positives = 90/279 (32%), Gaps = 41/279 (14%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
            L  L+    +   I    +   + L  LD S   +  +D    +S   LL  L+    N
Sbjct: 149 QLTELDCHLNKK--ITKLDVTPQTQLTTLDCSFNKITELD----VSQNKLLNRLNCDTNN 202

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           ++      +  N+ + L  L  S+ +L           + LT  D S N       +S  
Sbjct: 203 ITK-----LDLNQNIQLTFLDCSSNKLTEIDVT---PLTQLTYFDCSVNPL-TELDVS-- 251

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTS--------INRLDLSLNTGLTGRIPRSMAL 174
             LS L  L     +    IDL     L          I  LD++ NT L          
Sbjct: 252 -TLSKLTTLHCIQTDLL-EIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLL---DCQA 306

Query: 175 CNLKSINLQESLDMRSSSIYG-HLTD-QLGQFRNLVTFNLVNNSI-----VGFIPWSFEL 227
             +  ++L ++  +    +    LT+  +     L + + VN  I     VG IP     
Sbjct: 307 AGITELDLSQNPKLVYLYLNNTELTELDVSHNTKLKSLSCVNAHIQDFSSVGKIPALNNN 366

Query: 228 HIYDNKL----NVTLFELHFANLIEMSWFRVGGNQLTLE 262
              + +       TL        +        GN + +E
Sbjct: 367 FEAEGQTITMPKETLTNNSLTIAVSPDLLDQFGNPMNIE 405

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 51.9 bits (125), Expect = 5e-08
 Identities = 42/166 (25%), Positives = 69/166 (41%), Gaps = 19/166 (11%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL--LYVDNFLWLSGISLLEHLDLRY 60
           + + L+    ++  +  +    L+ L+ L L+   L  L    F  L     LE L +  
Sbjct: 38  DTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKN---LETLWVTD 94

Query: 61  VNL-SI---AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS 116
             L ++    FD      +L++L ELRL   QL+   P    + + LT L L +N+  + 
Sbjct: 95  NKLQALPIGVFD------QLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQS- 147

Query: 117 FILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
            +   VF  L+ L  L L  N  +  +   A   LT +  L L  N
Sbjct: 148 -LPKGVFDKLTSLKELRLYNNQLK-RVPEGAFDKLTELKTLKLDNN 191

>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} Length = 562

 Score = 52.6 bits (126), Expect = 6e-08
 Identities = 42/165 (25%), Positives = 66/165 (40%), Gaps = 13/165 (7%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDN-FLWLSGISLLEHLDLR 59
             +  +LNF++      + Q    L  LQ L L    L       L    +S LE LD+ 
Sbjct: 352 PSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVS 411

Query: 60  YVNL-SIAFDWLMVANKLLSLVELRLSNCQLQH--FSPLATVNFSSLTMLDLSHNQFDNS 116
             +L S A+D         S++ L LS+  L    F  L       + +LDL +N+  + 
Sbjct: 412 LNSLNSHAYDRT--CAWAESILVLNLSSNMLTGSVFRCLP----PKVKVLDLHNNRIMS- 464

Query: 117 FILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
            I   V  L  L  L++  N  + ++       LTS+  + L  N
Sbjct: 465 -IPKDVTHLQALQELNVASNQLK-SVPDGVFDRLTSLQYIWLHDN 507

>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} Length = 562

 Score = 47.9 bits (114), Expect = 2e-06
 Identities = 48/249 (19%), Positives = 88/249 (35%), Gaps = 20/249 (8%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDN--FLWLSGISLLEHLDLRY 60
             + L+ S+  I  +    +  LS L+ L LS   +  +D   FL+      LE+LD+ +
Sbjct: 53  RTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFN---QDLEYLDVSH 109

Query: 61  VNL-SIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATV-NFSSLTMLDLSHNQFDNSFI 118
             L +I+   +       SL  L LS              N + LT L LS  +F    +
Sbjct: 110 NRLQNISCCPMA------SLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDL 163

Query: 119 LSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLK 178
           L    A  HL  + L   ++           + +   L L  +      +  +M++  L 
Sbjct: 164 LP--VAHLHLSCILLDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALG 221

Query: 179 SINLQE-SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVT 237
            + L    L+  +         +L +   L+   L +        W   + ++       
Sbjct: 222 HLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIE----TTWKCSVKLFQFFWPRP 277

Query: 238 LFELHFANL 246
           +  L+  NL
Sbjct: 278 VEYLNIYNL 286

>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} Length = 562

 Score = 43.3 bits (102), Expect = 6e-05
 Identities = 46/271 (16%), Positives = 95/271 (35%), Gaps = 20/271 (7%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQF----LDLSSKYLLYVDNFLWLSGISLLEHL 56
           + N++  + +  R+   + +     + L      ++ + K  + +  F W   +  L   
Sbjct: 225 LSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIY 284

Query: 57  DLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNS 116
           +L         ++      L SL+   + N             F+ + +  LS +     
Sbjct: 285 NLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISD--TP 342

Query: 117 FILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALC 175
           FI        S   FL+   N F      +    L  +  L L  N GL      ++   
Sbjct: 343 FIHMVCPPSPSSFTFLNFTQNVFT-DSVFQGCSTLKRLQTLILQRN-GLKNFFKVALMTK 400

Query: 176 NLKSINLQESLDMRSSSIYGHLTDQLGQF-RNLVTFNLVNNSIVGFIPWSF-----ELHI 229
           N+ S+     LD+  +S+  H  D+   +  +++  NL +N + G +          L +
Sbjct: 401 NMSSLET---LDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDL 457

Query: 230 YDNKLNVTLFELHFANLIEMSWFRVGGNQLT 260
           ++N++          +L  +    V  NQL 
Sbjct: 458 HNNRI--MSIPKDVTHLQALQELNVASNQLK 486

>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} Length = 562

 Score = 42.2 bits (99), Expect = 1e-04
 Identities = 34/188 (18%), Positives = 64/188 (34%), Gaps = 24/188 (12%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYL--LYVDNFLWLSGISLLEHLDL 58
              +     S +    I      + S+  FL+ +              L     L+ L L
Sbjct: 328 FAEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKR---LQTLIL 384

Query: 59  RYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLA----TVNFSSLTMLDLSHNQFD 114
           +   L    ++  VA    ++  L   +  L   +  A         S+ +L+LS N   
Sbjct: 385 QRNGLK---NFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLT 441

Query: 115 NSFILSWVFA--LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSM 172
            S     VF      +  LDL  N    +I  + + +L ++  L+++ N   +  +P   
Sbjct: 442 GS-----VFRCLPPKVKVLDLHNNRIM-SIP-KDVTHLQALQELNVASNQLKS--VPDG- 491

Query: 173 ALCNLKSI 180
               L S+
Sbjct: 492 VFDRLTSL 499

>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* Length = 239

 Score = 50.8 bits (122), Expect = 1e-07
 Identities = 37/187 (19%), Positives = 68/187 (36%), Gaps = 31/187 (16%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           + + L   +T +  I      NL N+  + +S    L          +S + H+++R   
Sbjct: 32  STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTR 91

Query: 63  L--SIAFDWLMVANKLLSLVELRLSNCQLQHFSPL-ATVNFSSLTMLDLSHNQF-----D 114
               I  D L    +L  L  L + N  L+ F  L    +     +L+++ N +      
Sbjct: 92  NLTYIDPDAL---KELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPV 148

Query: 115 NSF-------------------ILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTS-IN 154
           N+F                   +  + F  + L  + L  N +   ID +A G + S  +
Sbjct: 149 NAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPS 208

Query: 155 RLDLSLN 161
            LD+S  
Sbjct: 209 LLDVSQT 215

>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* Length = 239

 Score = 45.4 bits (108), Expect = 6e-06
 Identities = 30/143 (20%), Positives = 54/143 (37%), Gaps = 9/143 (6%)

Query: 78  SLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDLGFN 136
           S   L+L    L+     A  N  +++ + +S +      + S  F  LS +  +++   
Sbjct: 32  STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDV-TLQQLESHSFYNLSKVTHIEIRNT 90

Query: 137 NFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGH 196
                ID +AL  L  +  L +  NTGL    P    L  + S ++   L++  +     
Sbjct: 91  RNLTYIDPDALKELPLLKFLGIF-NTGLK-MFP---DLTKVYSTDIFFILEITDNPYMTS 145

Query: 197 LTDQL--GQFRNLVTFNLVNNSI 217
           +      G     +T  L NN  
Sbjct: 146 IPVNAFQGLCNETLTLKLYNNGF 168

>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* Length = 567

 Score = 50.1 bits (119), Expect = 4e-07
 Identities = 35/146 (23%), Positives = 56/146 (38%), Gaps = 7/146 (4%)

Query: 19  PQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMV---ANK 75
            + L   S L+ +D      L      +L   S+L+        L +A   L V     +
Sbjct: 402 KETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQ 461

Query: 76  LLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGF 135
           LL +  L LS+ +L+   P        L +L  S N  +N   +  V  L  L  L L  
Sbjct: 462 LLLVTHLDLSHNRLRALPPALA-ALRCLEVLQASDNALEN---VDGVANLPRLQELLLCN 517

Query: 136 NNFQGTIDLEALGNLTSINRLDLSLN 161
           N  Q +  ++ L +   +  L+L  N
Sbjct: 518 NRLQQSAAIQPLVSCPRLVLLNLQGN 543

>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* Length = 567

 Score = 48.6 bits (115), Expect = 1e-06
 Identities = 30/137 (21%), Positives = 55/137 (40%), Gaps = 8/137 (5%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
              YL+  +++            ++++ L L+ K L  + +   L    L+ HLDL +  
Sbjct: 418 RAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLL---LVTHLDLSHNR 474

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           L      L     L  L  L+ S+  L++   +A  N   L  L L +N+   S  +  +
Sbjct: 475 LRALPPAL---AALRCLEVLQASDNALENVDGVA--NLPRLQELLLCNNRLQQSAAIQPL 529

Query: 123 FALSHLPFLDLGFNNFQ 139
            +   L  L+L  N+  
Sbjct: 530 VSCPRLVLLNLQGNSLC 546

>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* Length = 567

 Score = 42.8 bits (100), Expect = 9e-05
 Identities = 25/135 (18%), Positives = 42/135 (31%), Gaps = 33/135 (24%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           +  + +L+ S  R+  + P  L  L  L+ L  S   L  VD                  
Sbjct: 462 LLLVTHLDLSHNRLRAL-PPALAALRCLEVLQASDNALENVDGV---------------- 504

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATV-NFSSLTMLDLSHNQF--DNSF 117
                          L  L EL L N +LQ  + +  + +   L +L+L  N    +   
Sbjct: 505 -------------ANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGI 551

Query: 118 ILSWVFALSHLPFLD 132
                  L  +  + 
Sbjct: 552 QERLAEMLPSVSSIL 566

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

 Score = 49.5 bits (118), Expect = 4e-07
 Identities = 38/163 (23%), Positives = 62/163 (38%), Gaps = 7/163 (4%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWL-SGISLLEHLDLRY- 60
            L+ L+    R+   I   L   SNL  L+LS            L S  S L+ L+L + 
Sbjct: 119 KLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWC 178

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQL----QHFSPLATVNFSSLTMLDLSHNQFDNS 116
            + +     + VA+   ++ +L LS  +        S L      +L  LDLS +    +
Sbjct: 179 FDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVR-RCPNLVHLDLSDSVMLKN 237

Query: 117 FILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLS 159
                 F L++L  L L          L  LG + ++  L + 
Sbjct: 238 DCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVF 280

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

 Score = 43.7 bits (103), Expect = 4e-05
 Identities = 32/206 (15%), Positives = 70/206 (33%), Gaps = 12/206 (5%)

Query: 15  CGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVAN 74
             + P   G L +   +                     ++H+DL    + ++     + +
Sbjct: 57  KNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVS-TLHGILS 115

Query: 75  KLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSH-NQFDNSFILSWVFALSHLPFLDL 133
           +   L  L L   +L           S+L  L+LS  + F    + + + + S L  L+L
Sbjct: 116 QCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNL 175

Query: 134 GFNNFQGTIDLEAL--GNLTSINRLDLS-LNTGLTGRIPRSMA--LCNLKSINLQESLDM 188
            +        ++        +I +L+LS     L      ++     NL  ++L +S+ +
Sbjct: 176 SWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVML 235

Query: 189 RSSSIYGHLTDQLGQFRNLVTFNLVN 214
           ++         +  Q   L   +L  
Sbjct: 236 KNDCFQ-----EFFQLNYLQHLSLSR 256

>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 Length = 347

 Score = 49.4 bits (117), Expect = 5e-07
 Identities = 19/93 (20%), Positives = 28/93 (30%), Gaps = 3/93 (3%)

Query: 47  LSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTML 106
           L G   L  L +         +   +   L  L  L +    L+  +P A      L+ L
Sbjct: 27  LPGAENLTELYIENQQHLQHLELRDLRG-LGELRNLTIVKSGLRFVAPDAFHFTPRLSRL 85

Query: 107 DLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQ 139
           +LS N      +         L  L L  N   
Sbjct: 86  NLSFNAL--ESLSWKTVQGLSLQELVLSGNPLH 116

>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 Length = 461

 Score = 48.4 bits (116), Expect = 1e-06
 Identities = 43/238 (18%), Positives = 67/238 (28%), Gaps = 50/238 (21%)

Query: 3   NLRYLNFSKTRI----CGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDL 58
             + +      +    C  I   L     L  L+L         N L   G+  +    L
Sbjct: 29  QCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR-------SNELGDVGVHCVLQG-L 80

Query: 59  RYVNLSIAFDWLMVANKLLSLVELRLSNCQL-----QHFSPLATVNFSSLTMLDLSHNQF 113
           +  +                + +L L NC L        S        +L  L LS N  
Sbjct: 81  QTPS--------------CKIQKLSLQNCCLTGAGCGVLSSTLRTL-PTLQELHLSDNLL 125

Query: 114 DNSFILSWVFALSH----LPFLDLGFNNF--QGTIDL-EALGNLTSINRLDLSLNT-GLT 165
            ++ +      L      L  L L + +        L   L        L +S N     
Sbjct: 126 GDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEA 185

Query: 166 GRIPRSMALCN-LKSINLQ-ESLDMRSSSI----YGHLTDQLGQFRNLVTFNLVNNSI 217
           G       LC  LK    Q E+L + S  +       L   +    +L    L +N +
Sbjct: 186 G----VRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKL 239

>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 Length = 461

 Score = 47.6 bits (114), Expect = 2e-06
 Identities = 46/236 (19%), Positives = 75/236 (31%), Gaps = 46/236 (19%)

Query: 3   NLRYLNFSKTRI----CGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDL 58
            ++ L+     +    CG++   L  L  LQ L LS       DN L  +G+ LL     
Sbjct: 86  KIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLS-------DNLLGDAGLQLLCE--- 135

Query: 59  RYVNLSIAFDWLMVANKLLSLVELRLSNCQL-----QHFSPLATVNFSSLTMLDLSHNQF 113
                        + +    L +L+L  C L     +  + +          L +S+N  
Sbjct: 136 ------------GLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAK-PDFKELTVSNNDI 182

Query: 114 DNSFILSWVFALSH----LPFLDLGFNNF--QGTIDL-EALGNLTSINRLDLSLNT-GLT 165
           + + +      L      L  L L           DL   + +  S+  L L  N  G  
Sbjct: 183 NEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDV 242

Query: 166 GRIPRSMALCNLKSINLQESLDMRSSSI----YGHLTDQLGQFRNLVTFNLVNNSI 217
           G       L +  S     +L +    I     G L   L    +L   +L  N +
Sbjct: 243 GMAELCPGLLHPSSRL--RTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNEL 296

>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 Length = 461

 Score = 46.1 bits (110), Expect = 7e-06
 Identities = 39/237 (16%), Positives = 65/237 (27%), Gaps = 48/237 (20%)

Query: 3   NLRYLNFSKTRI----CGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDL 58
            L  L      +    C  +   + + ++L+ L L         N L   G++ L     
Sbjct: 200 QLEALKLESCGVTSDNCRDLCGIVASKASLRELALG-------SNKLGDVGMAEL----- 247

Query: 59  RYVNLSIAFDWLMVANKLLSLVELRLSNCQL--QHFSPLATV--NFSSLTMLDLSHNQFD 114
                        + +    L  L +  C +  +    L  V     SL  L L+ N+  
Sbjct: 248 ----------CPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELG 297

Query: 115 NSFILSWVFALSH----LPFLDLGFNNF--QGTIDL-EALGNLTSINRLDLSLNT-GLTG 166
           +         L      L  L +   +F           L     +  L +S N     G
Sbjct: 298 DEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAG 357

Query: 167 RIPRSMALCN-LKSINLQ-ESLDMRSSSI----YGHLTDQLGQFRNLVTFNLVNNSI 217
                  LC  L         L +    +       L   L    +L   +L NN +
Sbjct: 358 ----VRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCL 410

>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 Length = 461

 Score = 45.7 bits (109), Expect = 9e-06
 Identities = 38/183 (20%), Positives = 62/183 (33%), Gaps = 23/183 (12%)

Query: 53  LEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQL--QHFSPLATV--NFSSLTMLDL 108
           ++ LD++   LS    W  +   L     +RL +C L       +++      +L  L+L
Sbjct: 5   IQSLDIQCEELS-DARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNL 63

Query: 109 SHNQFDNSFILSWVFALSH----LPFLDLGFNNF--QGTIDL-EALGNLTSINRLDLSLN 161
             N+  +  +   +  L      +  L L        G   L   L  L ++  L LS N
Sbjct: 64  RSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDN 123

Query: 162 T-GLTGRIPRSMALCN-LKSINLQ-ESLDMRSSSI----YGHLTDQLGQFRNLVTFNLVN 214
             G  G       LC  L     + E L +   S+       L   L    +     + N
Sbjct: 124 LLGDAG----LQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSN 179

Query: 215 NSI 217
           N I
Sbjct: 180 NDI 182

>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 Length = 461

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 20/127 (15%), Positives = 45/127 (35%), Gaps = 14/127 (11%)

Query: 101 SSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNF--QGTIDL-EALGNLTSINRLD 157
             +  LD+   +  ++     +  L     + L           D+  AL    ++  L+
Sbjct: 3   LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELN 62

Query: 158 LSLNT-GLTGRIPRSMALCN-LKSINLQ-ESLDMRSSSI----YGHLTDQLGQFRNLVTF 210
           L  N  G  G       +   L++ + + + L +++  +     G L+  L     L   
Sbjct: 63  LRSNELGDVG----VHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQEL 118

Query: 211 NLVNNSI 217
           +L +N +
Sbjct: 119 HLSDNLL 125

>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 Length = 386

 Score = 47.4 bits (113), Expect = 2e-06
 Identities = 44/259 (16%), Positives = 80/259 (30%), Gaps = 49/259 (18%)

Query: 3   NLRYLNFSKTRI----CGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLD- 57
           +++ +  S   I       + + + +  +L+  + S  +   V + +  +   LL+ L  
Sbjct: 33  SVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLK 92

Query: 58  ---LRYVNLS---------IAFDWLMVANKLLSLVELRLSNCQL-------------QHF 92
              L  V LS               +  +    L  L L N  L             +  
Sbjct: 93  CPKLHTVRLSDNAFGPTAQEPLIDFLSKHT--PLEHLYLHNNGLGPQAGAKIARALQELA 150

Query: 93  SPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSH---LPFLDLGFNNF--QGTIDL--E 145
                 N   L  +    N+ +N  +  W         L  + +  N    +G   L  E
Sbjct: 151 VNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLE 210

Query: 146 ALGNLTSINRLDLSLNT-GLTGRIPRSMALCNLKSINLQESLDMRSSSIYG----HLTDQ 200
            L     +  LDL  NT    G    ++AL +  ++     L +    +       + D 
Sbjct: 211 GLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNL---RELGLNDCLLSARGAAAVVDA 267

Query: 201 LGQFRN--LVTFNLVNNSI 217
             +  N  L T  L  N I
Sbjct: 268 FSKLENIGLQTLRLQYNEI 286

>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 Length = 454

 Score = 46.9 bits (112), Expect = 3e-06
 Identities = 41/263 (15%), Positives = 73/263 (27%), Gaps = 52/263 (19%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           +      + +      P   G    +    L                      L+L  + 
Sbjct: 35  SKTEYYNAWSEWERNAPPGNGEQREMAVSRLRD------------CLDRQAHELELNNLG 82

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           LS       +      L  L  S   L     L   +  SL + + +     +       
Sbjct: 83  LS------SLPELPPHLESLVASCNSLTELPELPQ-SLKSLLVDNNNLKALSDL------ 129

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
                L +L +  N  +    L  L N + +  +D+  N+ L  ++P      +L+ I  
Sbjct: 130 --PPLLEYLGVSNNQLE---KLPELQNSSFLKIIDVDNNS-LK-KLPDL--PPSLEFIAA 180

Query: 183 QESLDMRSSSIYGHLTD--QLGQFRNLVTFNLVNNSIVGFIPWSF---ELHIYDNKLNVT 237
             +           L +  +L     L      NNS+            +   +N L   
Sbjct: 181 GNN----------QLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILE-E 229

Query: 238 LFELHFANLIEMSWFRVGGNQLT 260
           L EL   NL  ++      N L 
Sbjct: 230 LPEL--QNLPFLTTIYADNNLLK 250

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 45.8 bits (109), Expect = 4e-06
 Identities = 26/112 (23%), Positives = 47/112 (41%), Gaps = 8/112 (7%)

Query: 75  KLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFA-LSHLPFLDL 133
           KL  L ++  SN ++      A    S +  + L+ N+ +N  +   +F  L  L  L L
Sbjct: 55  KLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLEN--VQHKMFKGLESLKTLML 112

Query: 134 GFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSM--ALCNLKSINLQ 183
             N     +  ++   L+S+  L L  N  +T  +       L +L ++NL 
Sbjct: 113 RSNRIT-CVGNDSFIGLSSVRLLSLYDNQ-IT-TVAPGAFDTLHSLSTLNLL 161

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 31/116 (26%), Positives = 50/116 (43%), Gaps = 11/116 (9%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
            LR +NFS  +I  I        S +  + L+S  L  V + +   G+  L+ L LR   
Sbjct: 58  QLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKM-FKGLESLKTLMLRSNR 116

Query: 63  LSI----AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD 114
           ++     +F        L S+  L L + Q+   +P A     SL+ L+L  N F+
Sbjct: 117 ITCVGNDSFI------GLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFN 166

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 38.9 bits (91), Expect = 9e-04
 Identities = 28/139 (20%), Positives = 52/139 (37%), Gaps = 31/139 (22%)

Query: 24  NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELR 83
            L  L+ ++ S+            + I+ +E           AF+          + E+ 
Sbjct: 55  KLPQLRKINFSN------------NKITDIEEG---------AFE------GASGVNEIL 87

Query: 84  LSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVF-ALSHLPFLDLGFNNFQGTI 142
           L++ +L++          SL  L L  N+   + + +  F  LS +  L L  N    T+
Sbjct: 88  LTSNRLENVQHKMFKGLESLKTLMLRSNRI--TCVGNDSFIGLSSVRLLSLYDNQIT-TV 144

Query: 143 DLEALGNLTSINRLDLSLN 161
              A   L S++ L+L  N
Sbjct: 145 APGAFDTLHSLSTLNLLAN 163

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens} Length = 372

 Score = 45.9 bits (109), Expect = 7e-06
 Identities = 30/152 (19%), Positives = 55/152 (36%), Gaps = 16/152 (10%)

Query: 25  LSNLQFLDLSSKYLLYVD----NFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV 80
           LS+L+ L+L+   +  V       +  SG   L+ ++L    L  A     +    L   
Sbjct: 71  LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPA-GLRTLLPVFLRAR 129

Query: 81  ELRLSNCQL-----QHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSH---LPFLD 132
           +L L    L     +    L   +   +T L LS+N    + +   +  L+    +  L 
Sbjct: 130 KLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLS 189

Query: 133 LGFNNF--QGTIDL-EALGNLTSINRLDLSLN 161
           L       +G   L   L     +  L+++ N
Sbjct: 190 LLHTGLGDEGLELLAAQLDRNRQLQELNVAYN 221

>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 Length = 198

 Score = 44.7 bits (106), Expect = 9e-06
 Identities = 29/155 (18%), Positives = 51/155 (32%), Gaps = 34/155 (21%)

Query: 7   LNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIA 66
           L+     I  +    L  L   + L LS+            + I  +  L          
Sbjct: 30  LHGMIPPIEKM-DATLSTLKACKHLALST------------NNIEKISSLS--------- 67

Query: 67  FDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALS 126
                    + +L  L L    ++    L      +L  L +S+NQ  +   LS +  L 
Sbjct: 68  --------GMENLRILSLGRNLIKKIENLDA-VADTLEELWISYNQIAS---LSGIEKLV 115

Query: 127 HLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
           +L  L +  N      +++ L  L  +  L L+ N
Sbjct: 116 NLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGN 150

>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 Length = 220

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 34/161 (21%), Positives = 53/161 (32%), Gaps = 33/161 (20%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
            +  +   +  I  I P        L+ +DLS       +N +                 
Sbjct: 33  TITEIRLEQNTIKVIPPGAFSPYKKLRRIDLS-------NNQI---------------SE 70

Query: 63  LSI-AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW 121
           L+  AF        L SL  L L   ++            SL +L L+ N+   + +   
Sbjct: 71  LAPDAFQ------GLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANKI--NCLRVD 122

Query: 122 VF-ALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
            F  L +L  L L  N  Q TI       L +I  + L+ N
Sbjct: 123 AFQDLHNLNLLSLYDNKLQ-TIAKGTFSPLRAIQTMHLAQN 162

>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 Length = 220

 Score = 39.6 bits (93), Expect = 5e-04
 Identities = 25/116 (21%), Positives = 44/116 (37%), Gaps = 11/116 (9%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
            LR ++ S  +I  + P     L +L  L L    +  +   L   G+  L+ L L    
Sbjct: 57  KLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSL-FEGLFSLQLLLLNANK 115

Query: 63  L-SI---AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFD 114
           +  +   AF        L +L  L L + +LQ  +        ++  + L+ N F 
Sbjct: 116 INCLRVDAFQ------DLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPFI 165

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 43.2 bits (102), Expect = 6e-05
 Identities = 24/133 (18%), Positives = 42/133 (31%), Gaps = 21/133 (15%)

Query: 78  SLVELRLSNCQLQHF------SPLATVNFSSLTMLDLSHNQFDNSFILSWVFAL----SH 127
           ++  L L    L           LA++  +S+T LDLS N           +      +H
Sbjct: 168 NVNSLNLRGNNLASKNCAELAKFLASIP-ASVTSLDLSANLLGLKSYAELAYIFSSIPNH 226

Query: 128 LPFLDLGFNNF--QGTIDL-EALGNLTSINRLDLSLNT----GLTGRIPRSMALCNLKSI 180
           +  L+L  N        +L     +L  +  + L  +               A  N++ I
Sbjct: 227 VVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKI 286

Query: 181 NLQESLDMRSSSI 193
                +D     I
Sbjct: 287 ---ILVDKNGKEI 296

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 42.8 bits (101), Expect = 6e-05
 Identities = 47/192 (24%), Positives = 75/192 (39%), Gaps = 34/192 (17%)

Query: 53  LEHLDLRYVNLS------IAFDWLMVANKLLSLVELRLSNCQL-----QHFSPLATVNFS 101
           +  LDL   NL       +       AN   S+  L LS   L          +     +
Sbjct: 24  VTSLDLSLNNLYSISTVELIQ---AFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPA 80

Query: 102 SLTMLDLSHNQFDNSFILSWVFALSHLPF----LDLGFNNFQ--GTIDL-EALGNL-TSI 153
           ++T L+LS N          V  L+ +PF    LDLG+N+F    + +  +A  NL  SI
Sbjct: 81  NVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASI 140

Query: 154 NRLDLSLNT-GLTGRIPRSMALCN-LKSINLQ-ESLDMRSSSIY----GHLTDQLGQF-R 205
             L+L  N  G+      S  L   L +I     SL++R +++       L   L     
Sbjct: 141 TSLNLRGNDLGIKS----SDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPA 196

Query: 206 NLVTFNLVNNSI 217
           ++ + +L  N +
Sbjct: 197 SVTSLDLSANLL 208

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

 Score = 42.6 bits (100), Expect = 1e-04
 Identities = 23/206 (11%), Positives = 59/206 (28%), Gaps = 10/206 (4%)

Query: 3   NLRYLNFSKTRICGIIPQQLG----NLSNLQFLDLSSKYLLYVDN---FLWLSGISLLEH 55
            ++ L   ++       + L     + ++L+ L+        +              L  
Sbjct: 165 KIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVS 224

Query: 56  LDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN 115
           + +    +     +   A  L       L+         +  V    L  L LS+     
Sbjct: 225 VKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSY--MGP 282

Query: 116 SFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALC 175
           + +       + +  LDL +   +       +    ++  L+     G  G    +    
Sbjct: 283 NEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCK 342

Query: 176 NLKSINLQESLDMRSSSIY-GHLTDQ 200
            LK + ++   D +      G ++ +
Sbjct: 343 QLKRLRIERGADEQGMEDEEGLVSQR 368

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

 Score = 41.8 bits (98), Expect = 2e-04
 Identities = 29/200 (14%), Positives = 62/200 (31%), Gaps = 10/200 (5%)

Query: 24  NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELR 83
           + ++   +       +Y       S  + LE + L+ + ++      ++A    +   L 
Sbjct: 78  HFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVVTDD-CLELIAKSFKNFKVLV 136

Query: 84  LSNCQL---QHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFL-DLGFNNFQ 139
           LS+C+       + +A     +L  LDL  +  D+               L  L  +   
Sbjct: 137 LSSCEGFSTDGLAAIAA-TCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLA 195

Query: 140 GTIDLEALGNL----TSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYG 195
             +   AL  L     ++  L L+    L            L+ +            +Y 
Sbjct: 196 SEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYS 255

Query: 196 HLTDQLGQFRNLVTFNLVNN 215
            L+  L   + L   +   +
Sbjct: 256 GLSVALSGCKELRCLSGFWD 275

>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 = 39.9 bits (93), Expect = 7e-04
 Identities = 35/210 (16%), Positives = 70/210 (33%), Gaps = 16/210 (7%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLS----NLQFLDLSSKYLLYVDNFLW--LSGISLLEHL 56
           NL+ L+  ++ +  +    L +      +L  L++S        + L   ++    L+ L
Sbjct: 157 NLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSL 216

Query: 57  DLRY-VNLSIAFDWLMVANKLLSLVELRLSNCQLQH----FSPLATVNFSSLTMLDLSHN 111
            L   V L        +  +   L EL       +     +S L+        +  LS  
Sbjct: 217 KLNRAVPLE---KLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGF 273

Query: 112 QFDNSFILSWVFA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPR 170
                  L  V++  S L  L+L +   Q    ++ L     + RL +       G    
Sbjct: 274 WDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVL 333

Query: 171 SMALCNLKSINLQESLDMRSSSIYGHLTDQ 200
           +    +L+ + +    +         LT+Q
Sbjct: 334 ASTCKDLRELRV-FPSEPFVMEPNVALTEQ 362

>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 Length = 176

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 21/117 (17%), Positives = 41/117 (35%), Gaps = 6/117 (5%)

Query: 20  QQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSL 79
            Q  N    + LDL    +  ++N    + +   + +D     +     +      L  L
Sbjct: 13  AQYTNAVRDRELDLRGYKIPVIENLG--ATLDQFDAIDFSDNEIRKLDGF----PLLRRL 66

Query: 80  VELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFN 136
             L ++N ++             LT L L++N       L  + +L  L +L +  N
Sbjct: 67  KTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRN 123

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis} Length = 362

 Score = 41.5 bits (96), Expect = 2e-04
 Identities = 22/144 (15%), Positives = 54/144 (37%), Gaps = 26/144 (18%)

Query: 3   NLRYLNFSKTRICGIIPQQLG--NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           NL+ L      +   + + +   +L NL+ L L     + V+++ +   +++   L    
Sbjct: 194 NLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLY----VGVEDYGFDGDMNVFRPL---- 245

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLA---TVNFSSLTMLDLSHNQFDNS- 116
                        ++  +L  L + + + Q+        +     L  +D+S     +  
Sbjct: 246 ----------FSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEG 295

Query: 117 --FILSWVFALSHLPFLDLGFNNF 138
              +L  V  + HL F+++ +N  
Sbjct: 296 ARLLLDHVDKIKHLKFINMKYNYL 319

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis} Length = 362

 Score = 40.7 bits (94), Expect = 4e-04
 Identities = 22/148 (14%), Positives = 45/148 (30%), Gaps = 16/148 (10%)

Query: 52  LLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQL--QHFSPLATVNFSSLTMLDLS 109
           L     L  + +    +  +      +L  L + +  L       +   +  +L  L L 
Sbjct: 168 LDAMPLLNNLKIKGTNNLSIGKKPRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLY 227

Query: 110 HNQFDNSF-----ILSWVFALSHLP---FLDLGFNNFQ--GTIDLEALGNLTSINRLDLS 159
               D  F     +   +F+    P   +L +     Q            L  +  +D+S
Sbjct: 228 VGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDIS 287

Query: 160 LNT----GLTGRIPRSMALCNLKSINLQ 183
                  G    +     + +LK IN++
Sbjct: 288 AGVLTDEGARLLLDHVDKIKHLKFINMK 315

>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 Length = 168

 Score = 39.7 bits (93), Expect = 3e-04
 Identities = 25/126 (19%), Positives = 48/126 (38%), Gaps = 12/126 (9%)

Query: 95  LATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSIN 154
           L     +++  L L + + ++  I        +L FL L          +  L  L  + 
Sbjct: 18  LRNRTPAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLI---SVSNLPKLPKLK 74

Query: 155 RLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSI--YGHLTDQLGQFRNLVTFNL 212
           +L+LS N     RI   + +   K  NL   L++  + +     L + L +   L + +L
Sbjct: 75  KLELSEN-----RIFGGLDMLAEKLPNLTH-LNLSGNKLKDISTL-EPLKKLECLKSLDL 127

Query: 213 VNNSIV 218
            N  + 
Sbjct: 128 FNCEVT 133

>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 = 40.6 bits (94), Expect = 5e-04
 Identities = 56/330 (16%), Positives = 97/330 (29%), Gaps = 123/330 (37%)

Query: 4   LRYLNFSKT----RICGIIPQQLGNLSNL--QFLDLSSKYLLY-VDNFLWLSGISL--LE 54
           L+YL+         +    P++L  ++      L     +     D    +   SL  LE
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367

Query: 55  HLDLR--YVNLSIAFD-------------WL--------MVANKL--LSLVE-------L 82
             + R  +  LS+ F              W         +V NKL   SLVE       +
Sbjct: 368 PAEYRKMFDRLSV-FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426

Query: 83  RLSNCQLQ-----------HFSPLATVNF-SSLTMLDLSHNQFDN---SFI---LSWV-- 122
            + +  L+           H S +   N   +    DL     D    S I   L  +  
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEH 486

Query: 123 ---FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
                L  + FLD  F                            L  +I       N   
Sbjct: 487 PERMTLFRMVFLDFRF----------------------------LEQKIRHDSTAWNASG 518

Query: 180 INLQESLDMRSSSIY-GHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTL 238
             L     ++    Y  ++ D   ++  LV      N+I+ F+P   E ++  +K     
Sbjct: 519 SILNTLQQLK---FYKPYICDNDPKYERLV------NAILDFLP-KIEENLICSK----- 563

Query: 239 FELHFANLIEMSWFRVGGNQLTLEVKHDWI 268
               + +L+          ++ L  + + I
Sbjct: 564 ----YTDLL----------RIALMAEDEAI 579

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	289
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	100.0
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	100.0
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	100.0
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.98
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.98
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.97
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.97
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.97
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.97
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.97
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.97
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.97
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.97
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.97
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.97
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.97
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.97
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.97
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.97
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.97
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.97
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.97
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.96
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.96
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.96
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.96
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.96
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.96
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.96
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.96
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.96
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.96
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.96
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.96
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.96
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.96
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.96
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.95
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.95
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.95
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.95
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.95
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.95
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.95
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.95
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.95
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.94
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.94
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.94
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.94
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.94
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.94
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.94
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.94
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.94
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.93
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.93
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.93
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.93
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.92
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.92
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.92
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.92
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.91
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.91
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.91
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.91
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.9
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.9
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.9
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.9
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.9
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.9
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.89
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.89
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.88
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.88
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.88
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.87
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.87
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.87
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.86
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.85
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.85
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.84
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.84
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.84
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.84
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.84
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.83
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.83
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.81
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.8
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.79
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.79
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.78
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.77
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.77
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.77
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.76
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.75
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.74
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.74
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.73
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.73
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.73
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.72
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.72
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.72
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.72
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.72
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.72
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.69
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.67
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.66
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.66
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.65
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.63
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.62
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.61
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.61
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.6
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.6
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.57
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.56
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.55
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.55
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.54
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.53
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.52
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.49
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.49
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.48
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.48
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.44
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.43
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.42
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.33
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.32
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.31
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.3
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.23
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.2
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	99.17
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	99.15
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	99.12
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.0
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.98
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.92
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.9
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.8
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	98.75
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.58
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.57
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	98.44
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.4
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.26
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.23
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.13
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.51
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.33
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.89
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.23

>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=100.00  E-value=2e-35  Score=270.81  Aligned_cols=279  Identities=24%  Similarity=0.304  Sum_probs=173.9

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCcccccc-chhhHhhhcCCCccE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIA-FDWLMVANKLLSLVE   81 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~~~~~~L~~   81 (289)
                      +|++|++.+|.+++..|..+.++++|++|++++|.+....+.. +.++++|++|++++|.+... +.   .+..+++|++
T Consensus       395 ~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~-l~~l~~L~~L~L~~n~l~~~~p~---~~~~l~~L~~  470 (768)
T 3rgz_A          395 TLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSS-LGSLSKLRDLKLWLNMLEGEIPQ---ELMYVKTLET  470 (768)
T ss_dssp             CCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGG-GGGCTTCCEEECCSSCCCSCCCG---GGGGCTTCCE
T ss_pred             CccEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHH-HhcCCCCCEEECCCCcccCcCCH---HHcCCCCceE
Confidence            3444444444444444444555555555555554433222211 34445555555555544432 22   3444555555


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|.+....+..+..+++|+.|++++|.++ +.+|..++.+++|++|++++|.+.+.+ |..++.+++|+.+++++|
T Consensus       471 L~L~~N~l~~~~p~~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          471 LILDFNDLTGEIPSGLSNCTNLNWISLSNNRLT-GEIPKWIGRLENLAILKLSNNSFSGNI-PAELGDCRSLIWLDLNTN  548 (768)
T ss_dssp             EECCSSCCCSCCCGGGGGCTTCCEEECCSSCCC-SCCCGGGGGCTTCCEEECCSSCCEEEC-CGGGGGCTTCCEEECCSS
T ss_pred             EEecCCcccCcCCHHHhcCCCCCEEEccCCccC-CcCChHHhcCCCCCEEECCCCcccCcC-CHHHcCCCCCCEEECCCC
Confidence            555555555444445555555555555555554 444445555555555555555555444 445555555555555555


Q ss_pred             CcccCCCCcccc-ccCcceeeccc----------------------------------------cccccCCccccccccc
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQE----------------------------------------SLDMRSSSIYGHLTDQ  200 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~----------------------------------------~l~l~~~~~~~~~~~~  200 (289)
                      . +.+.+|..+. ...+..+.+..                                        .+++..+.+.+.+|..
T Consensus       549 ~-l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~  627 (768)
T 3rgz_A          549 L-FNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPT  627 (768)
T ss_dssp             E-EESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCS
T ss_pred             c-cCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchh
Confidence            5 4444444433 22222111100                                        1122334455556667


Q ss_pred             ccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccc
Q 040144          201 LGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQL  273 (289)
Q Consensus       201 l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L  273 (289)
                      ++.+++|+.|++++|.+++.+|..+       .|++++|.++|.+|. .++++++|+.|++++|++++.+|..+..+++|
T Consensus       628 ~~~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~-~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L  706 (768)
T 3rgz_A          628 FDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPD-EVGDLRGLNILDLSSNKLDGRIPQAMSALTML  706 (768)
T ss_dssp             CSSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCG-GGGGCTTCCEEECCSSCCEECCCGGGGGCCCC
T ss_pred             hhccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCCh-HHhCCCCCCEEECCCCcccCcCChHHhCCCCC
Confidence            7788999999999999999988777       899999999999999 99999999999999999999999999999999


Q ss_pred             cEEecccccCccCCCC
Q 040144          274 VALGLHSCYIGSRFPL  289 (289)
Q Consensus       274 ~~l~l~~n~~~~~~p~  289 (289)
                      ++|++++|+++|.||+
T Consensus       707 ~~L~ls~N~l~g~iP~  722 (768)
T 3rgz_A          707 TEIDLSNNNLSGPIPE  722 (768)
T ss_dssp             SEEECCSSEEEEECCS
T ss_pred             CEEECcCCcccccCCC
Confidence            9999999999999984

>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=100.00  E-value=3.8e-35  Score=268.93  Aligned_cols=227  Identities=27%  Similarity=0.303  Sum_probs=200.0

Q ss_pred             CCcccEEeccCcccccc-chhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCC
Q 040144           50 ISLLEHLDLRYVNLSIA-FDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHL  128 (289)
Q Consensus        50 l~~L~~L~l~~~~~~~~-~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L  128 (289)
                      ++.|++|++++|.+... +.   .+..+++|++|++++|.+....+..+..+++|+.|++++|.++ +..+..+..+++|
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 KNTLQELYLQNNGFTGKIPP---TLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE-GEIPQELMYVKTL  468 (768)
T ss_dssp             TCCCCEEECCSSEEEEECCG---GGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCC-SCCCGGGGGCTTC
T ss_pred             cCCccEEECCCCccccccCH---HHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCccc-CcCCHHHcCCCCc
Confidence            56677778877777654 33   6778899999999999988888888889999999999999987 6778888889999


Q ss_pred             CEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCC
Q 040144          129 PFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNL  207 (289)
Q Consensus       129 ~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L  207 (289)
                      ++|++++|.+.+.+ |..++.+++|++|++++|. +.+..|.++. +++|+.|++      ++|.+.+.+|..++.+++|
T Consensus       469 ~~L~L~~N~l~~~~-p~~l~~l~~L~~L~L~~N~-l~~~~p~~~~~l~~L~~L~L------~~N~l~~~~p~~l~~l~~L  540 (768)
T 3rgz_A          469 ETLILDFNDLTGEI-PSGLSNCTNLNWISLSNNR-LTGEIPKWIGRLENLAILKL------SNNSFSGNIPAELGDCRSL  540 (768)
T ss_dssp             CEEECCSSCCCSCC-CGGGGGCTTCCEEECCSSC-CCSCCCGGGGGCTTCCEEEC------CSSCCEEECCGGGGGCTTC
T ss_pred             eEEEecCCcccCcC-CHHHhcCCCCCEEEccCCc-cCCcCChHHhcCCCCCEEEC------CCCcccCcCCHHHcCCCCC
Confidence            99999999998777 7889999999999999999 8888898888 999998886      8999999999999999999


Q ss_pred             cEEEccCCeeeecCCCce--------------------------------------------------------------
Q 040144          208 VTFNLVNNSIVGFIPWSF--------------------------------------------------------------  225 (289)
Q Consensus       208 ~~L~l~~n~~~~~~~~~~--------------------------------------------------------------  225 (289)
                      +.|++++|.+.+.+|..+                                                              
T Consensus       541 ~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~  620 (768)
T 3rgz_A          541 IWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVY  620 (768)
T ss_dssp             CEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEE
T ss_pred             CEEECCCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhcccccccccccccee
Confidence            999999999987655311                                                              


Q ss_pred             ---------------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCccCCCC
Q 040144          226 ---------------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL  289 (289)
Q Consensus       226 ---------------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~p~  289 (289)
                                     .|++++|.++|.+|. .++++++|+.|++++|++++.+|..++.+++|+.||+++|++++.+|+
T Consensus       621 ~g~~~~~~~~l~~L~~LdLs~N~l~g~ip~-~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~  698 (768)
T 3rgz_A          621 GGHTSPTFDNNGSMMFLDMSYNMLSGYIPK-EIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQ  698 (768)
T ss_dssp             EEECCCSCSSSBCCCEEECCSSCCBSCCCG-GGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCCG
T ss_pred             cccCchhhhccccccEEECcCCcccccCCH-HHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCCh
Confidence                           689999999999999 899999999999999999999999999999999999999999999984

>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=100.00  E-value=6.9e-33  Score=239.95  Aligned_cols=274  Identities=23%  Similarity=0.245  Sum_probs=173.3

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCcccccc-chhhHhhhcCCCcc
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIA-FDWLMVANKLLSLV   80 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~~~~~~L~   80 (289)
                      +++++|++++|.+++..|..|.++++|++|++++|.+........+.++++|++|++++|.+... +.   .+..+++|+
T Consensus        30 ~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~---~~~~l~~L~  106 (455)
T 3v47_A           30 AHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETG---AFNGLANLE  106 (455)
T ss_dssp             TTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTT---TTTTCTTCC
T ss_pred             CccCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCccChh---hccCcccCC
Confidence            56889999999988877888889999999999888764332223367788889999988887765 33   677788888


Q ss_pred             EEEccCCccCCCCcc--cccCCCCCcEEeccCCCCCCcchhhH-hhcCCCCCEEEccCceeeeeeChhhhcCC-------
Q 040144           81 ELRLSNCQLQHFSPL--ATVNFSSLTMLDLSHNQFDNSFILSW-VFALSHLPFLDLGFNNFQGTIDLEALGNL-------  150 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~--~l~~~~~L~~L~l~~~~~~~~~~~~~-~~~~~~L~~L~l~~n~~~~~~~~~~~~~~-------  150 (289)
                      +|++++|.+....+.  .+..+++|++|++++|.++ ...+.. +..+++|++|++++|.+.+.. +..+..+       
T Consensus       107 ~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~l~~l~~~~L~~  184 (455)
T 3v47_A          107 VLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIK-KIQPASFFLNMRRFHVLDLTFNKVKSIC-EEDLLNFQGKHFTL  184 (455)
T ss_dssp             EEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCC-SCCCCGGGGGCTTCCEEECTTCCBSCCC-TTTSGGGTTCEEEE
T ss_pred             EEeCCCCCCCccccCcccccCcccCCEEECCCCccC-ccCcccccCCCCcccEEeCCCCcccccC-hhhhhccccccccc
Confidence            888888887763332  3677888888888888886 433433 667888888888888776433 3333322       


Q ss_pred             ---------------------------CCccEEeCCCCCcccCC------------------------------------
Q 040144          151 ---------------------------TSINRLDLSLNTGLTGR------------------------------------  167 (289)
Q Consensus       151 ---------------------------~~L~~L~l~~n~~~~~~------------------------------------  167 (289)
                                                 ++|++|++++|. +.+.                                    
T Consensus       185 L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~-l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~  263 (455)
T 3v47_A          185 LRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNG-FKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKD  263 (455)
T ss_dssp             EECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSC-CCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCC
T ss_pred             cccccCcccccchhhccccccccccccceeeeEecCCCc-ccccchhhhhccccccceeeEeeccccccccccchhhhcc
Confidence                                       456666666664 3321                                    


Q ss_pred             ---------------------------CCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeee
Q 040144          168 ---------------------------IPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVG  219 (289)
Q Consensus       168 ---------------------------~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~  219 (289)
                                                 .|..+. +++|+.|++      ++|.+.+..+..++.+++|+.|++++|.+++
T Consensus       264 ~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L------s~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~  337 (455)
T 3v47_A          264 PDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTL------AQNEINKIDDNAFWGLTHLLKLNLSQNFLGS  337 (455)
T ss_dssp             CCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCTTCCEEEC------TTSCCCEECTTTTTTCTTCCEEECCSSCCCE
T ss_pred             CcccccccccccCceEEEecCccccccchhhcccCCCCCEEEC------CCCcccccChhHhcCcccCCEEECCCCccCC
Confidence                                       222233 333333332      5555555555555555566666666555554


Q ss_pred             cCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCccCCC
Q 040144          220 FIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFP  288 (289)
Q Consensus       220 ~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~p  288 (289)
                      ..|..+       .|++++|.+++..+. .+.++++|++|++++|++++..+..+..+++|+.|++++|++++..|
T Consensus       338 ~~~~~~~~l~~L~~L~Ls~N~l~~~~~~-~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~  412 (455)
T 3v47_A          338 IDSRMFENLDKLEVLDLSYNHIRALGDQ-SFLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  412 (455)
T ss_dssp             ECGGGGTTCTTCCEEECCSSCCCEECTT-TTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCTT
T ss_pred             cChhHhcCcccCCEEECCCCcccccChh-hccccccccEEECCCCccccCCHhHhccCCcccEEEccCCCcccCCC
Confidence            433322       566666666543344 55666666666666666665444445566666666666666655544

>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=100.00  E-value=8.5e-32  Score=234.46  Aligned_cols=276  Identities=22%  Similarity=0.197  Sum_probs=192.0

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +++++|+|++|.+++..+..|.++++|++|++++|.+....+.. +.++++|++|++++|.+...+.  ..+..+++|++
T Consensus        32 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~  108 (477)
T 2id5_A           32 TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGA-FNNLFNLRTLGLRSNRLKLIPL--GVFTGLSNLTK  108 (477)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTT-TTTCTTCCEEECCSSCCCSCCT--TSSTTCTTCCE
T ss_pred             CCCcEEECCCCccceECHhHccCCCCCCEEECCCCccCEeChhh-hhCCccCCEEECCCCcCCccCc--ccccCCCCCCE
Confidence            35677777777777666677777777777777777665554333 5667777777777777666532  13556677777


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|.+....+..+..+++|+.|++++|.++ ...+..+..+++|++|++++|.+. .+++..+..+++|+.|++++|
T Consensus       109 L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~l~~l~~L~~L~l~~n  186 (477)
T 2id5_A          109 LDISENKIVILLDYMFQDLYNLKSLEVGDNDLV-YISHRAFSGLNSLEQLTLEKCNLT-SIPTEALSHLHGLIVLRLRHL  186 (477)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEEECCTTCC-EECTTSSTTCTTCCEEEEESCCCS-SCCHHHHTTCTTCCEEEEESC
T ss_pred             EECCCCccccCChhHccccccCCEEECCCCccc-eeChhhccCCCCCCEEECCCCcCc-ccChhHhcccCCCcEEeCCCC
Confidence            777777776666666667777777777777665 444445566667777777777666 332455666677777777666


Q ss_pred             CcccCCCCcccc-ccCcceeeccc------------------cccccCCcccccccccccCCCCCcEEEccCCeeeecCC
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQE------------------SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP  222 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~------------------~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  222 (289)
                      . +....+..+. +++|+.|++++                  .+++++|.++...+..+..+++|+.|++++|.+++..+
T Consensus       187 ~-i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~  265 (477)
T 2id5_A          187 N-INAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEG  265 (477)
T ss_dssp             C-CCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECT
T ss_pred             c-CcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccccCHHHhcCccccCeeECCCCcCCccCh
Confidence            6 4444444455 66666665543                  34457787876665678888899999999988876554


Q ss_pred             Cce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          223 WSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       223 ~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      ..+       .|++++|.+++..+. .+.++++|+.|++++|++++..+..+..+++|+.|++++|.+.
T Consensus       266 ~~~~~l~~L~~L~L~~n~l~~~~~~-~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~  333 (477)
T 2id5_A          266 SMLHELLRLQEIQLVGGQLAVVEPY-AFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLA  333 (477)
T ss_dssp             TSCTTCTTCCEEECCSSCCSEECTT-TBTTCTTCCEEECCSSCCSCCCGGGBSCGGGCCEEECCSSCEE
T ss_pred             hhccccccCCEEECCCCccceECHH-HhcCcccCCEEECCCCcCceeCHhHcCCCcccCEEEccCCCcc
Confidence            433       888999988865566 8888899999999999888766566788888999999988775

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

Probab=99.98  E-value=2.7e-31  Score=218.74  Aligned_cols=250  Identities=23%  Similarity=0.212  Sum_probs=180.0

Q ss_pred             CCCcEEEccCCcccc--cCCCccCCCCCCcEEeCCC-ccccccCCCcccCCCCcccEEeccCcccccc-chhhHhhhcCC
Q 040144            2 GNLRYLNFSKTRICG--IIPQQLGNLSNLQFLDLSS-KYLLYVDNFLWLSGISLLEHLDLRYVNLSIA-FDWLMVANKLL   77 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~--~~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~~~~~   77 (289)
                      .++++|+++++.+++  .+|..+.++++|++|++++ |.+....+.. +.++++|++|++++|.+... +.   .+..++
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~-l~~l~~L~~L~Ls~n~l~~~~p~---~~~~l~  125 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPD---FLSQIK  125 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCG---GGGGCT
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChh-HhcCCCCCEEECcCCeeCCcCCH---HHhCCC
Confidence            357777777777776  6777777777777777774 4444332222 56677777777777777643 33   566777


Q ss_pred             CccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCC-CCCEEEccCceeeeeeChhhhcCCCCccEE
Q 040144           78 SLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALS-HLPFLDLGFNNFQGTIDLEALGNLTSINRL  156 (289)
Q Consensus        78 ~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~-~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L  156 (289)
                      +|++|++++|.+....+..+..+++|++|++++|.++ +.++..+..+. +|++|++++|.+.+.. +..+..++ |++|
T Consensus       126 ~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~-~~~p~~l~~l~~~L~~L~L~~N~l~~~~-~~~~~~l~-L~~L  202 (313)
T 1ogq_A          126 TLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRIS-GAIPDSYGSFSKLFTSMTISRNRLTGKI-PPTFANLN-LAFV  202 (313)
T ss_dssp             TCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCE-EECCGGGGCCCTTCCEEECCSSEEEEEC-CGGGGGCC-CSEE
T ss_pred             CCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCccc-CcCCHHHhhhhhcCcEEECcCCeeeccC-ChHHhCCc-ccEE
Confidence            7777777777777666667777777777777777775 45666666666 7777777777777655 66666665 7777


Q ss_pred             eCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceee
Q 040144          157 DLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLN  235 (289)
Q Consensus       157 ~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~  235 (289)
                      ++++|. +.+..|..+. +++|+.|++      ++|.+++.++. +..+++|+.|++++|.++                 
T Consensus       203 ~Ls~N~-l~~~~~~~~~~l~~L~~L~L------~~N~l~~~~~~-~~~l~~L~~L~Ls~N~l~-----------------  257 (313)
T 1ogq_A          203 DLSRNM-LEGDASVLFGSDKNTQKIHL------AKNSLAFDLGK-VGLSKNLNGLDLRNNRIY-----------------  257 (313)
T ss_dssp             ECCSSE-EEECCGGGCCTTSCCSEEEC------CSSEECCBGGG-CCCCTTCCEEECCSSCCE-----------------
T ss_pred             ECcCCc-ccCcCCHHHhcCCCCCEEEC------CCCceeeecCc-ccccCCCCEEECcCCccc-----------------
Confidence            777777 6656666666 777777665      66777655554 566677777777766665                 


Q ss_pred             eeeccccccccccccEEEecCCeeeeccCCCccccccccEEeccccc-Ccc
Q 040144          236 VTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCY-IGS  285 (289)
Q Consensus       236 ~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~-~~~  285 (289)
                      +.+|. .+.++++|++|++++|++++.+|.. ..+++|+.+++++|+ +.+
T Consensus       258 ~~~p~-~l~~l~~L~~L~Ls~N~l~~~ip~~-~~l~~L~~l~l~~N~~lc~  306 (313)
T 1ogq_A          258 GTLPQ-GLTQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             ECCCG-GGGGCTTCCEEECCSSEEEEECCCS-TTGGGSCGGGTCSSSEEES
T ss_pred             CcCCh-HHhcCcCCCEEECcCCcccccCCCC-ccccccChHHhcCCCCccC
Confidence            45666 7889999999999999999888876 889999999999997 554

>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=99.98  E-value=3.4e-31  Score=230.69  Aligned_cols=265  Identities=19%  Similarity=0.186  Sum_probs=200.8

Q ss_pred             cEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEc
Q 040144            5 RYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRL   84 (289)
Q Consensus         5 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l   84 (289)
                      +.++..++.++ .+|..+  .+++++|++++|.+....... +.++++|++|++++|.+....+  ..+..+++|++|++
T Consensus        14 ~~v~c~~~~l~-~ip~~~--~~~l~~L~L~~n~l~~~~~~~-~~~l~~L~~L~L~~n~i~~~~~--~~~~~l~~L~~L~L   87 (477)
T 2id5_A           14 RAVLCHRKRFV-AVPEGI--PTETRLLDLGKNRIKTLNQDE-FASFPHLEELELNENIVSAVEP--GAFNNLFNLRTLGL   87 (477)
T ss_dssp             TEEECCSCCCS-SCCSCC--CTTCSEEECCSSCCCEECTTT-TTTCTTCCEEECTTSCCCEECT--TTTTTCTTCCEEEC
T ss_pred             CEEEeCCCCcC-cCCCCC--CCCCcEEECCCCccceECHhH-ccCCCCCCEEECCCCccCEeCh--hhhhCCccCCEEEC
Confidence            46677777776 466544  358999999999887765443 7889999999999999887622  27889999999999


Q ss_pred             cCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcc
Q 040144           85 SNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGL  164 (289)
Q Consensus        85 ~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~  164 (289)
                      ++|.+....+..+..+++|+.|++++|.++ ...+..+..+++|++|++++|.+.+.. +..+..+++|++|++++|. +
T Consensus        88 ~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~-~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~n~-l  164 (477)
T 2id5_A           88 RSNRLKLIPLGVFTGLSNLTKLDISENKIV-ILLDYMFQDLYNLKSLEVGDNDLVYIS-HRAFSGLNSLEQLTLEKCN-L  164 (477)
T ss_dssp             CSSCCCSCCTTSSTTCTTCCEEECTTSCCC-EECTTTTTTCTTCCEEEECCTTCCEEC-TTSSTTCTTCCEEEEESCC-C
T ss_pred             CCCcCCccCcccccCCCCCCEEECCCCccc-cCChhHccccccCCEEECCCCccceeC-hhhccCCCCCCEEECCCCc-C
Confidence            999999887778899999999999999997 556667888999999999999998544 7789999999999999998 6


Q ss_pred             cCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCC--------------------
Q 040144          165 TGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPW--------------------  223 (289)
Q Consensus       165 ~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~--------------------  223 (289)
                      .+..+..+. +++|+.|++      ++|.+.+..+..+..+++|+.|++++|...+.+|.                    
T Consensus       165 ~~~~~~~l~~l~~L~~L~l------~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~  238 (477)
T 2id5_A          165 TSIPTEALSHLHGLIVLRL------RHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTA  238 (477)
T ss_dssp             SSCCHHHHTTCTTCCEEEE------ESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCS
T ss_pred             cccChhHhcccCCCcEEeC------CCCcCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccc
Confidence            654445567 899999987      66666665555666666666666655543322221                    


Q ss_pred             -----------ceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCcc
Q 040144          224 -----------SFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       224 -----------~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                                 ...|++++|.+++..+. .+.++++|+.|++++|++.+..+..+..+++|+.|++++|++++
T Consensus       239 ~~~~~~~~l~~L~~L~Ls~n~l~~~~~~-~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~  310 (477)
T 2id5_A          239 VPYLAVRHLVYLRFLNLSYNPISTIEGS-MLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLTT  310 (477)
T ss_dssp             CCHHHHTTCTTCCEEECCSSCCCEECTT-SCTTCTTCCEEECCSSCCSEECTTTBTTCTTCCEEECCSSCCSC
T ss_pred             cCHHHhcCccccCeeECCCCcCCccChh-hccccccCCEEECCCCccceECHHHhcCcccCCEEECCCCcCce
Confidence                       11667777766643333 66677777777777777777667777777778888888777763

>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=99.97  E-value=3.9e-30  Score=230.32  Aligned_cols=134  Identities=20%  Similarity=0.214  Sum_probs=70.6

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|++|++++|.+++..|.+|+++++|++|++++|.+....+.. +.++++|++|++++|.+....+  ..+..+++|++
T Consensus        57 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~-~~~l~~L~~L~L~~n~i~~l~~--~~~~~l~~L~~  133 (606)
T 3t6q_A           57 INLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETA-LSGPKALKHLFFIQTGISSIDF--IPLHNQKTLES  133 (606)
T ss_dssp             TTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCSEECTTT-TSSCTTCCEEECTTSCCSCGGG--SCCTTCTTCCE
T ss_pred             ccceEEECCCCccceeChhhccCccccCeeeCCCCcccccChhh-hcccccccEeeccccCcccCCc--chhccCCcccE
Confidence            44555555555555544555555555555555555444333222 4455555555555555554311  13455556666


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCC--EEEccCceee
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLP--FLDLGFNNFQ  139 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~--~L~l~~n~~~  139 (289)
                      |++++|.+.......+..+++|+.|++++|.++ ...+..++.+++|+  .|++++|.+.
T Consensus       134 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~l~L~l~~n~l~  192 (606)
T 3t6q_A          134 LYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIH-YLSKEDMSSLQQATNLSLNLNGNDIA  192 (606)
T ss_dssp             EECCSSCCCCCCCCTTCCCTTCCEEECCSSCCC-EECHHHHHTTTTCCSEEEECTTCCCC
T ss_pred             EECCCCcccccCcccccCCcccCEEEcccCccc-ccChhhhhhhcccceeEEecCCCccC
Confidence            666666655543333344666666666666665 33344555555555  5555555544

>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=99.97  E-value=3.6e-30  Score=230.51  Aligned_cols=271  Identities=24%  Similarity=0.206  Sum_probs=218.6

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      .++++++.+|.+++..+..|..+++|++|++++|.+..++..  +.++++|++|++++|.+....+  ..+..+++|++|
T Consensus       255 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~lp~~--l~~l~~L~~L~l~~n~l~~~~~--~~~~~l~~L~~L  330 (606)
T 3t6q_A          255 SVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSG--LVGLSTLKKLVLSANKFENLCQ--ISASNFPSLTHL  330 (606)
T ss_dssp             EEEEEECTTCCCSSCCTTTTTTCTTCSEEECTTSCCSCCCSS--CCSCTTCCEEECTTCCCSBGGG--GCGGGCTTCSEE
T ss_pred             ceeEEEeecCccCccCHHHhccccCCCEEeccCCccCCCChh--hcccccCCEEECccCCcCcCch--hhhhccCcCCEE
Confidence            578899999999887888899999999999999987765543  6789999999999998887632  267788999999


Q ss_pred             EccCCccCCC-CcccccCCCCCcEEeccCCCCCCcch--hhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCC
Q 040144           83 RLSNCQLQHF-SPLATVNFSSLTMLDLSHNQFDNSFI--LSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLS  159 (289)
Q Consensus        83 ~l~~~~l~~~-~~~~l~~~~~L~~L~l~~~~~~~~~~--~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~  159 (289)
                      ++++|.+... .+..+..+++|++|++++|.++ ...  +..+..+++|++|++++|.+.+.. +..+..+++|++|+++
T Consensus       331 ~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~  408 (606)
T 3t6q_A          331 SIKGNTKRLELGTGCLENLENLRELDLSHDDIE-TSDCCNLQLRNLSHLQSLNLSYNEPLSLK-TEAFKECPQLELLDLA  408 (606)
T ss_dssp             ECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCC-EEEESTTTTTTCTTCCEEECCSCSCEEEC-TTTTTTCTTCSEEECT
T ss_pred             ECCCCCcccccchhhhhccCcCCEEECCCCccc-cccCcchhcccCCCCCEEECCCCcCCcCC-HHHhcCCccCCeEECC
Confidence            9999987743 3445788999999999999887 333  556778899999999999888554 7788899999999999


Q ss_pred             CCCcccCCCCc-ccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeec-CC--Cce-------EE
Q 040144          160 LNTGLTGRIPR-SMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF-IP--WSF-------EL  227 (289)
Q Consensus       160 ~n~~~~~~~~~-~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~-~~--~~~-------~L  227 (289)
                      +|. +.+..+. .+. +++|+.|++      ++|.+.+..+..++.+++|+.|++++|.+.+. ++  ..+       .|
T Consensus       409 ~n~-l~~~~~~~~~~~l~~L~~L~l------~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L  481 (606)
T 3t6q_A          409 FTR-LKVKDAQSPFQNLHLLKVLNL------SHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEIL  481 (606)
T ss_dssp             TCC-EECCTTCCTTTTCTTCCEEEC------TTCCCBTTCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEE
T ss_pred             CCc-CCCcccchhhhCcccCCEEEC------CCCccCCcCHHHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEE
Confidence            998 6655544 366 888988886      78888888888888889999999999988652 11  112       88


Q ss_pred             EeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCccCCC
Q 040144          228 HIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFP  288 (289)
Q Consensus       228 ~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~p  288 (289)
                      ++++|.+++..+. .+.++++|+.|++++|++++..|..+..+++| .|++++|++++..|
T Consensus       482 ~Ls~n~l~~~~~~-~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~L-~L~L~~N~l~~~~~  540 (606)
T 3t6q_A          482 VLSFCDLSSIDQH-AFTSLKMMNHVDLSHNRLTSSSIEALSHLKGI-YLNLASNHISIILP  540 (606)
T ss_dssp             ECTTSCCCEECTT-TTTTCTTCCEEECCSSCCCGGGGGGGTTCCSC-EEECCSSCCCCCCG
T ss_pred             ECCCCccCccChh-hhccccCCCEEECCCCccCcCChhHhCccccc-EEECcCCcccccCH
Confidence            8999888865566 78888899999999998888888888888888 88888888875544

>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=99.97  E-value=6.1e-30  Score=229.04  Aligned_cols=131  Identities=21%  Similarity=0.253  Sum_probs=60.6

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCcccccc-chhhHhhhcCCCccE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIA-FDWLMVANKLLSLVE   81 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~~~~~~L~~   81 (289)
                      .+++|++++|.+++..+..|.++++|++|++++|.+....+.. +.++++|++|++++|.+... +.   .+..+++|++
T Consensus        33 ~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~-~~~l~~L~~L~Ls~n~l~~~~p~---~~~~l~~L~~  108 (606)
T 3vq2_A           33 STKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKA-WHGLHHLSNLILTGNPIQSFSPG---SFSGLTSLEN  108 (606)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTT-TTTCTTCCEEECTTCCCCCCCTT---SSTTCTTCCE
T ss_pred             CcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHH-hhchhhcCEeECCCCcccccChh---hcCCcccCCE
Confidence            3455555555555444445555555555555555444333222 34455555555555544443 22   3444455555


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCce
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNN  137 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~  137 (289)
                      |++++|.+....+..++.+++|++|++++|.++...+|..++.+++|++|++++|.
T Consensus       109 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~  164 (606)
T 3vq2_A          109 LVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNY  164 (606)
T ss_dssp             EECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSC
T ss_pred             EEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCc
Confidence            55555544444333444444444444444444311233444444444444444443

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

Probab=99.97  E-value=1.8e-30  Score=233.19  Aligned_cols=273  Identities=17%  Similarity=0.201  Sum_probs=199.0

Q ss_pred             CCCCcEEEccCCccccc-----------------CCCccC--CCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCc
Q 040144            1 MGNLRYLNFSKTRICGI-----------------IPQQLG--NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV   61 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~-----------------~~~~l~--~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   61 (289)
                      +++|++|+|++|.+++.                 +|..++  ++++|++|++++|.+....+.. +.++++|++|++++|
T Consensus       205 l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~Ls~n  283 (636)
T 4eco_A          205 LTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTF-LKALPEMQLINVACN  283 (636)
T ss_dssp             CTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTT-TTTCSSCCEEECTTC
T ss_pred             ccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHH-HhcCCCCCEEECcCC
Confidence            57899999999999985                 899999  9999999999998765544333 788999999999999


Q ss_pred             c-ccc--cchhhHhhhc------CCCccEEEccCCccCCCCcc--cccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCE
Q 040144           62 N-LSI--AFDWLMVANK------LLSLVELRLSNCQLQHFSPL--ATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPF  130 (289)
Q Consensus        62 ~-~~~--~~~~~~~~~~------~~~L~~L~l~~~~l~~~~~~--~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~  130 (289)
                      . +..  .+.   .+..      +++|++|++++|.++ ..|.  .++.+++|+.|++++|.++ +.++ .++.+++|++
T Consensus       284 ~~l~~~~lp~---~~~~L~~~~~l~~L~~L~L~~n~l~-~ip~~~~l~~l~~L~~L~L~~N~l~-g~ip-~~~~l~~L~~  357 (636)
T 4eco_A          284 RGISGEQLKD---DWQALADAPVGEKIQIIYIGYNNLK-TFPVETSLQKMKKLGMLECLYNQLE-GKLP-AFGSEIKLAS  357 (636)
T ss_dssp             TTSCHHHHHH---HHHHHHHSGGGGTCCEEECCSSCCS-SCCCHHHHTTCTTCCEEECCSCCCE-EECC-CCEEEEEESE
T ss_pred             CCCccccchH---HHHhhhccccCCCCCEEECCCCcCC-ccCchhhhccCCCCCEEeCcCCcCc-cchh-hhCCCCCCCE
Confidence            8 765  233   4444      489999999999999 4466  7899999999999999996 5677 7778899999


Q ss_pred             EEccCceeeeeeChhhhcCCCC-ccEEeCCCCCcccCCCCcccc-cc--Ccceeeccc----------------------
Q 040144          131 LDLGFNNFQGTIDLEALGNLTS-INRLDLSLNTGLTGRIPRSMA-LC--NLKSINLQE----------------------  184 (289)
Q Consensus       131 L~l~~n~~~~~~~~~~~~~~~~-L~~L~l~~n~~~~~~~~~~~~-~~--~L~~L~l~~----------------------  184 (289)
                      |++++|.+. .+ |..+..+++ |++|++++|. +. .+|..+. ..  +|+.|+++.                      
T Consensus       358 L~L~~N~l~-~l-p~~l~~l~~~L~~L~Ls~N~-l~-~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~  433 (636)
T 4eco_A          358 LNLAYNQIT-EI-PANFCGFTEQVENLSFAHNK-LK-YIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGI  433 (636)
T ss_dssp             EECCSSEEE-EC-CTTSEEECTTCCEEECCSSC-CS-SCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCC
T ss_pred             EECCCCccc-cc-cHhhhhhcccCcEEEccCCc-Cc-ccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCC
Confidence            999999998 67 777888988 9999999998 66 6777666 33  677776622                      


Q ss_pred             ---cccccCCcccccccccccCCCCCcEEEccCCeeeecCCC--------------ce-EEEeecceeeeeecccccc--
Q 040144          185 ---SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPW--------------SF-ELHIYDNKLNVTLFELHFA--  244 (289)
Q Consensus       185 ---~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~--------------~~-~L~l~~n~~~~~~~~~~~~--  244 (289)
                         .+++++|.++...+..+..+++|+.|++++|.++ .+|.              .+ .|++++|.++ .+|. .+.  
T Consensus       434 ~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~lp~-~~~~~  510 (636)
T 4eco_A          434 NVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLT-EIPKNSLKDENENFKNTYLLTSIDLRFNKLT-KLSD-DFRAT  510 (636)
T ss_dssp             CEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSSCCS-BCCSSSSEETTEECTTGGGCCEEECCSSCCC-BCCG-GGSTT
T ss_pred             CCCEEECcCCccCcCCHHHHccCCCCCEEECCCCCCC-CcCHHHhccccccccccCCccEEECcCCcCC-ccCh-hhhhc
Confidence               2233444444322333344556666666666555 2222              11 5666666666 5665 444  


Q ss_pred             ccccccEEEecCCeeeeccCCCccccccccEEec------ccccCccCCC
Q 040144          245 NLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGL------HSCYIGSRFP  288 (289)
Q Consensus       245 ~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l------~~n~~~~~~p  288 (289)
                      .+++|+.|++++|++++ +|..+..+++|+.|++      ++|++.+.+|
T Consensus       511 ~l~~L~~L~Ls~N~l~~-ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p  559 (636)
T 4eco_A          511 TLPYLVGIDLSYNSFSK-FPTQPLNSSTLKGFGIRNQRDAQGNRTLREWP  559 (636)
T ss_dssp             TCTTCCEEECCSSCCSS-CCCGGGGCSSCCEEECCSCBCTTCCBCCCCCC
T ss_pred             cCCCcCEEECCCCCCCC-cChhhhcCCCCCEEECCCCcccccCcccccCh
Confidence            66777777777777765 6666667777777777      3455555555

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

Probab=99.97  E-value=4.3e-31  Score=237.16  Aligned_cols=274  Identities=16%  Similarity=0.247  Sum_probs=190.1

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCcccc------c------------------------------------
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLL------Y------------------------------------   40 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~------~------------------------------------   40 (289)
                      +++.|+|+++.+.|.+|++++++++|++|++++|...      .                                    
T Consensus        82 ~V~~L~L~~~~l~g~lp~~l~~L~~L~~L~Ls~N~~~~~~~~~~~~~~~~~~~~~~~~~l~l~l~~~~l~~~~~~~~~~~  161 (636)
T 4eco_A           82 RVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDL  161 (636)
T ss_dssp             CEEEEECTTSCCEEEECGGGGGCTTCCEEESCCGGGGGTCCSBSTTSBCTTCCHHHHHHHHTHHHHHHTCCCGGGGSCHH
T ss_pred             CEEEEEecCcccCCcCChHHhcCccceEEECcCCccccCCccccccccccCchHHHHHHHHhhHHHhhhccCchhhHHHH
Confidence            6789999999999999999999999999999988430      0                                    


Q ss_pred             ---------------------------------c-CCCcccCCCCcccEEeccCccccc------------------cch
Q 040144           41 ---------------------------------V-DNFLWLSGISLLEHLDLRYVNLSI------------------AFD   68 (289)
Q Consensus        41 ---------------------------------~-~~~~~~~~l~~L~~L~l~~~~~~~------------------~~~   68 (289)
                                                       . +.+..+.++++|++|++++|.+..                  .+.
T Consensus       162 ~~~l~~~~l~~~~~~~~~~~~l~~l~l~~~~n~l~~ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~  241 (636)
T 4eco_A          162 IKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTE  241 (636)
T ss_dssp             HHHHHHHCTTSCCCCCCCCCCCCTTTTTCCSCEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTS
T ss_pred             HHHHhhcCccccccccccccchhhhhhccccCCCccCCHHHhcccCCCEEECcCCccccccccccccccccchhcccCch
Confidence                                             0 011226778999999999999887                  443


Q ss_pred             hhHhhh--cCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCC-CCCc-chhhHhhcC------CCCCEEEccCcee
Q 040144           69 WLMVAN--KLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQ-FDNS-FILSWVFAL------SHLPFLDLGFNNF  138 (289)
Q Consensus        69 ~~~~~~--~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~-~~~~-~~~~~~~~~------~~L~~L~l~~n~~  138 (289)
                         .+.  ++++|++|++++|.+....|..++.+++|+.|++++|. ++ + .+|..++.+      ++|++|++++|.+
T Consensus       242 ---~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~-~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l  317 (636)
T 4eco_A          242 ---DLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGIS-GEQLKDDWQALADAPVGEKIQIIYIGYNNL  317 (636)
T ss_dssp             ---CCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSC-HHHHHHHHHHHHHSGGGGTCCEEECCSSCC
T ss_pred             ---hhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCc-cccchHHHHhhhccccCCCCCEEECCCCcC
Confidence               666  89999999999999888888889999999999999998 76 5 677777665      8899999999988


Q ss_pred             eeeeChh--hhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccc------------------cccccCCcccccc
Q 040144          139 QGTIDLE--ALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQE------------------SLDMRSSSIYGHL  197 (289)
Q Consensus       139 ~~~~~~~--~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~------------------~l~l~~~~~~~~~  197 (289)
                      + .+ |.  .++.+++|++|++++|. +.+.+| .+. +++|+.|++++                  .+++++|.++ .+
T Consensus       318 ~-~i-p~~~~l~~l~~L~~L~L~~N~-l~g~ip-~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~-~l  392 (636)
T 4eco_A          318 K-TF-PVETSLQKMKKLGMLECLYNQ-LEGKLP-AFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLK-YI  392 (636)
T ss_dssp             S-SC-CCHHHHTTCTTCCEEECCSCC-CEEECC-CCEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCS-SC
T ss_pred             C-cc-CchhhhccCCCCCEEeCcCCc-Cccchh-hhCCCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCc-cc
Confidence            8 66 66  78888999999999888 766777 666 77777777632                  2233444444 33


Q ss_pred             cccccCCC--CCcEEEccCCeeeecCCCc--------------eEEEeecceeeeeeccccccccccccEEEecCCeeee
Q 040144          198 TDQLGQFR--NLVTFNLVNNSIVGFIPWS--------------FELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       198 ~~~l~~~~--~L~~L~l~~n~~~~~~~~~--------------~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                      |..+...+  +|+.|++++|.+.+..|..              ..|++++|.++ .+|...+..+++|+.|++++|+++ 
T Consensus       393 p~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~~~l~~L~~L~Ls~N~l~-  470 (636)
T 4eco_A          393 PNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQIS-KFPKELFSTGSPLSSINLMGNMLT-  470 (636)
T ss_dssp             CSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCC-SCCTHHHHTTCCCSEEECCSSCCS-
T ss_pred             chhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccC-cCCHHHHccCCCCCEEECCCCCCC-
Confidence            44443322  4555555555554432211              15566666555 444423344566666666666666 


Q ss_pred             ccCCCcccc--------ccccEEecccccCccCCC
Q 040144          262 EVKHDWIPH--------FQLVALGLHSCYIGSRFP  288 (289)
Q Consensus       262 ~~~~~~~~~--------~~L~~l~l~~n~~~~~~p  288 (289)
                      .+|..+...        ++|+.|++++|+++ .+|
T Consensus       471 ~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~lp  504 (636)
T 4eco_A          471 EIPKNSLKDENENFKNTYLLTSIDLRFNKLT-KLS  504 (636)
T ss_dssp             BCCSSSSEETTEECTTGGGCCEEECCSSCCC-BCC
T ss_pred             CcCHHHhccccccccccCCccEEECcCCcCC-ccC
Confidence            344432221        26666666666665 444

>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=99.97  E-value=1.4e-29  Score=219.28  Aligned_cols=270  Identities=20%  Similarity=0.259  Sum_probs=215.1

Q ss_pred             EEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEcc
Q 040144            6 YLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLS   85 (289)
Q Consensus         6 ~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~   85 (289)
                      .++..++.++ .+|. +  .++|++|++++|.+....+.. +.++++|++|++++|.+..... ...+..+++|++|+++
T Consensus        14 ~~~c~~~~l~-~lp~-l--~~~l~~L~Ls~n~i~~~~~~~-~~~l~~L~~L~L~~n~~~~~i~-~~~~~~l~~L~~L~Ls   87 (455)
T 3v47_A           14 NAICINRGLH-QVPE-L--PAHVNYVDLSLNSIAELNETS-FSRLQDLQFLKVEQQTPGLVIR-NNTFRGLSSLIILKLD   87 (455)
T ss_dssp             EEECCSSCCS-SCCC-C--CTTCCEEECCSSCCCEECTTT-TSSCTTCCEEECCCCSTTCEEC-TTTTTTCTTCCEEECT
T ss_pred             ccCcCCCCcc-cCCC-C--CCccCEEEecCCccCcCChhH-hccCccccEEECcCCcccceEC-cccccccccCCEEeCC
Confidence            4555666665 3554 2  278999999999887665443 7889999999999998764311 1267889999999999


Q ss_pred             CCccCCCCcccccCCCCCcEEeccCCCCCCcchhhH--hhcCCCCCEEEccCceeeeeeChhh-hcCCCCccEEeCCCCC
Q 040144           86 NCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSW--VFALSHLPFLDLGFNNFQGTIDLEA-LGNLTSINRLDLSLNT  162 (289)
Q Consensus        86 ~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~--~~~~~~L~~L~l~~n~~~~~~~~~~-~~~~~~L~~L~l~~n~  162 (289)
                      +|.+....+..++.+++|++|++++|.++ ...+..  +..+++|++|++++|.+.+.. +.. +..+++|++|++++|.
T Consensus        88 ~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~~l~~L~~L~L~~n~  165 (455)
T 3v47_A           88 YNQFLQLETGAFNGLANLEVLTLTQCNLD-GAVLSGNFFKPLTSLEMLVLRDNNIKKIQ-PASFFLNMRRFHVLDLTFNK  165 (455)
T ss_dssp             TCTTCEECTTTTTTCTTCCEEECTTSCCB-THHHHSSTTTTCTTCCEEECCSSBCCSCC-CCGGGGGCTTCCEEECTTCC
T ss_pred             CCccCccChhhccCcccCCEEeCCCCCCC-ccccCcccccCcccCCEEECCCCccCccC-cccccCCCCcccEEeCCCCc
Confidence            99999888888999999999999999997 434443  778999999999999998554 444 8899999999999998


Q ss_pred             cccCCCCcccc-c----------------------------------cCcceeeccc-----------------------
Q 040144          163 GLTGRIPRSMA-L----------------------------------CNLKSINLQE-----------------------  184 (289)
Q Consensus       163 ~~~~~~~~~~~-~----------------------------------~~L~~L~l~~-----------------------  184 (289)
                       +.+..+..+. +                                  ++|++|++++                       
T Consensus       166 -l~~~~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L  244 (455)
T 3v47_A          166 -VKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSL  244 (455)
T ss_dssp             -BSCCCTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEE
T ss_pred             -ccccChhhhhccccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeE
Confidence             6655554443 2                                  4566665543                       


Q ss_pred             ----------------------------------cccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-----
Q 040144          185 ----------------------------------SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----  225 (289)
Q Consensus       185 ----------------------------------~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-----  225 (289)
                                                        .+++++|.+.+..+..++.+++|+.|++++|.+.+..|..+     
T Consensus       245 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  324 (455)
T 3v47_A          245 ILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTH  324 (455)
T ss_dssp             ECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTT
T ss_pred             eeccccccccccchhhhccCcccccccccccCceEEEecCccccccchhhcccCCCCCEEECCCCcccccChhHhcCccc
Confidence                                              23445566666677788899999999999999987766544     


Q ss_pred             --EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCcc
Q 040144          226 --ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       226 --~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                        .|++++|.+++..+. .+.++++|++|++++|++++..|..+..+++|++|++++|++++
T Consensus       325 L~~L~Ls~N~l~~~~~~-~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~  385 (455)
T 3v47_A          325 LLKLNLSQNFLGSIDSR-MFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQLKS  385 (455)
T ss_dssp             CCEEECCSSCCCEECGG-GGTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSC
T ss_pred             CCEEECCCCccCCcChh-HhcCcccCCEEECCCCcccccChhhccccccccEEECCCCcccc
Confidence              899999999865566 88999999999999999998888899999999999999999985

>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=99.97  E-value=1.1e-29  Score=227.49  Aligned_cols=157  Identities=20%  Similarity=0.209  Sum_probs=93.8

Q ss_pred             CCCCCEEEccCceeeeee-ChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccc------------------
Q 040144          125 LSHLPFLDLGFNNFQGTI-DLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQE------------------  184 (289)
Q Consensus       125 ~~~L~~L~l~~n~~~~~~-~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~------------------  184 (289)
                      +++|++|++++|.+.+.. .+..+..+++|++|++++|. +. ..|..+. +++|+.|++++                  
T Consensus       349 l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~-l~-~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L  426 (606)
T 3vq2_A          349 LPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNG-AI-IMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKL  426 (606)
T ss_dssp             CTTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCS-EE-EECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTC
T ss_pred             CCCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCc-cc-cchhhccCCCCCCeeECCCCccCCccChhhhhccccC
Confidence            445666666666655321 13445555555555555554 33 2333333 44444444422                  


Q ss_pred             -cccccCCcccccccccccCCCCCcEEEccCCeeeec-CCCce-------EEEeecceeeeeeccccccccccccEEEec
Q 040144          185 -SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF-IPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVG  255 (289)
Q Consensus       185 -~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~-~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~  255 (289)
                       .+++++|.+.+..|..++.+++|+.|++++|.+.+. +|..+       .|++++|.+++..+. .+.++++|++|+++
T Consensus       427 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~-~~~~l~~L~~L~Ls  505 (606)
T 3vq2_A          427 LYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWG-VFDTLHRLQLLNMS  505 (606)
T ss_dssp             CEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTT-TTTTCTTCCEEECC
T ss_pred             CEEECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCCcCCccChh-hhcccccCCEEECC
Confidence             223366666666666677777777777777776652 34333       677777777654455 66777777777777


Q ss_pred             CCeeeeccCCCccccccccEEecccccCc
Q 040144          256 GNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       256 ~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      +|++++..|..+..+++|+.|++++|+++
T Consensus       506 ~N~l~~~~~~~~~~l~~L~~L~l~~N~l~  534 (606)
T 3vq2_A          506 HNNLLFLDSSHYNQLYSLSTLDCSFNRIE  534 (606)
T ss_dssp             SSCCSCEEGGGTTTCTTCCEEECTTSCCC
T ss_pred             CCcCCCcCHHHccCCCcCCEEECCCCcCc
Confidence            77777666667777777777777777765

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

Probab=99.97  E-value=1.1e-29  Score=234.94  Aligned_cols=277  Identities=22%  Similarity=0.249  Sum_probs=194.5

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCcccccc-chhhHhhhcCCCcc
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIA-FDWLMVANKLLSLV   80 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~~~~~~L~   80 (289)
                      +++++|+|++|.+++..+..|.++++|++|++++|..........+.++++|++|++++|.+... +.   .+..+++|+
T Consensus        24 ~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~---~~~~l~~L~  100 (844)
T 3j0a_A           24 NTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPD---AFQGLFHLF  100 (844)
T ss_dssp             TTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTT---SSCSCSSCC
T ss_pred             CCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHh---HccCCcccC
Confidence            67899999999998888889999999999999988543322223378899999999999988776 43   678889999


Q ss_pred             EEEccCCccCCCCccc--ccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCC--CCccEE
Q 040144           81 ELRLSNCQLQHFSPLA--TVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNL--TSINRL  156 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~--l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~--~~L~~L  156 (289)
                      +|++++|.+....+..  +..+++|+.|++++|.++....+..++.+++|++|++++|.+.+.. +..+..+  ++|+.|
T Consensus       101 ~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~-~~~l~~l~~~~L~~L  179 (844)
T 3j0a_A          101 ELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVC-EHELEPLQGKTLSFF  179 (844)
T ss_dssp             CEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCC-SGGGHHHHHCSSCCC
T ss_pred             EeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeC-HHHcccccCCccceE
Confidence            9999999888754433  7888999999999998873333356788899999999998876443 4444433  444444


Q ss_pred             eCCCCCcccCCCCcccc-ccC------cceeeccc---------------------------------------------
Q 040144          157 DLSLNTGLTGRIPRSMA-LCN------LKSINLQE---------------------------------------------  184 (289)
Q Consensus       157 ~l~~n~~~~~~~~~~~~-~~~------L~~L~l~~---------------------------------------------  184 (289)
                      ++++|. +.+..|..+. +++      |+.|++++                                             
T Consensus       180 ~L~~n~-l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~~  258 (844)
T 3j0a_A          180 SLAANS-LYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQN  258 (844)
T ss_dssp             EECCSB-SCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSSTTGGGT
T ss_pred             ECCCCc-cccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccCCCChh
Confidence            444444 3333332222 221      33332211                                             


Q ss_pred             -----------cccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeecccccccc
Q 040144          185 -----------SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANL  246 (289)
Q Consensus       185 -----------~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~  246 (289)
                                 .+++++|.+.+..+..+..+++|+.|++++|.+.+..|..+       .|++++|.+++..+. .+.++
T Consensus       259 ~f~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~-~~~~l  337 (844)
T 3j0a_A          259 TFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSS-NFYGL  337 (844)
T ss_dssp             TTTTTTTSCCCEEECTTCCCCEECSCCSSSCCCCCEEEEESCCCCEECTTTTTTCSSCCEEEEESCCCSCCCSC-SCSSC
T ss_pred             hhhccccCCccEEECCCCcccccChhhhhcCCCCCEEECCCCcCCCCChHHhcCCCCCCEEECCCCCCCccCHH-HhcCC
Confidence                       23346666666666777777788888888887776555443       778888877754455 77778


Q ss_pred             ccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          247 IEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       247 ~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      ++|+.|++++|++.+..+..+..+++|+.|++++|.++
T Consensus       338 ~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~  375 (844)
T 3j0a_A          338 PKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALT  375 (844)
T ss_dssp             TTCCEEECCSCCCCCCCSSCSCSCCCCCEEEEETCCSC
T ss_pred             CCCCEEECCCCCCCccChhhhcCCCCCCEEECCCCCCC
Confidence            88888888888877666666777788888888887775

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

Probab=99.97  E-value=7.8e-29  Score=220.30  Aligned_cols=134  Identities=21%  Similarity=0.195  Sum_probs=94.3

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      .+++|++++|.+++..+.+|.++++|++|++++|.+...+... +.++++|++|++++|.+...++  ..+..+++|++|
T Consensus        29 ~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~L  105 (570)
T 2z63_A           29 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGA-YQSLSHLSTLILTGNPIQSLAL--GAFSGLSSLQKL  105 (570)
T ss_dssp             SCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCCCCEECTTT-TTTCTTCCEEECTTCCCCEECT--TTTTTCTTCCEE
T ss_pred             cccEEEccCCccCccChhHhhCCCCceEEECCCCcCCccCccc-ccCchhCCEEeCcCCcCCccCH--hhhcCccccccc
Confidence            5778888888877766777788888888888887766554333 6677888888888887766532  256677777777


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceee
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQ  139 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  139 (289)
                      ++++|.+....+..++.+++|++|++++|.++...+|..++.+++|++|++++|.+.
T Consensus       106 ~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~  162 (570)
T 2z63_A          106 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQ  162 (570)
T ss_dssp             ECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCC
T ss_pred             cccccccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCccc
Confidence            777777776655556777777777777777652235666677777777777776654

>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=99.97  E-value=3.7e-29  Score=220.08  Aligned_cols=134  Identities=22%  Similarity=0.261  Sum_probs=86.5

Q ss_pred             cCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccc--------------------cccccCCcccccccc-cccCCC
Q 040144          148 GNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQE--------------------SLDMRSSSIYGHLTD-QLGQFR  205 (289)
Q Consensus       148 ~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~--------------------~l~l~~~~~~~~~~~-~l~~~~  205 (289)
                      ..+++|++|++++|. +.+..|..+. +++|++|++++                    .+++++|.+.+.+|. .+..++
T Consensus       321 ~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~  399 (520)
T 2z7x_B          321 SKISPFLHLDFSNNL-LTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTK  399 (520)
T ss_dssp             SSCCCCCEEECCSSC-CCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCT
T ss_pred             hhCCcccEEEeECCc-cChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCc
Confidence            456678888888887 6666677777 77888777643                    344455555542332 355556


Q ss_pred             CCcEEEccCCeeeecCCCce-----EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCC-ccccccccEEecc
Q 040144          206 NLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHD-WIPHFQLVALGLH  279 (289)
Q Consensus       206 ~L~~L~l~~n~~~~~~~~~~-----~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~-~~~~~~L~~l~l~  279 (289)
                      +|+.|++++|.+++..|..+     .|++++|.++ .+|. .+..+++|++|++++|++++ +|.. +..+++|+.|+++
T Consensus       400 ~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N~l~-~ip~-~~~~l~~L~~L~L~~N~l~~-l~~~~~~~l~~L~~L~l~  476 (520)
T 2z7x_B          400 SLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIK-SIPK-QVVKLEALQELNVASNQLKS-VPDGIFDRLTSLQKIWLH  476 (520)
T ss_dssp             TCCEEECCSSCCCGGGGGSCCTTCCEEECCSSCCC-CCCG-GGGGCTTCCEEECCSSCCCC-CCTTTTTTCTTCCEEECC
T ss_pred             cCCEEECcCCCCCcchhhhhcccCCEEECCCCccc-ccch-hhhcCCCCCEEECCCCcCCc-cCHHHhccCCcccEEECc
Confidence            66666666666654433222     6777777776 6666 55577777777777777774 4443 6677777777777


Q ss_pred             cccCcc
Q 040144          280 SCYIGS  285 (289)
Q Consensus       280 ~n~~~~  285 (289)
                      +|+++.
T Consensus       477 ~N~~~c  482 (520)
T 2z7x_B          477 TNPWDC  482 (520)
T ss_dssp             SSCBCC
T ss_pred             CCCCcc
Confidence            777654

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

Probab=99.97  E-value=1.2e-28  Score=219.13  Aligned_cols=156  Identities=20%  Similarity=0.252  Sum_probs=102.7

Q ss_pred             hcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCC-cccc-ccCcceeeccccccccCCccccccccc
Q 040144          123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIP-RSMA-LCNLKSINLQESLDMRSSSIYGHLTDQ  200 (289)
Q Consensus       123 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~-~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~  200 (289)
                      ..+++|++|++++|.+.+ + +..+..+++|++|++++|. +.+..+ ..+. +++|+.|++      ++|.+.+..+..
T Consensus       370 ~~~~~L~~L~l~~n~l~~-~-~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~l------~~n~l~~~~~~~  440 (570)
T 2z63_A          370 FGTTSLKYLDLSFNGVIT-M-SSNFLGLEQLEHLDFQHSN-LKQMSEFSVFLSLRNLIYLDI------SHTHTRVAFNGI  440 (570)
T ss_dssp             HTCSCCCEEECCSCSEEE-E-EEEEETCTTCCEEECTTSE-EESCTTSCTTTTCTTCCEEEC------TTSCCEECCTTT
T ss_pred             cccCccCEEECCCCcccc-c-cccccccCCCCEEEccCCc-cccccchhhhhcCCCCCEEeC------cCCcccccchhh
Confidence            334444444444444432 2 1224455555555555554 333333 2333 555555554      777777777777


Q ss_pred             ccCCCCCcEEEccCCeee-ecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCcccccc
Q 040144          201 LGQFRNLVTFNLVNNSIV-GFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQ  272 (289)
Q Consensus       201 l~~~~~L~~L~l~~n~~~-~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~  272 (289)
                      +..+++|+.|++++|.+. +.+|..+       .|++++|.+++..|. .+.++++|++|++++|++++..+..+..+++
T Consensus       441 ~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~l~~~~~~-~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~  519 (570)
T 2z63_A          441 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPT-AFNSLSSLQVLNMASNQLKSVPDGIFDRLTS  519 (570)
T ss_dssp             TTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTT-TTTTCTTCCEEECCSSCCSCCCTTTTTTCTT
T ss_pred             hhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCccccCChh-hhhcccCCCEEeCCCCcCCCCCHHHhhcccC
Confidence            888888888888888876 3455444       788888888865566 7888888888888888888766667888888


Q ss_pred             ccEEecccccCccCCC
Q 040144          273 LVALGLHSCYIGSRFP  288 (289)
Q Consensus       273 L~~l~l~~n~~~~~~p  288 (289)
                      |+.|++++|.+++..|
T Consensus       520 L~~L~l~~N~~~~~~~  535 (570)
T 2z63_A          520 LQKIWLHTNPWDCSCP  535 (570)
T ss_dssp             CCEEECCSSCBCCCTT
T ss_pred             CcEEEecCCcccCCCc
Confidence            8888888888877665

>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=99.97  E-value=3.2e-29  Score=222.41  Aligned_cols=107  Identities=25%  Similarity=0.212  Sum_probs=66.7

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +++++|++++|.+++..+..|.++++|++|++++|.+....+.. +.++++|++|++++|.+...+.   .  .+++|++
T Consensus        52 ~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~-~~~l~~L~~L~Ls~N~l~~lp~---~--~l~~L~~  125 (562)
T 3a79_B           52 PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHV-FLFNQDLEYLDVSHNRLQNISC---C--PMASLRH  125 (562)
T ss_dssp             TTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTT-TTTCTTCCEEECTTSCCCEECS---C--CCTTCSE
T ss_pred             CCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHH-hCCCCCCCEEECCCCcCCccCc---c--ccccCCE
Confidence            45677777777776655566777777777777776655544332 5666777777777776665443   2  5666666


Q ss_pred             EEccCCccCCCC-cccccCCCCCcEEeccCCCCC
Q 040144           82 LRLSNCQLQHFS-PLATVNFSSLTMLDLSHNQFD  114 (289)
Q Consensus        82 L~l~~~~l~~~~-~~~l~~~~~L~~L~l~~~~~~  114 (289)
                      |++++|.+.... +..++.+++|+.|++++|.++
T Consensus       126 L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~  159 (562)
T 3a79_B          126 LDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFR  159 (562)
T ss_dssp             EECCSSCCSBCCCCGGGGGCTTCCEEEEECSBCC
T ss_pred             EECCCCCccccCchHhhcccCcccEEecCCCccc
Confidence            666666666532 345566666666666665543

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

Probab=99.97  E-value=1.6e-29  Score=231.64  Aligned_cols=164  Identities=19%  Similarity=0.191  Sum_probs=113.3

Q ss_pred             CCCCcEEEccCCcccc-----------------cCCCccC--CCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCc
Q 040144            1 MGNLRYLNFSKTRICG-----------------IIPQQLG--NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV   61 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~-----------------~~~~~l~--~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   61 (289)
                      +++|++|+|++|.+++                 .+|+.++  ++++|++|++++|.+....+. .+.++++|++|++++|
T Consensus       447 L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~-~l~~L~~L~~L~Ls~N  525 (876)
T 4ecn_A          447 LTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPD-FLYDLPELQSLNIACN  525 (876)
T ss_dssp             CTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCG-GGGGCSSCCEEECTTC
T ss_pred             CCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChH-HHhCCCCCCEEECcCC
Confidence            5688899999988887                 3788877  889999999988875444332 2678888888888888


Q ss_pred             c-ccc--cchhhH----hhhcCCCccEEEccCCccCCCCcc--cccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEE
Q 040144           62 N-LSI--AFDWLM----VANKLLSLVELRLSNCQLQHFSPL--ATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLD  132 (289)
Q Consensus        62 ~-~~~--~~~~~~----~~~~~~~L~~L~l~~~~l~~~~~~--~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~  132 (289)
                      . +..  .+....    .+..+++|++|++++|.+. ..|.  .++.+++|+.|++++|.++  .+| .++.+++|+.|+
T Consensus       526 ~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~l~~L~~L~~L~Ls~N~l~--~lp-~~~~L~~L~~L~  601 (876)
T 4ecn_A          526 RGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLE-EFPASASLQKMVKLGLLDCVHNKVR--HLE-AFGTNVKLTDLK  601 (876)
T ss_dssp             TTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCC-BCCCHHHHTTCTTCCEEECTTSCCC--BCC-CCCTTSEESEEE
T ss_pred             CCcccccchHHHHhhhhcccccCCccEEEeeCCcCC-ccCChhhhhcCCCCCEEECCCCCcc--cch-hhcCCCcceEEE
Confidence            7 654  232111    1223458888888888877 3455  6777888888888888775  445 566677777777


Q ss_pred             ccCceeeeeeChhhhcCCCC-ccEEeCCCCCcccCCCCcccc
Q 040144          133 LGFNNFQGTIDLEALGNLTS-INRLDLSLNTGLTGRIPRSMA  173 (289)
Q Consensus       133 l~~n~~~~~~~~~~~~~~~~-L~~L~l~~n~~~~~~~~~~~~  173 (289)
                      +++|.+. .+ |..+..+++ |+.|++++|. +. .+|..+.
T Consensus       602 Ls~N~l~-~l-p~~l~~l~~~L~~L~Ls~N~-L~-~lp~~~~  639 (876)
T 4ecn_A          602 LDYNQIE-EI-PEDFCAFTDQVEGLGFSHNK-LK-YIPNIFN  639 (876)
T ss_dssp             CCSSCCS-CC-CTTSCEECTTCCEEECCSSC-CC-SCCSCCC
T ss_pred             CcCCccc-cc-hHHHhhccccCCEEECcCCC-CC-cCchhhh
Confidence            7777776 55 556666666 7777777776 44 4454443

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

Probab=99.97  E-value=4.6e-29  Score=211.81  Aligned_cols=262  Identities=19%  Similarity=0.173  Sum_probs=151.2

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|++|++++|.+++..+..|..+++|++|++++|.+...++.. +.++++|++|++++|.+...+.  ..+..+++|++
T Consensus        69 ~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-~~~l~~L~~L~L~~n~l~~l~~--~~~~~l~~L~~  145 (390)
T 3o6n_A           69 RQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHV-FQNVPLLTVLVLERNDLSSLPR--GIFHNTPKLTT  145 (390)
T ss_dssp             CCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTT-TTTCTTCCEEECCSSCCCCCCT--TTTTTCTTCCE
T ss_pred             ccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHH-hcCCCCCCEEECCCCccCcCCH--HHhcCCCCCcE
Confidence            45666666666655545555666666666666665544443322 4556666666666665554432  12345566666


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhc-------------
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALG-------------  148 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-------------  148 (289)
                      |++++|.+....+..+..+++|+.|++++|.++ . .  .+..+++|+++++++|.+.+...+..+.             
T Consensus       146 L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~-~--~~~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~  221 (390)
T 3o6n_A          146 LSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT-H-V--DLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVR  221 (390)
T ss_dssp             EECCSSCCCBCCTTTTSSCTTCCEEECCSSCCS-B-C--CGGGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEE
T ss_pred             EECCCCccCccChhhccCCCCCCEEECCCCcCC-c-c--ccccccccceeecccccccccCCCCcceEEECCCCeeeecc
Confidence            666666665555555555666666666666554 1 1  1334555666666655544211011110             


Q ss_pred             --CCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeec-----
Q 040144          149 --NLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF-----  220 (289)
Q Consensus       149 --~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~-----  220 (289)
                        ..++|+.|++++|. +.+  ...+. +++|+.|++      ++|.+.+..|..+..+++|+.|++++|.+++.     
T Consensus       222 ~~~~~~L~~L~l~~n~-l~~--~~~l~~l~~L~~L~L------s~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~  292 (390)
T 3o6n_A          222 GPVNVELTILKLQHNN-LTD--TAWLLNYPGLVEVDL------SYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQ  292 (390)
T ss_dssp             CCCCSSCCEEECCSSC-CCC--CGGGGGCTTCSEEEC------CSSCCCEEESGGGTTCSSCCEEECCSSCCCEEECSSS
T ss_pred             ccccccccEEECCCCC-Ccc--cHHHcCCCCccEEEC------CCCcCCCcChhHccccccCCEEECCCCcCcccCcccC
Confidence              11244555555554 332  12344 566666654      77777777777777777788888877777642     


Q ss_pred             -CCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          221 -IPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       221 -~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                       .|....|++++|.+. .++. .+..+++|+.|++++|++++. +  +..+++|+.|++++|++.
T Consensus       293 ~l~~L~~L~L~~n~l~-~~~~-~~~~l~~L~~L~L~~N~i~~~-~--~~~~~~L~~L~l~~N~~~  352 (390)
T 3o6n_A          293 PIPTLKVLDLSHNHLL-HVER-NQPQFDRLENLYLDHNSIVTL-K--LSTHHTLKNLTLSHNDWD  352 (390)
T ss_dssp             CCTTCCEEECCSSCCC-CCGG-GHHHHTTCSEEECCSSCCCCC-C--CCTTCCCSEEECCSSCEE
T ss_pred             CCCCCCEEECCCCcce-ecCc-cccccCcCCEEECCCCcccee-C--chhhccCCEEEcCCCCcc
Confidence             222227778887776 5666 567777788888888877753 2  566677778888887765

>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=99.97  E-value=1.7e-28  Score=222.48  Aligned_cols=281  Identities=20%  Similarity=0.208  Sum_probs=165.3

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccc------cchh-hHhhhc
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSI------AFDW-LMVANK   75 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~------~~~~-~~~~~~   75 (289)
                      +|++|++++|.+++..+..|+.+++|++|++++|.+....+.. +.++++|++|+++++....      .+.+ ...+..
T Consensus       249 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~~  327 (680)
T 1ziw_A          249 NLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHS-LHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQW  327 (680)
T ss_dssp             CCCEEECTTSCCCEECTTTTTTCTTCCEEECCSCCBSEECTTT-TTTCTTCCEEECTTCBCCC------CCEECTTTTTT
T ss_pred             CCCEEECCCCCcCccCcccccCcccccEeeCCCCccCccChhh-hcCCCCccEEeccchhhhcccccccccccChhhccc
Confidence            4677777777776666666777777777777776554433222 3444445555444332111      0000 002334


Q ss_pred             CCCccEEEccCCccCCCCcccccCCCCCcEEecc----------------------------CCCCCCcchhhHhhcCCC
Q 040144           76 LLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLS----------------------------HNQFDNSFILSWVFALSH  127 (289)
Q Consensus        76 ~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~----------------------------~~~~~~~~~~~~~~~~~~  127 (289)
                      +++|++|++++|.+....+..+..+++|+.|+++                            +|.++ ...+..+..+++
T Consensus       328 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~~~~~~L~~L~L~~n~l~-~~~~~~~~~l~~  406 (680)
T 1ziw_A          328 LKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKIS-KIESDAFSWLGH  406 (680)
T ss_dssp             CTTCCEEECCSCCBCCCCTTTTTTCTTCCEEECTTCBSCCCEECTTTTGGGTTSCCCEEECTTSCCC-EECTTTTTTCTT
T ss_pred             CCCCCEEECCCCccCCCChhHhccccCCcEEECCCCchhhhhcchhhhcccccCcCceEECCCCCCC-eEChhhhhCCCC
Confidence            4455555555555544444344444444444433                            33333 222334455566


Q ss_pred             CCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccc--------------------cc
Q 040144          128 LPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQE--------------------SL  186 (289)
Q Consensus       128 L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~--------------------~l  186 (289)
                      |++|++++|.+.+.+++..+..+++|+++++++|. +.+..+..+. +++|+.|++++                    .+
T Consensus       407 L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~p~~~~~l~~L~~L  485 (680)
T 1ziw_A          407 LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNK-YLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTIL  485 (680)
T ss_dssp             CCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCS-EEECCTTTTTTCTTCCEEECTTSCCBCTTCSSCTTTTCTTCCEE
T ss_pred             CCEEeCCCCcCccccCcccccCcccccEEecCCCC-cceeChhhhhcCcccccchhccccccccccCCcccccCCCCCEE
Confidence            66666666666544433455566666666666655 4333233333 33333333321                    23


Q ss_pred             cccCCcccccccccccCCCCCcEEEccCCeeeecC---------------CCceEEEeecceeeeeeccccccccccccE
Q 040144          187 DMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFI---------------PWSFELHIYDNKLNVTLFELHFANLIEMSW  251 (289)
Q Consensus       187 ~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~---------------~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~  251 (289)
                      ++++|.+++..+.++..+++|+.|++++|.+++..               +....|++++|.++ .+|...+.++++|+.
T Consensus       486 ~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~N~l~-~i~~~~~~~l~~L~~  564 (680)
T 1ziw_A          486 DLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFD-EIPVEVFKDLFELKI  564 (680)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCE
T ss_pred             ECCCCCCCcCChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCCCCCCEEECCCCCCC-CCCHHHcccccCcce
Confidence            34788888777777888888999999988887531               11118899999888 677657888999999


Q ss_pred             EEecCCeeeeccCCCccccccccEEecccccCccCC
Q 040144          252 FRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRF  287 (289)
Q Consensus       252 l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~  287 (289)
                      |++++|++++..+..+..+++|+.|++++|++++..
T Consensus       565 L~Ls~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~  600 (680)
T 1ziw_A          565 IDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVE  600 (680)
T ss_dssp             EECCSSCCCCCCTTTTTTCTTCCEEECTTSCCCBCC
T ss_pred             eECCCCCCCcCCHhHhCCCCCCCEEECCCCcCCccC
Confidence            999999998765556788889999999999887543

>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=99.97  E-value=8.3e-29  Score=205.57  Aligned_cols=260  Identities=21%  Similarity=0.248  Sum_probs=181.8

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCcccccc-chhhHhhhcCCCccE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIA-FDWLMVANKLLSLVE   81 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~~~~~~L~~   81 (289)
                      +++.++++++.++ .+|..+.  +++++|++++|.+...+... +.++++|++|++++|.+... +.   .+..+++|++
T Consensus        32 ~l~~l~~~~~~l~-~lp~~~~--~~l~~L~L~~n~i~~~~~~~-~~~l~~L~~L~L~~n~l~~~~~~---~~~~l~~L~~  104 (330)
T 1xku_A           32 HLRVVQCSDLGLE-KVPKDLP--PDTALLDLQNNKITEIKDGD-FKNLKNLHTLILINNKISKISPG---AFAPLVKLER  104 (330)
T ss_dssp             ETTEEECTTSCCC-SCCCSCC--TTCCEEECCSSCCCCBCTTT-TTTCTTCCEEECCSSCCCCBCTT---TTTTCTTCCE
T ss_pred             CCeEEEecCCCcc-ccCccCC--CCCeEEECCCCcCCEeChhh-hccCCCCCEEECCCCcCCeeCHH---HhcCCCCCCE
Confidence            4677777777766 3554442  57788888887766655433 67788888888888877765 33   5677788888


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeee-eeChhhhcCCCCccEEeCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQG-TIDLEALGNLTSINRLDLSL  160 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~-~~~~~~~~~~~~L~~L~l~~  160 (289)
                      |++++|.++......   .++|+.|++++|.++ ...+..+..+++|++|++++|.+.. ...+..+..+++|++|++++
T Consensus       105 L~Ls~n~l~~l~~~~---~~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~  180 (330)
T 1xku_A          105 LYLSKNQLKELPEKM---PKTLQELRVHENEIT-KVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIAD  180 (330)
T ss_dssp             EECCSSCCSBCCSSC---CTTCCEEECCSSCCC-BBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCS
T ss_pred             EECCCCcCCccChhh---cccccEEECCCCccc-ccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCC
Confidence            888888777543322   267888888888776 4445566777888888888887752 12256677788888888888


Q ss_pred             CCcccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecce
Q 040144          161 NTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNK  233 (289)
Q Consensus       161 n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~  233 (289)
                      |. +. .+|..+ .++|++|++      ++|.+++..+..+..+++|+.|++++|.+++..+..+       .|++++|.
T Consensus       181 n~-l~-~l~~~~-~~~L~~L~l------~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~  251 (330)
T 1xku_A          181 TN-IT-TIPQGL-PPSLTELHL------DGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNK  251 (330)
T ss_dssp             SC-CC-SCCSSC-CTTCSEEEC------TTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSC
T ss_pred             Cc-cc-cCCccc-cccCCEEEC------CCCcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCc
Confidence            77 44 344433 366777765      7777777777777888888888888887776544333       78888888


Q ss_pred             eeeeeccccccccccccEEEecCCeeeeccCCCccc------cccccEEecccccCc
Q 040144          234 LNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIP------HFQLVALGLHSCYIG  284 (289)
Q Consensus       234 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~------~~~L~~l~l~~n~~~  284 (289)
                      ++ .+|. .+..+++|++|++++|++++..+..+..      .++++.+++++|.+.
T Consensus       252 l~-~lp~-~l~~l~~L~~L~l~~N~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~  306 (330)
T 1xku_A          252 LV-KVPG-GLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ  306 (330)
T ss_dssp             CS-SCCT-TTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSC
T ss_pred             Cc-cCCh-hhccCCCcCEEECCCCcCCccChhhcCCcccccccccccceEeecCccc
Confidence            77 6777 6778888888888888888755555543      366778888888764

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

Probab=99.97  E-value=1.5e-28  Score=208.59  Aligned_cols=264  Identities=18%  Similarity=0.201  Sum_probs=211.9

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +++++.+++.++.++...+..+..+++|++|++++|.+...+... +..+++|++|++++|.+...++  ..+..+++|+
T Consensus        44 l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~  120 (390)
T 3o6n_A           44 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYA-FAYAHTIQKLYMGFNAIRYLPP--HVFQNVPLLT  120 (390)
T ss_dssp             GCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTT-TTTCTTCCEEECCSSCCCCCCT--TTTTTCTTCC
T ss_pred             cCCceEEEecCCchhhCChhHhcccccCcEEECCCCcccccChhh-ccCCCCcCEEECCCCCCCcCCH--HHhcCCCCCC
Confidence            368999999999988655555788999999999999877665443 7889999999999999887743  2578899999


Q ss_pred             EEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCC
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSL  160 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~  160 (289)
                      +|++++|.+....+..+..+++|++|++++|.++ ...+..+..+++|++|++++|.+.+ +   .+..+++|+.+++++
T Consensus       121 ~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~-~---~~~~l~~L~~L~l~~  195 (390)
T 3o6n_A          121 VLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLE-RIEDDTFQATTSLQNLQLSSNRLTH-V---DLSLIPSLFHANVSY  195 (390)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-BCCTTTTSSCTTCCEEECCSSCCSB-C---CGGGCTTCSEEECCS
T ss_pred             EEECCCCccCcCCHHHhcCCCCCcEEECCCCccC-ccChhhccCCCCCCEEECCCCcCCc-c---ccccccccceeeccc
Confidence            9999999999877666789999999999999997 5556668889999999999999873 3   234556666666666


Q ss_pred             CCcccC------------------CCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCC
Q 040144          161 NTGLTG------------------RIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP  222 (289)
Q Consensus       161 n~~~~~------------------~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  222 (289)
                      |. +..                  ..|... .++|+.|+      +++|.+++.  ..+..+++|+.|++++|.+++..|
T Consensus       196 n~-l~~~~~~~~L~~L~l~~n~l~~~~~~~-~~~L~~L~------l~~n~l~~~--~~l~~l~~L~~L~Ls~n~l~~~~~  265 (390)
T 3o6n_A          196 NL-LSTLAIPIAVEELDASHNSINVVRGPV-NVELTILK------LQHNNLTDT--AWLLNYPGLVEVDLSYNELEKIMY  265 (390)
T ss_dssp             SC-CSEEECCSSCSEEECCSSCCCEEECCC-CSSCCEEE------CCSSCCCCC--GGGGGCTTCSEEECCSSCCCEEES
T ss_pred             cc-ccccCCCCcceEEECCCCeeeeccccc-cccccEEE------CCCCCCccc--HHHcCCCCccEEECCCCcCCCcCh
Confidence            65 321                  111100 34555555      488888864  468899999999999999987655


Q ss_pred             Cce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCcc
Q 040144          223 WSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       223 ~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                      ..+       .|++++|.++ .++. .+..+++|++|++++|++.+ +|..+..+++|+.|++++|++++
T Consensus       266 ~~~~~l~~L~~L~L~~n~l~-~~~~-~~~~l~~L~~L~L~~n~l~~-~~~~~~~l~~L~~L~L~~N~i~~  332 (390)
T 3o6n_A          266 HPFVKMQRLERLYISNNRLV-ALNL-YGQPIPTLKVLDLSHNHLLH-VERNQPQFDRLENLYLDHNSIVT  332 (390)
T ss_dssp             GGGTTCSSCCEEECCSSCCC-EEEC-SSSCCTTCCEEECCSSCCCC-CGGGHHHHTTCSEEECCSSCCCC
T ss_pred             hHccccccCCEEECCCCcCc-ccCc-ccCCCCCCCEEECCCCccee-cCccccccCcCCEEECCCCccce
Confidence            544       8999999998 5776 67889999999999999995 67778899999999999999974

>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=99.96  E-value=1.7e-29  Score=222.30  Aligned_cols=107  Identities=25%  Similarity=0.221  Sum_probs=76.0

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +++++|++++|.+++..|..|.++++|++|++++|.+....+.. +.++++|++|++++|.+...+.   .  .+++|++
T Consensus        21 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~-~~~l~~L~~L~Ls~N~l~~lp~---~--~l~~L~~   94 (520)
T 2z7x_B           21 QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISV-FKFNQELEYLDLSHNKLVKISC---H--PTVNLKH   94 (520)
T ss_dssp             TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGG-GTTCTTCCEEECCSSCCCEEEC---C--CCCCCSE
T ss_pred             ccccEEECCCCcccccChhhccccccccEEecCCCccCCcChHH-hhcccCCCEEecCCCceeecCc---c--ccCCccE
Confidence            46778888888877666667777888888888877766554332 6677788888888887775543   2  6777888


Q ss_pred             EEccCCccCCC-CcccccCCCCCcEEeccCCCCC
Q 040144           82 LRLSNCQLQHF-SPLATVNFSSLTMLDLSHNQFD  114 (289)
Q Consensus        82 L~l~~~~l~~~-~~~~l~~~~~L~~L~l~~~~~~  114 (289)
                      |++++|.+... .|..++.+++|++|++++|.++
T Consensus        95 L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~  128 (520)
T 2z7x_B           95 LDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLE  128 (520)
T ss_dssp             EECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCC
T ss_pred             EeccCCccccccchhhhccCCcceEEEecCcccc
Confidence            88888777763 3566777777777777777665

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

Probab=99.96  E-value=3e-29  Score=206.53  Aligned_cols=227  Identities=19%  Similarity=0.262  Sum_probs=174.1

Q ss_pred             CcccEEeccCccccccchhhHhhhcCCCccEEEccC-CccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCC
Q 040144           51 SLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSN-CQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLP  129 (289)
Q Consensus        51 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~-~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~  129 (289)
                      .++++|+++++.+.....++..+..+++|++|++++ +.+....+..+..+++|++|++++|.++ ...+..+..+++|+
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~-~~~p~~~~~l~~L~  128 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVS-GAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCE-EECCGGGGGCTTCC
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeC-CcCCHHHhCCCCCC
Confidence            467778888777765111122667778888888874 7777666777777888888888888776 56666677778888


Q ss_pred             EEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-cc-CcceeeccccccccCCcccccccccccCCCCC
Q 040144          130 FLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LC-NLKSINLQESLDMRSSSIYGHLTDQLGQFRNL  207 (289)
Q Consensus       130 ~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~-~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L  207 (289)
                      +|++++|.+.+.+ +..+..+++|++|++++|. +.+..|..+. ++ .|+.|++      ++|.+.+.+|..++.++ |
T Consensus       129 ~L~Ls~N~l~~~~-p~~~~~l~~L~~L~L~~N~-l~~~~p~~l~~l~~~L~~L~L------~~N~l~~~~~~~~~~l~-L  199 (313)
T 1ogq_A          129 TLDFSYNALSGTL-PPSISSLPNLVGITFDGNR-ISGAIPDSYGSFSKLFTSMTI------SRNRLTGKIPPTFANLN-L  199 (313)
T ss_dssp             EEECCSSEEESCC-CGGGGGCTTCCEEECCSSC-CEEECCGGGGCCCTTCCEEEC------CSSEEEEECCGGGGGCC-C
T ss_pred             EEeCCCCccCCcC-ChHHhcCCCCCeEECcCCc-ccCcCCHHHhhhhhcCcEEEC------cCCeeeccCChHHhCCc-c
Confidence            8888888877555 6677778888888888887 6666777776 65 7777775      77777777777777776 8


Q ss_pred             cEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEeccc
Q 040144          208 VTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHS  280 (289)
Q Consensus       208 ~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~  280 (289)
                      +.|++++|.+.+..|..+       .|++++|.+++.++.  +..+++|++|++++|++++.+|..+..+++|+.|++++
T Consensus       200 ~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~--~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~  277 (313)
T 1ogq_A          200 AFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK--VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSF  277 (313)
T ss_dssp             SEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGG--CCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCS
T ss_pred             cEEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCc--ccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcC
Confidence            888888888776655444       778888888754444  77889999999999999999999999999999999999


Q ss_pred             ccCccCCCC
Q 040144          281 CYIGSRFPL  289 (289)
Q Consensus       281 n~~~~~~p~  289 (289)
                      |++++.+|+
T Consensus       278 N~l~~~ip~  286 (313)
T 1ogq_A          278 NNLCGEIPQ  286 (313)
T ss_dssp             SEEEEECCC
T ss_pred             CcccccCCC
Confidence            999988884

>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=99.96  E-value=3.8e-29  Score=221.92  Aligned_cols=266  Identities=17%  Similarity=0.194  Sum_probs=189.0

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +++|++|++++|.+++..|.+|.++++|++|++++|.+..++..    .+++|++|++++|.+...+ .+..+..+++|+
T Consensus        75 l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~----~l~~L~~L~Ls~N~l~~l~-~p~~~~~l~~L~  149 (562)
T 3a79_B           75 LSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQNISCC----PMASLRHLDLSFNDFDVLP-VCKEFGNLTKLT  149 (562)
T ss_dssp             CTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTSCCCEECSC----CCTTCSEEECCSSCCSBCC-CCGGGGGCTTCC
T ss_pred             CCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCCcCCccCcc----ccccCCEEECCCCCccccC-chHhhcccCccc
Confidence            46788888888888877788888888888888888887765532    6888888888888877643 123677888888


Q ss_pred             EEEccCCccCCCCcccccCCCCC--cEEeccCCCC--CCcchhhHhhc--------------------------------
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSL--TMLDLSHNQF--DNSFILSWVFA--------------------------------  124 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L--~~L~l~~~~~--~~~~~~~~~~~--------------------------------  124 (289)
                      +|++++|.+...   .+..++++  +.|++++|.+  + ...+..+..                                
T Consensus       150 ~L~L~~n~l~~~---~~~~l~~L~L~~L~L~~n~l~~~-~~~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~  225 (562)
T 3a79_B          150 FLGLSAAKFRQL---DLLPVAHLHLSCILLDLVSYHIK-GGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQL  225 (562)
T ss_dssp             EEEEECSBCCTT---TTGGGTTSCEEEEEEEESSCCCC-SSSCCEEEECCEEEEEEEECSSSCCCCCCEEEESSEEEEEE
T ss_pred             EEecCCCccccC---chhhhhhceeeEEEeeccccccc-ccCcccccccCcceEEEEecCccchhhhhhhcccccceEEE
Confidence            888888887753   33444555  8888888876  2 111111111                                


Q ss_pred             -------------------------------------------------CCCCCEEEccCceeeeeeChhhh--------
Q 040144          125 -------------------------------------------------LSHLPFLDLGFNNFQGTIDLEAL--------  147 (289)
Q Consensus       125 -------------------------------------------------~~~L~~L~l~~n~~~~~~~~~~~--------  147 (289)
                                                                       ..+|++|++++|.+.+.+ |..+        
T Consensus       226 L~l~~n~~~~~~l~~~~~~l~~l~~L~~L~L~~~~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~i-p~~~~~~~~~~L  304 (562)
T 3a79_B          226 SNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERI-DREEFTYSETAL  304 (562)
T ss_dssp             EEEECCSTTHHHHHHHHHHHHSCSSCEEEEEEEEEECHHHHHHHHHHHTTSSEEEEEEEEEEECSCC-CCCCCCCCSCSC
T ss_pred             ecccccccccchHHHHHHHHhccCcceEEEecCCcCcHHHHHHHHHhhhcccccEEEEeccEeeccc-cchhhhcccccc
Confidence                                                             125677777777766544 2222        


Q ss_pred             ---------------------------------------------cCCCCccEEeCCCCCcccCCCCcccc-ccCcceee
Q 040144          148 ---------------------------------------------GNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSIN  181 (289)
Q Consensus       148 ---------------------------------------------~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~  181 (289)
                                                                   ..+++|++|++++|. +.+..|..+. +++|+.|+
T Consensus       305 ~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~  383 (562)
T 3a79_B          305 KSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNV-FTDSVFQGCSTLKRLQTLI  383 (562)
T ss_dssp             CEEEEEEEEECCCSSCHHHHHHHHHTCCCSEEEEESSCCCCCCCCSSCCCCCEEECCSSC-CCTTTTTTCCSCSSCCEEE
T ss_pred             hheehhhcccceeecChhhhhhhhccCcceEEEccCCCcccccCccCCCCceEEECCCCc-cccchhhhhcccCCCCEEE
Confidence                                                         456677788887777 6666676776 77777777


Q ss_pred             ccccccccCCccccc--ccccccCCCCCcEEEccCCeeeecCCCce--------EEEeecceeeeeeccccccccccccE
Q 040144          182 LQESLDMRSSSIYGH--LTDQLGQFRNLVTFNLVNNSIVGFIPWSF--------ELHIYDNKLNVTLFELHFANLIEMSW  251 (289)
Q Consensus       182 l~~~l~l~~~~~~~~--~~~~l~~~~~L~~L~l~~n~~~~~~~~~~--------~L~l~~n~~~~~~~~~~~~~~~~L~~  251 (289)
                      +      ++|.+++.  .|..++.+++|+.|++++|.+.+.+|...        .|++++|.+++.++. .+.  ++|+.
T Consensus       384 L------~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-~l~--~~L~~  454 (562)
T 3a79_B          384 L------QRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFR-CLP--PKVKV  454 (562)
T ss_dssp             C------CSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTTCCEEECCSSCCCGGGGS-SCC--TTCSE
T ss_pred             C------CCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCcccCCEEECCCCCCCcchhh-hhc--CcCCE
Confidence            5      77777753  34567788888888888888876454432        788888888765555 333  68899


Q ss_pred             EEecCCeeeeccCCCccccccccEEecccccCccCCC
Q 040144          252 FRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFP  288 (289)
Q Consensus       252 l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~p  288 (289)
                      |++++|+++ .+|..+..+++|+.|++++|+++ .+|
T Consensus       455 L~L~~N~l~-~ip~~~~~l~~L~~L~L~~N~l~-~l~  489 (562)
T 3a79_B          455 LDLHNNRIM-SIPKDVTHLQALQELNVASNQLK-SVP  489 (562)
T ss_dssp             EECCSSCCC-CCCTTTTSSCCCSEEECCSSCCC-CCC
T ss_pred             EECCCCcCc-ccChhhcCCCCCCEEECCCCCCC-CCC
Confidence            999999888 47777778899999999999987 565

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

Probab=99.96  E-value=7.3e-29  Score=206.09  Aligned_cols=260  Identities=22%  Similarity=0.261  Sum_probs=148.4

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      +++.++++++.++ .+|..+  .+++++|++++|.+...+... +.++++|++|++++|.+....+  ..+..+++|++|
T Consensus        34 ~l~~l~~~~~~l~-~ip~~~--~~~l~~L~l~~n~i~~~~~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~L  107 (332)
T 2ft3_A           34 HLRVVQCSDLGLK-AVPKEI--SPDTTLLDLQNNDISELRKDD-FKGLQHLYALVLVNNKISKIHE--KAFSPLRKLQKL  107 (332)
T ss_dssp             ETTEEECCSSCCS-SCCSCC--CTTCCEEECCSSCCCEECTTT-TTTCTTCCEEECCSSCCCEECG--GGSTTCTTCCEE
T ss_pred             cCCEEECCCCCcc-ccCCCC--CCCCeEEECCCCcCCccCHhH-hhCCCCCcEEECCCCccCccCH--hHhhCcCCCCEE
Confidence            4566666666665 344433  246667777666655443322 5566667777777666655421  245666667777


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeee-eeChhhhcCCCCccEEeCCCC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQG-TIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~-~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      ++++|.+....... .  ++|++|++++|.++ ...+..+..+++|++|++++|.+.. ...+..+..+ +|+++++++|
T Consensus       108 ~L~~n~l~~l~~~~-~--~~L~~L~l~~n~i~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n  182 (332)
T 2ft3_A          108 YISKNHLVEIPPNL-P--SSLVELRIHDNRIR-KVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEA  182 (332)
T ss_dssp             ECCSSCCCSCCSSC-C--TTCCEEECCSSCCC-CCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSS
T ss_pred             ECCCCcCCccCccc-c--ccCCEEECCCCccC-ccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCC
Confidence            77766666443222 1  56667777666665 3333345566667777776666642 1224445555 6666666666


Q ss_pred             CcccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeeccee
Q 040144          162 TGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKL  234 (289)
Q Consensus       162 ~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~  234 (289)
                      . +. .+|..+ .++|++|++      ++|.+.+..+..+..+++|+.|++++|.+++..+..+       .|++++|.+
T Consensus       183 ~-l~-~l~~~~-~~~L~~L~l------~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l  253 (332)
T 2ft3_A          183 K-LT-GIPKDL-PETLNELHL------DHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKL  253 (332)
T ss_dssp             B-CS-SCCSSS-CSSCSCCBC------CSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCC
T ss_pred             C-CC-ccCccc-cCCCCEEEC------CCCcCCccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcC
Confidence            5 43 233332 245555554      5666665555566666666666666666654433222       566666666


Q ss_pred             eeeeccccccccccccEEEecCCeeeeccCCCccc------cccccEEecccccCc
Q 040144          235 NVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIP------HFQLVALGLHSCYIG  284 (289)
Q Consensus       235 ~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~------~~~L~~l~l~~n~~~  284 (289)
                      + .+|. .+..+++|+.|++++|++++..+..+..      .++|+.+++++|.+.
T Consensus       254 ~-~lp~-~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~  307 (332)
T 2ft3_A          254 S-RVPA-GLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVP  307 (332)
T ss_dssp             C-BCCT-TGGGCTTCCEEECCSSCCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSC
T ss_pred             e-ecCh-hhhcCccCCEEECCCCCCCccChhHccccccccccccccceEeecCccc
Confidence            5 5665 5666666666666666666544444433      245666666666554

>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=99.96  E-value=5.4e-28  Score=202.06  Aligned_cols=253  Identities=23%  Similarity=0.250  Sum_probs=104.6

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|++|++++|.+++ .+. +..+++|++|++++|.+...+   .+..+++|++|++++|.+...+    .+..+++|++
T Consensus        66 ~~L~~L~l~~n~i~~-~~~-~~~l~~L~~L~L~~n~i~~~~---~~~~l~~L~~L~l~~n~i~~~~----~~~~l~~L~~  136 (347)
T 4fmz_A           66 TNLEYLNLNGNQITD-ISP-LSNLVKLTNLYIGTNKITDIS---ALQNLTNLRELYLNEDNISDIS----PLANLTKMYS  136 (347)
T ss_dssp             TTCCEEECCSSCCCC-CGG-GTTCTTCCEEECCSSCCCCCG---GGTTCTTCSEEECTTSCCCCCG----GGTTCTTCCE
T ss_pred             CCccEEEccCCcccc-chh-hhcCCcCCEEEccCCcccCch---HHcCCCcCCEEECcCCcccCch----hhccCCceeE
Confidence            344444444444442 111 444444444444444333322   1344444444444444443322    1334444444


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|...... ..+..+++|+.|++++|.+. . .+. +..+++|++|++++|.+. .+ +. +..+++|+.+++++|
T Consensus       137 L~l~~n~~~~~~-~~~~~l~~L~~L~l~~~~~~-~-~~~-~~~l~~L~~L~l~~n~l~-~~-~~-~~~l~~L~~L~l~~n  209 (347)
T 4fmz_A          137 LNLGANHNLSDL-SPLSNMTGLNYLTVTESKVK-D-VTP-IANLTDLYSLSLNYNQIE-DI-SP-LASLTSLHYFTAYVN  209 (347)
T ss_dssp             EECTTCTTCCCC-GGGTTCTTCCEEECCSSCCC-C-CGG-GGGCTTCSEEECTTSCCC-CC-GG-GGGCTTCCEEECCSS
T ss_pred             EECCCCCCcccc-cchhhCCCCcEEEecCCCcC-C-chh-hccCCCCCEEEccCCccc-cc-cc-ccCCCccceeecccC
Confidence            444444222211 12344444444444444443 1 111 334445555555555443 12 11 334444444444444


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeec-----CCCceEEEeecceee
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF-----IPWSFELHIYDNKLN  235 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~-----~~~~~~L~l~~n~~~  235 (289)
                      . +.+..+  +. +++|++|++      ++|.+++..+  +..+++|+.|++++|.+++.     .+....|++++|.++
T Consensus       210 ~-l~~~~~--~~~~~~L~~L~l------~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~  278 (347)
T 4fmz_A          210 Q-ITDITP--VANMTRLNSLKI------GNNKITDLSP--LANLSQLTWLEIGTNQISDINAVKDLTKLKMLNVGSNQIS  278 (347)
T ss_dssp             C-CCCCGG--GGGCTTCCEEEC------CSSCCCCCGG--GTTCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCC
T ss_pred             C-CCCCch--hhcCCcCCEEEc------cCCccCCCcc--hhcCCCCCEEECCCCccCCChhHhcCCCcCEEEccCCccC
Confidence            3 221111  33 444444443      4444443322  44445555555555544421     011114444444444


Q ss_pred             eeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          236 VTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       236 ~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      + ++  .+..+++|+.|++++|++++..+..+..+++|+.|++++|+++
T Consensus       279 ~-~~--~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n~l~  324 (347)
T 4fmz_A          279 D-IS--VLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHIT  324 (347)
T ss_dssp             C-CG--GGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSSSCC
T ss_pred             C-Ch--hhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCCccc
Confidence            2 21  2444444555555544444444444444444444555544444

>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=99.96  E-value=4.6e-28  Score=217.78  Aligned_cols=136  Identities=21%  Similarity=0.192  Sum_probs=119.7

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      .+++|+|++|.+++..+.+|.++++|++|++++|.+..+++.. +.++++|++|++++|.+...+.  ..+.++++|++|
T Consensus        53 ~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~-f~~L~~L~~L~Ls~N~l~~l~~--~~f~~L~~L~~L  129 (635)
T 4g8a_A           53 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGA-YQSLSHLSTLILTGNPIQSLAL--GAFSGLSSLQKL  129 (635)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTT-TTTCTTCCEEECTTCCCCEECG--GGGTTCTTCCEE
T ss_pred             CCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhH-hcCCCCCCEEEccCCcCCCCCH--HHhcCCCCCCEE
Confidence            6899999999999877889999999999999999887776544 7889999999999999888753  267899999999


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeee
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGT  141 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~  141 (289)
                      ++++|.++...+..++.+++|++|++++|.++....+..++.+++|++|++++|.+.+.
T Consensus       130 ~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~  188 (635)
T 4g8a_A          130 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSI  188 (635)
T ss_dssp             ECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEE
T ss_pred             ECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCcccccc
Confidence            99999999987788999999999999999987445677788899999999999988743

>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=99.96  E-value=2.1e-28  Score=221.94  Aligned_cols=276  Identities=22%  Similarity=0.224  Sum_probs=162.0

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +++++|++++|.+++..+..|.++++|++|++++|.+....+.. +.++++|++|++++|.+...+.  ..+..+++|++
T Consensus        25 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~-~~~l~~L~~L~L~~n~l~~l~~--~~~~~l~~L~~  101 (680)
T 1ziw_A           25 TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPEL-CQKLPMLKVLNLQHNELSQLSD--KTFAFCTNLTE  101 (680)
T ss_dssp             TTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTH-HHHCTTCCEEECCSSCCCCCCT--TTTTTCTTCSE
T ss_pred             CCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHH-HhcccCcCEEECCCCccCccCh--hhhccCCCCCE
Confidence            35777777777777655566777777777777776655544332 5567777777777776665532  13566777777


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhc--CCCCccEEeCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALG--NLTSINRLDLS  159 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~--~~~~L~~L~l~  159 (289)
                      |++++|.+....+..++.+++|++|++++|.++ ...+..++.+++|++|++++|.+.+.. +..+.  .+++|++|+++
T Consensus       102 L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~~~~~~L~~L~L~  179 (680)
T 1ziw_A          102 LHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLS-STKLGTQVQLENLQELLLSNNKIQALK-SEELDIFANSSLKKLELS  179 (680)
T ss_dssp             EECCSSCCCCCCSCTTTTCTTCCEEECCSSCCS-CCCCCSSSCCTTCCEEECCSSCCCCBC-HHHHGGGTTCEESEEECT
T ss_pred             EECCCCccCccChhHccccCCCCEEECCCCccc-ccCchhhcccccCCEEEccCCcccccC-HHHhhccccccccEEECC
Confidence            777777776666566677777777777777665 444444556677777777777665332 44333  34667777777


Q ss_pred             CCCcccCCCCcccc-ccCcceeeccc---------------------cccc--------------------------cCC
Q 040144          160 LNTGLTGRIPRSMA-LCNLKSINLQE---------------------SLDM--------------------------RSS  191 (289)
Q Consensus       160 ~n~~~~~~~~~~~~-~~~L~~L~l~~---------------------~l~l--------------------------~~~  191 (289)
                      +|. +.+..|..+. +++|+.+.+..                     .+++                          ++|
T Consensus       180 ~n~-l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~~~~~~~~~l~~~~L~~L~Ls~n  258 (680)
T 1ziw_A          180 SNQ-IKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYN  258 (680)
T ss_dssp             TCC-CCCBCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCEECTTTTGGGGGSCCCEEECTTS
T ss_pred             CCc-ccccChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcccccChhHhhccCcCCCCEEECCCC
Confidence            666 5544444444 43333332211                     2223                          444


Q ss_pred             cccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeee--------eeccccccccccccEEEecC
Q 040144          192 SIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNV--------TLFELHFANLIEMSWFRVGG  256 (289)
Q Consensus       192 ~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~--------~~~~~~~~~~~~L~~l~l~~  256 (289)
                      .+.+..+.+++.+++|+.|++++|.+.+..|..+       .|++++|...+        .+....+..+++|++|++++
T Consensus       259 ~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~~l~~L~~L~l~~  338 (680)
T 1ziw_A          259 NLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMED  338 (680)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSCCBSEECTTTTTTCTTCCEEECTTCBCCC------CCEECTTTTTTCTTCCEEECCS
T ss_pred             CcCccCcccccCcccccEeeCCCCccCccChhhhcCCCCccEEeccchhhhcccccccccccChhhcccCCCCCEEECCC
Confidence            4444444445555555555555555544333322       44444432221        11112445566777777777


Q ss_pred             CeeeeccCCCccccccccEEecccccC
Q 040144          257 NQLTLEVKHDWIPHFQLVALGLHSCYI  283 (289)
Q Consensus       257 n~~~~~~~~~~~~~~~L~~l~l~~n~~  283 (289)
                      |.+.+..+..+..+++|+.|++++|.+
T Consensus       339 n~l~~~~~~~~~~l~~L~~L~Ls~n~~  365 (680)
T 1ziw_A          339 NDIPGIKSNMFTGLINLKYLSLSNSFT  365 (680)
T ss_dssp             CCBCCCCTTTTTTCTTCCEEECTTCBS
T ss_pred             CccCCCChhHhccccCCcEEECCCCch
Confidence            777766666677777777777777764

>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=99.96  E-value=7.1e-28  Score=201.32  Aligned_cols=254  Identities=20%  Similarity=0.269  Sum_probs=209.9

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +++|++|++++|.+++ + +.+..+++|++|++++|.+...+.   +..+++|++|++++|.......   .+..+++|+
T Consensus        87 l~~L~~L~L~~n~i~~-~-~~~~~l~~L~~L~l~~n~i~~~~~---~~~l~~L~~L~l~~n~~~~~~~---~~~~l~~L~  158 (347)
T 4fmz_A           87 LVKLTNLYIGTNKITD-I-SALQNLTNLRELYLNEDNISDISP---LANLTKMYSLNLGANHNLSDLS---PLSNMTGLN  158 (347)
T ss_dssp             CTTCCEEECCSSCCCC-C-GGGTTCTTCSEEECTTSCCCCCGG---GTTCTTCCEEECTTCTTCCCCG---GGTTCTTCC
T ss_pred             CCcCCEEEccCCcccC-c-hHHcCCCcCCEEECcCCcccCchh---hccCCceeEEECCCCCCccccc---chhhCCCCc
Confidence            5789999999999875 3 469999999999999998776654   6789999999999996655544   578999999


Q ss_pred             EEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCC
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSL  160 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~  160 (289)
                      +|++.+|.+....+  +..+++|+.|++++|.+.  ..+. +..+++|+.+++++|.+.+ . + .+..+++|++|++++
T Consensus       159 ~L~l~~~~~~~~~~--~~~l~~L~~L~l~~n~l~--~~~~-~~~l~~L~~L~l~~n~l~~-~-~-~~~~~~~L~~L~l~~  230 (347)
T 4fmz_A          159 YLTVTESKVKDVTP--IANLTDLYSLSLNYNQIE--DISP-LASLTSLHYFTAYVNQITD-I-T-PVANMTRLNSLKIGN  230 (347)
T ss_dssp             EEECCSSCCCCCGG--GGGCTTCSEEECTTSCCC--CCGG-GGGCTTCCEEECCSSCCCC-C-G-GGGGCTTCCEEECCS
T ss_pred             EEEecCCCcCCchh--hccCCCCCEEEccCCccc--cccc-ccCCCccceeecccCCCCC-C-c-hhhcCCcCCEEEccC
Confidence            99999999887643  788999999999999986  3333 7789999999999999874 3 2 288899999999999


Q ss_pred             CCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeec-----CCCceEEEeeccee
Q 040144          161 NTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF-----IPWSFELHIYDNKL  234 (289)
Q Consensus       161 n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~-----~~~~~~L~l~~n~~  234 (289)
                      |. +.+ .+. +. +++|++|++      ++|.+++.  ..+..+++|+.|++++|.+++.     .+....|++++|.+
T Consensus       231 n~-l~~-~~~-~~~l~~L~~L~l------~~n~l~~~--~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l  299 (347)
T 4fmz_A          231 NK-ITD-LSP-LANLSQLTWLEI------GTNQISDI--NAVKDLTKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQL  299 (347)
T ss_dssp             SC-CCC-CGG-GTTCTTCCEEEC------CSSCCCCC--GGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCC
T ss_pred             Cc-cCC-Ccc-hhcCCCCCEEEC------CCCccCCC--hhHhcCCCcCEEEccCCccCCChhhcCCCCCCEEECcCCcC
Confidence            98 654 333 66 899999987      88888764  4688999999999999998753     12222999999999


Q ss_pred             eeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          235 NVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       235 ~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      ++..+. .+.++++|++|++++|++++..|  +..+++|+.|++++|.|+
T Consensus       300 ~~~~~~-~l~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~N~i~  346 (347)
T 4fmz_A          300 GNEDME-VIGGLTNLTTLFLSQNHITDIRP--LASLSKMDSADFANQVIK  346 (347)
T ss_dssp             CGGGHH-HHHTCTTCSEEECCSSSCCCCGG--GGGCTTCSEESSSCC---
T ss_pred             CCcChh-HhhccccCCEEEccCCccccccC--hhhhhccceeehhhhccc
Confidence            866666 89999999999999999998655  889999999999999986

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

Probab=99.96  E-value=4.3e-29  Score=228.80  Aligned_cols=267  Identities=15%  Similarity=0.215  Sum_probs=188.8

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeC-CCcccccc---C------------------------------------
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDL-SSKYLLYV---D------------------------------------   42 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l-~~~~~~~~---~------------------------------------   42 (289)
                      .++.|+|+++.+.|.+|++++++++|++|++ ++|.+...   .                                    
T Consensus       324 ~V~~L~Ls~~~L~G~ip~~l~~L~~L~~LdLss~N~lsG~~~~~~~~~~~~l~~~~l~~lr~~~~~~~l~~~~~~~~s~l  403 (876)
T 4ecn_A          324 RVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDL  403 (876)
T ss_dssp             CEEEEECTTTCCEEEECGGGGGCTTCCEEESCCTTHHHHTTCBTTBCCCSSCCHHHHHHHHTHHHHHHTCCCGGGGSCHH
T ss_pred             CEEEEECccCCCCCcCchHHhccccceEeeecccccccccccccccccccccchhHHHHHHHhhhhhhhccCcchhhhHH
Confidence            5788999999999999999999999999999 55531100   0                                    


Q ss_pred             ------------------------------------CCcccCCCCcccEEeccCccccc------------------cch
Q 040144           43 ------------------------------------NFLWLSGISLLEHLDLRYVNLSI------------------AFD   68 (289)
Q Consensus        43 ------------------------------------~~~~~~~l~~L~~L~l~~~~~~~------------------~~~   68 (289)
                                                          .+..+.++++|++|++++|.+..                  .+.
T Consensus       404 ~~~~l~~~~~~~~i~~~~~l~l~~l~l~~~~N~L~~IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~  483 (876)
T 4ecn_A          404 LQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENE  483 (876)
T ss_dssp             HHHHHHTCTTSCCCCCCCCCCCCTTTTTCCSCEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTS
T ss_pred             HHHHhhhCccccccccccccchhhceeccccCcccchhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCCh
Confidence                                                11236778899999999998887                  333


Q ss_pred             hhHhhh--cCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCC-CCCc-chhhHhhcCC-------CCCEEEccCce
Q 040144           69 WLMVAN--KLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQ-FDNS-FILSWVFALS-------HLPFLDLGFNN  137 (289)
Q Consensus        69 ~~~~~~--~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~-~~~~-~~~~~~~~~~-------~L~~L~l~~n~  137 (289)
                         .+.  .+++|++|++++|.+....|..++.+++|+.|++++|. ++ + .+|..++.+.       +|++|++++|.
T Consensus       484 ---~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~ls-g~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~  559 (876)
T 4ecn_A          484 ---ELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGIS-AAQLKADWTRLADDEDTGPKIQIFYMGYNN  559 (876)
T ss_dssp             ---CCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSC-HHHHHHHHHHHHHCTTTTTTCCEEECCSSC
T ss_pred             ---hhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcc-cccchHHHHhhhhcccccCCccEEEeeCCc
Confidence               555  89999999999999888888888999999999999997 76 4 5676665554       89999999998


Q ss_pred             eeeeeChh--hhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCC--------
Q 040144          138 FQGTIDLE--ALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRN--------  206 (289)
Q Consensus       138 ~~~~~~~~--~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~--------  206 (289)
                      +. .+ |.  .++.+++|+.|++++|. +. .+| .+. +++|+.|++      ++|.+. .+|..+..+++        
T Consensus       560 L~-~i-p~~~~l~~L~~L~~L~Ls~N~-l~-~lp-~~~~L~~L~~L~L------s~N~l~-~lp~~l~~l~~~L~~L~Ls  627 (876)
T 4ecn_A          560 LE-EF-PASASLQKMVKLGLLDCVHNK-VR-HLE-AFGTNVKLTDLKL------DYNQIE-EIPEDFCAFTDQVEGLGFS  627 (876)
T ss_dssp             CC-BC-CCHHHHTTCTTCCEEECTTSC-CC-BCC-CCCTTSEESEEEC------CSSCCS-CCCTTSCEECTTCCEEECC
T ss_pred             CC-cc-CChhhhhcCCCCCEEECCCCC-cc-cch-hhcCCCcceEEEC------cCCccc-cchHHHhhccccCCEEECc
Confidence            88 66 65  78888888888888888 65 666 566 777777776      444444 34444444444        


Q ss_pred             ------------------CcEEEccCCeeeecCCC------------ceEEEeecceeeeeeccccccccccccEEEecC
Q 040144          207 ------------------LVTFNLVNNSIVGFIPW------------SFELHIYDNKLNVTLFELHFANLIEMSWFRVGG  256 (289)
Q Consensus       207 ------------------L~~L~l~~n~~~~~~~~------------~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~  256 (289)
                                        |+.|++++|.+.+.+|.            ...|++++|.++ .+|...+..+++|+.|++++
T Consensus       628 ~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~-~lp~~~~~~l~~L~~L~Ls~  706 (876)
T 4ecn_A          628 HNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQ-KFPTELFATGSPISTIILSN  706 (876)
T ss_dssp             SSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCC-SCCHHHHHTTCCCSEEECCS
T ss_pred             CCCCCcCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCC-ccCHHHHccCCCCCEEECCC
Confidence                              45555555544433221            115666666666 45552344677788888888


Q ss_pred             CeeeeccCCCccc--------cccccEEecccccCccCCC
Q 040144          257 NQLTLEVKHDWIP--------HFQLVALGLHSCYIGSRFP  288 (289)
Q Consensus       257 n~~~~~~~~~~~~--------~~~L~~l~l~~n~~~~~~p  288 (289)
                      |++. .+|..+..        +++|+.|++++|+++ .+|
T Consensus       707 N~L~-~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~-~lp  744 (876)
T 4ecn_A          707 NLMT-SIPENSLKPKDGNYKNTYLLTTIDLRFNKLT-SLS  744 (876)
T ss_dssp             CCCS-CCCTTSSSCTTSCCTTGGGCCEEECCSSCCC-CCC
T ss_pred             CcCC-ccChHHhccccccccccCCccEEECCCCCCc-cch
Confidence            8777 35554332        237888888888776 555

>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=99.96  E-value=3.3e-28  Score=217.17  Aligned_cols=263  Identities=19%  Similarity=0.175  Sum_probs=183.3

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +++|++|++++|.+++..+..|..+++|++|++++|.+...++.. +.++++|++|++++|.+...+.  ..+..+++|+
T Consensus        74 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-~~~l~~L~~L~L~~n~l~~l~~--~~~~~l~~L~  150 (597)
T 3oja_B           74 FRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHV-FQNVPLLTVLVLERNDLSSLPR--GIFHNTPKLT  150 (597)
T ss_dssp             CCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTT-TTTCTTCCEEECCSSCCCCCCT--TTTTTCTTCC
T ss_pred             CCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHH-HcCCCCCCEEEeeCCCCCCCCH--HHhccCCCCC
Confidence            467788888888877766667788888888888877766555433 5677788888888887776543  1346777888


Q ss_pred             EEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhh-------------
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEAL-------------  147 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~-------------  147 (289)
                      +|++++|.+....+..++.+++|+.|++++|.++ . .+  +..+++|+.|++++|.+.+...+..+             
T Consensus       151 ~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~-~-~~--~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~  226 (597)
T 3oja_B          151 TLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT-H-VD--LSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVV  226 (597)
T ss_dssp             EEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCS-B-CC--GGGCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEE
T ss_pred             EEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCC-C-cC--hhhhhhhhhhhcccCccccccCCchhheeeccCCccccc
Confidence            8888888877776667777788888888887775 2 21  33455555555555544321000000             


Q ss_pred             --cCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeec----
Q 040144          148 --GNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF----  220 (289)
Q Consensus       148 --~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~----  220 (289)
                        ...++|+.|++++|. +.+  +..+. +++|+.|++      ++|.+.+..|..+..+++|+.|++++|.+++.    
T Consensus       227 ~~~~~~~L~~L~L~~n~-l~~--~~~l~~l~~L~~L~L------s~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~  297 (597)
T 3oja_B          227 RGPVNVELTILKLQHNN-LTD--TAWLLNYPGLVEVDL------SYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYG  297 (597)
T ss_dssp             ECSCCSCCCEEECCSSC-CCC--CGGGGGCTTCSEEEC------CSSCCCEEESGGGTTCSSCCEEECTTSCCCEEECSS
T ss_pred             ccccCCCCCEEECCCCC-CCC--ChhhccCCCCCEEEC------CCCccCCCCHHHhcCccCCCEEECCCCCCCCCCccc
Confidence              012456777777776 443  34555 777777775      78888888888888888999999998888753    


Q ss_pred             --CCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          221 --IPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       221 --~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                        +|....|++++|.++ .+|. .+..+++|+.|++++|++.+. +  +..+++|+.|++++|.+.
T Consensus       298 ~~l~~L~~L~Ls~N~l~-~i~~-~~~~l~~L~~L~L~~N~l~~~-~--~~~~~~L~~L~l~~N~~~  358 (597)
T 3oja_B          298 QPIPTLKVLDLSHNHLL-HVER-NQPQFDRLENLYLDHNSIVTL-K--LSTHHTLKNLTLSHNDWD  358 (597)
T ss_dssp             SCCTTCCEEECCSSCCC-CCGG-GHHHHTTCSEEECCSSCCCCC-C--CCTTCCCSEEECCSSCEE
T ss_pred             ccCCCCcEEECCCCCCC-ccCc-ccccCCCCCEEECCCCCCCCc-C--hhhcCCCCEEEeeCCCCC
Confidence              223338899998888 6777 678888999999999988763 2  567788888999988875

>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=99.96  E-value=6e-27  Score=194.37  Aligned_cols=262  Identities=19%  Similarity=0.198  Sum_probs=210.4

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +++++|++++|.+++..+..|.++++|++|++++|.+....+.. +.++++|++|++++|.+...+.   .+  .++|++
T Consensus        52 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-~~~l~~L~~L~Ls~n~l~~l~~---~~--~~~L~~  125 (330)
T 1xku_A           52 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGA-FAPLVKLERLYLSKNQLKELPE---KM--PKTLQE  125 (330)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTT-TTTCTTCCEEECCSSCCSBCCS---SC--CTTCCE
T ss_pred             CCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHH-hcCCCCCCEEECCCCcCCccCh---hh--cccccE
Confidence            57899999999999877778999999999999998877664433 7889999999999998887643   22  278999


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCC-cchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN-SFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSL  160 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~-~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~  160 (289)
                      |++++|.+....+..+..+++|+.|++++|.++. ...+..+..+++|++|++++|.+. .+ +..+.  ++|++|++++
T Consensus       126 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l-~~~~~--~~L~~L~l~~  201 (330)
T 1xku_A          126 LRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT-TI-PQGLP--PSLTELHLDG  201 (330)
T ss_dssp             EECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCC-SC-CSSCC--TTCSEEECTT
T ss_pred             EECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccc-cC-Ccccc--ccCCEEECCC
Confidence            9999999998877778999999999999998862 234566788999999999999987 45 44332  7899999999


Q ss_pred             CCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecc
Q 040144          161 NTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDN  232 (289)
Q Consensus       161 n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n  232 (289)
                      |. +.+..+..+. +++|+.|++      ++|.+.+..+..+..+++|+.|++++|.++ .+|..+       .|++++|
T Consensus       202 n~-l~~~~~~~~~~l~~L~~L~L------s~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l~~N  273 (330)
T 1xku_A          202 NK-ITKVDAASLKGLNNLAKLGL------SFNSISAVDNGSLANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNN  273 (330)
T ss_dssp             SC-CCEECTGGGTTCTTCCEEEC------CSSCCCEECTTTGGGSTTCCEEECCSSCCS-SCCTTTTTCSSCCEEECCSS
T ss_pred             Cc-CCccCHHHhcCCCCCCEEEC------CCCcCceeChhhccCCCCCCEEECCCCcCc-cCChhhccCCCcCEEECCCC
Confidence            98 7766677787 899998886      889998888888999999999999999988 555444       8999999


Q ss_pred             eeeeeeccccccc------cccccEEEecCCeeee--ccCCCccccccccEEeccccc
Q 040144          233 KLNVTLFELHFAN------LIEMSWFRVGGNQLTL--EVKHDWIPHFQLVALGLHSCY  282 (289)
Q Consensus       233 ~~~~~~~~~~~~~------~~~L~~l~l~~n~~~~--~~~~~~~~~~~L~~l~l~~n~  282 (289)
                      .++ .++...+..      ...++.+++++|++..  ..|..+..+++++.+++++|+
T Consensus       274 ~i~-~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~i~~~~f~~~~~l~~l~L~~N~  330 (330)
T 1xku_A          274 NIS-AIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGNYK  330 (330)
T ss_dssp             CCC-CCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCGGGGTTCCCGGGEEC----
T ss_pred             cCC-ccChhhcCCcccccccccccceEeecCcccccccCccccccccceeEEEecccC
Confidence            998 455435543      4788999999998864  455678888999999999885

>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=99.96  E-value=1.4e-28  Score=206.13  Aligned_cols=265  Identities=20%  Similarity=0.194  Sum_probs=199.2

Q ss_pred             cEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEc
Q 040144            5 RYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRL   84 (289)
Q Consensus         5 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l   84 (289)
                      ...+.+++.++ .+|..+.  ++|++|++++|.+...+... +.++++|++|++++|.+....+  ..+..+++|++|++
T Consensus        34 ~~c~~~~~~l~-~iP~~~~--~~L~~L~l~~n~i~~~~~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~L~L  107 (353)
T 2z80_A           34 GICKGSSGSLN-SIPSGLT--EAVKSLDLSNNRITYISNSD-LQRCVNLQALVLTSNGINTIEE--DSFSSLGSLEHLDL  107 (353)
T ss_dssp             SEEECCSTTCS-SCCTTCC--TTCCEEECTTSCCCEECTTT-TTTCTTCCEEECTTSCCCEECT--TTTTTCTTCCEEEC
T ss_pred             eEeeCCCCCcc-ccccccc--ccCcEEECCCCcCcccCHHH-hccCCCCCEEECCCCccCccCH--hhcCCCCCCCEEEC
Confidence            34566666666 3555443  48889999888876665433 6788889999998888777532  25778888999999


Q ss_pred             cCCccCCCCcccccCCCCCcEEeccCCCCCCcchhh--HhhcCCCCCEEEccCce-eeeeeChhhhcCCCCccEEeCCCC
Q 040144           85 SNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS--WVFALSHLPFLDLGFNN-FQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        85 ~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~--~~~~~~~L~~L~l~~n~-~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      ++|.++...+..+..+++|++|++++|.++  .++.  .+..+++|++|++++|+ +. .+++..++.+++|++|++++|
T Consensus       108 s~n~l~~~~~~~~~~l~~L~~L~L~~n~l~--~l~~~~~~~~l~~L~~L~l~~n~~~~-~~~~~~~~~l~~L~~L~l~~n  184 (353)
T 2z80_A          108 SYNYLSNLSSSWFKPLSSLTFLNLLGNPYK--TLGETSLFSHLTKLQILRVGNMDTFT-KIQRKDFAGLTFLEELEIDAS  184 (353)
T ss_dssp             CSSCCSSCCHHHHTTCTTCSEEECTTCCCS--SSCSSCSCTTCTTCCEEEEEESSSCC-EECTTTTTTCCEEEEEEEEET
T ss_pred             CCCcCCcCCHhHhCCCccCCEEECCCCCCc--ccCchhhhccCCCCcEEECCCCcccc-ccCHHHccCCCCCCEEECCCC
Confidence            998888776666788889999999888886  3333  56778889999998884 44 443667888888999999888


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce----------EEEee
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF----------ELHIY  230 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~----------~L~l~  230 (289)
                      . +.+..|..+. +++|++|++      ++|.+.......+..+++|+.|++++|.+++..+..+          .++++
T Consensus       185 ~-l~~~~~~~l~~l~~L~~L~l------~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~  257 (353)
T 2z80_A          185 D-LQSYEPKSLKSIQNVSHLIL------HMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFR  257 (353)
T ss_dssp             T-CCEECTTTTTTCSEEEEEEE------ECSCSTTHHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEE
T ss_pred             C-cCccCHHHHhccccCCeecC------CCCccccchhhhhhhcccccEEECCCCccccccccccccccccchhhccccc
Confidence            8 6666677777 888888876      7777765444445568889999999988876433322          56777


Q ss_pred             cceeee----eeccccccccccccEEEecCCeeeeccCCC-ccccccccEEecccccCccCC
Q 040144          231 DNKLNV----TLFELHFANLIEMSWFRVGGNQLTLEVKHD-WIPHFQLVALGLHSCYIGSRF  287 (289)
Q Consensus       231 ~n~~~~----~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~-~~~~~~L~~l~l~~n~~~~~~  287 (289)
                      ++.+.+    .+|. .+.++++|+.|++++|+++. +|.. +..+++|+.|++++|++++..
T Consensus       258 ~~~l~~~~l~~l~~-~l~~l~~L~~L~Ls~N~l~~-i~~~~~~~l~~L~~L~L~~N~~~~~~  317 (353)
T 2z80_A          258 NVKITDESLFQVMK-LLNQISGLLELEFSRNQLKS-VPDGIFDRLTSLQKIWLHTNPWDCSC  317 (353)
T ss_dssp             SCBCCHHHHHHHHH-HHHTCTTCCEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSCBCCCH
T ss_pred             cccccCcchhhhHH-HHhcccCCCEEECCCCCCCc-cCHHHHhcCCCCCEEEeeCCCccCcC
Confidence            776654    4666 78899999999999999995 6665 589999999999999988643

>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=99.96  E-value=9.4e-28  Score=197.17  Aligned_cols=250  Identities=17%  Similarity=0.191  Sum_probs=188.2

Q ss_pred             cEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEc
Q 040144            5 RYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRL   84 (289)
Q Consensus         5 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l   84 (289)
                      +.++..++.++ .+|..+  .+++++|++++|.+..++... +.++++|++|++++|.+.........+..+++|++|++
T Consensus        10 ~~l~c~~~~l~-~ip~~~--~~~l~~L~L~~n~l~~i~~~~-~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L   85 (306)
T 2z66_A           10 TEIRCNSKGLT-SVPTGI--PSSATRLELESNKLQSLPHGV-FDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDL   85 (306)
T ss_dssp             TEEECCSSCCS-SCCSCC--CTTCCEEECCSSCCCCCCTTT-TTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEEC
T ss_pred             CEEEcCCCCcc-cCCCCC--CCCCCEEECCCCccCccCHhH-hhccccCCEEECCCCccCcccCcccccccccccCEEEC
Confidence            45677777776 355544  368999999998877665433 67889999999999988755222235667899999999


Q ss_pred             cCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcc
Q 040144           85 SNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGL  164 (289)
Q Consensus        85 ~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~  164 (289)
                      ++|.+... +..+..+++|+.|++++|.++.......+..+++|++|++++|.+.+.. +..+..+++|++|++++|. +
T Consensus        86 s~n~i~~l-~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~n~-l  162 (306)
T 2z66_A           86 SFNGVITM-SSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAF-NGIFNGLSSLEVLKMAGNS-F  162 (306)
T ss_dssp             CSCSEEEE-EEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECS-TTTTTTCTTCCEEECTTCE-E
T ss_pred             CCCccccC-hhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccc-hhhcccCcCCCEEECCCCc-c
Confidence            99988764 4457888999999999998862212245778889999999999887554 7778889999999999998 6


Q ss_pred             cC-CCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeecccc
Q 040144          165 TG-RIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELH  242 (289)
Q Consensus       165 ~~-~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~  242 (289)
                      .+ ..|..+. +++|+.|++      ++|.+++..+..++.+++|+.|++++|.+++.                  +...
T Consensus       163 ~~~~~~~~~~~l~~L~~L~L------s~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~------------------~~~~  218 (306)
T 2z66_A          163 QENFLPDIFTELRNLTFLDL------SQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSL------------------DTFP  218 (306)
T ss_dssp             GGGEECSCCTTCTTCCEEEC------TTSCCCEECTTTTTTCTTCCEEECTTSCCSBC------------------CSGG
T ss_pred             ccccchhHHhhCcCCCEEEC------CCCCcCCcCHHHhcCCCCCCEEECCCCccCcc------------------Chhh
Confidence            54 4677777 888998886      88888888888888999999999999888732                  2224


Q ss_pred             ccccccccEEEecCCeeeeccCCCccccc-cccEEecccccCcc
Q 040144          243 FANLIEMSWFRVGGNQLTLEVKHDWIPHF-QLVALGLHSCYIGS  285 (289)
Q Consensus       243 ~~~~~~L~~l~l~~n~~~~~~~~~~~~~~-~L~~l~l~~n~~~~  285 (289)
                      +..+++|+.|++++|++.+..+..+..++ +|+.|++++|.++.
T Consensus       219 ~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N~~~~  262 (306)
T 2z66_A          219 YKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFAC  262 (306)
T ss_dssp             GTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEECTTCCEEC
T ss_pred             ccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEccCCCeec
Confidence            56677777777777777776666676663 77777777777653

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

Probab=99.96  E-value=1.5e-27  Score=220.77  Aligned_cols=268  Identities=23%  Similarity=0.227  Sum_probs=189.7

Q ss_pred             CCCCcEEEccCCcccccC-CCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCc
Q 040144            1 MGNLRYLNFSKTRICGII-PQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSL   79 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~-~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L   79 (289)
                      +++|++|++++|...+.+ |.+|.++++|++|++++|.+....+.. +.++++|++|++++|.+.........+..+++|
T Consensus        47 l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~-~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L  125 (844)
T 3j0a_A           47 LEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDA-FQGLFHLFELRLYFCGLSDAVLKDGYFRNLKAL  125 (844)
T ss_dssp             CCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTS-SCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSC
T ss_pred             cccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhH-ccCCcccCEeeCcCCCCCcccccCccccccCCC
Confidence            467889999988655444 778888999999999988876664433 778889999999988877632111136788889


Q ss_pred             cEEEccCCccCCCCc-ccccCCCCCcEEeccCCCCCCcchhhHhhcC--CCCCEEEccCceeeeeeChhhhcCC------
Q 040144           80 VELRLSNCQLQHFSP-LATVNFSSLTMLDLSHNQFDNSFILSWVFAL--SHLPFLDLGFNNFQGTIDLEALGNL------  150 (289)
Q Consensus        80 ~~L~l~~~~l~~~~~-~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~--~~L~~L~l~~n~~~~~~~~~~~~~~------  150 (289)
                      ++|++++|.+....+ ..++.+++|++|++++|.++ ...+..+..+  ++|+.|++++|.+.+.. +..++.+      
T Consensus       126 ~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~-~~~~~~l~~l~~~~L~~L~L~~n~l~~~~-~~~~~~~~~~~~~  203 (844)
T 3j0a_A          126 TRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIF-LVCEHELEPLQGKTLSFFSLAANSLYSRV-SVDWGKCMNPFRN  203 (844)
T ss_dssp             CEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCC-CCCSGGGHHHHHCSSCCCEECCSBSCCCC-CCCCCSSSCTTTT
T ss_pred             CEEECCCCcccccccchhHhhCCCCCEEECCCCcCC-eeCHHHcccccCCccceEECCCCcccccc-ccchhhcCCcccc
Confidence            999999988877644 46788888999999888876 3333333333  44444444444443222 2112111      


Q ss_pred             --------------------------------------------------------------CCccEEeCCCCCcccCCC
Q 040144          151 --------------------------------------------------------------TSINRLDLSLNTGLTGRI  168 (289)
Q Consensus       151 --------------------------------------------------------------~~L~~L~l~~n~~~~~~~  168 (289)
                                                                                    ++++.|++++|. +.+..
T Consensus       204 ~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~-l~~~~  282 (844)
T 3j0a_A          204 MVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGF-VFSLN  282 (844)
T ss_dssp             CCBSEEBCSSCCSSTTTTSGGGGTSCSCCBSEEECCSSCCBCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTCC-CCEEC
T ss_pred             CceeEEecCCCcCchhHHHHHHhhcCcccccceecccccccccccccccCCCChhhhhccccCCccEEECCCCc-ccccC
Confidence                                                                          356666666665 44444


Q ss_pred             Ccccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeecc
Q 040144          169 PRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFE  240 (289)
Q Consensus       169 ~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~  240 (289)
                      +..+. +++|+.|++      ++|.+.+..+..+..+++|+.|++++|.+++..|..+       .|++++|.+.+ ++.
T Consensus       283 ~~~~~~l~~L~~L~L------~~n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~-~~~  355 (844)
T 3j0a_A          283 SRVFETLKDLKVLNL------AYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAI-IQD  355 (844)
T ss_dssp             SCCSSSCCCCCEEEE------ESCCCCEECTTTTTTCSSCCEEEEESCCCSCCCSCSCSSCTTCCEEECCSCCCCC-CCS
T ss_pred             hhhhhcCCCCCEEEC------CCCcCCCCChHHhcCCCCCCEEECCCCCCCccCHHHhcCCCCCCEEECCCCCCCc-cCh
Confidence            55555 666666665      8999998888899999999999999999987655544       89999999985 444


Q ss_pred             ccccccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          241 LHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       241 ~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      ..+.++++|+.|++++|.+++. +    .+++|+.+++++|+++
T Consensus       356 ~~~~~l~~L~~L~Ls~N~l~~i-~----~~~~L~~L~l~~N~l~  394 (844)
T 3j0a_A          356 QTFKFLEKLQTLDLRDNALTTI-H----FIPSIPDIFLSGNKLV  394 (844)
T ss_dssp             SCSCSCCCCCEEEEETCCSCCC-S----SCCSCSEEEEESCCCC
T ss_pred             hhhcCCCCCCEEECCCCCCCcc-c----CCCCcchhccCCCCcc
Confidence            3788999999999999998852 2    2666777777777765

>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=99.96  E-value=5.2e-27  Score=203.60  Aligned_cols=79  Identities=24%  Similarity=0.290  Sum_probs=38.8

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|++|++++|.+++.. + +.++++|++|++++|.+.....   +.++++|++|++++|.+...+    .+..+++|++
T Consensus        68 ~~L~~L~Ls~n~l~~~~-~-~~~l~~L~~L~l~~n~l~~~~~---~~~l~~L~~L~L~~n~l~~~~----~~~~l~~L~~  138 (466)
T 1o6v_A           68 NNLTQINFSNNQLTDIT-P-LKNLTKLVDILMNNNQIADITP---LANLTNLTGLTLFNNQITDID----PLKNLTNLNR  138 (466)
T ss_dssp             TTCCEEECCSSCCCCCG-G-GTTCTTCCEEECCSSCCCCCGG---GTTCTTCCEEECCSSCCCCCG----GGTTCTTCSE
T ss_pred             cCCCEEECCCCccCCch-h-hhccccCCEEECCCCccccChh---hcCCCCCCEEECCCCCCCCCh----HHcCCCCCCE
Confidence            45666666666655432 2 5555566666665554443332   344555555555555444332    1334444444


Q ss_pred             EEccCCcc
Q 040144           82 LRLSNCQL   89 (289)
Q Consensus        82 L~l~~~~l   89 (289)
                      |++++|.+
T Consensus       139 L~l~~n~l  146 (466)
T 1o6v_A          139 LELSSNTI  146 (466)
T ss_dssp             EEEEEEEE
T ss_pred             EECCCCcc
Confidence            44444433

>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=99.95  E-value=7.3e-28  Score=213.16  Aligned_cols=63  Identities=27%  Similarity=0.270  Sum_probs=36.2

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCcccc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLS   64 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   64 (289)
                      +++|++|++++|.+++..|.+|+++++|++|++++|.+...+... +.++++|++|++++|.+.
T Consensus        49 l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~-~~~l~~L~~L~Ls~n~l~  111 (549)
T 2z81_A           49 CANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSW-FGPLSSLKYLNLMGNPYQ  111 (549)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHH-HTTCTTCCEEECTTCCCS
T ss_pred             CCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHH-hccCCCCcEEECCCCccc
Confidence            356666666666666655566666666666666666544433221 345555555555555544

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

Probab=99.95  E-value=7.4e-27  Score=193.97  Aligned_cols=261  Identities=16%  Similarity=0.157  Sum_probs=210.8

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +++++|++++|.+++..+..|.++++|++|++++|.+....+.. +.++++|++|++++|.+...+.   .+.  ++|++
T Consensus        54 ~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-~~~l~~L~~L~L~~n~l~~l~~---~~~--~~L~~  127 (332)
T 2ft3_A           54 PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKA-FSPLRKLQKLYISKNHLVEIPP---NLP--SSLVE  127 (332)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGG-STTCTTCCEEECCSSCCCSCCS---SCC--TTCCE
T ss_pred             CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhH-hhCcCCCCEEECCCCcCCccCc---ccc--ccCCE
Confidence            57899999999999877888999999999999999877664433 7889999999999999887654   222  78999


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCC-cchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN-SFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSL  160 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~-~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~  160 (289)
                      |++++|.+....+..+..+++|+.|++++|.++. ...+..+..+ +|++|++++|.+. .+ +..+.  ++|++|++++
T Consensus       128 L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~-~l-~~~~~--~~L~~L~l~~  202 (332)
T 2ft3_A          128 LRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLT-GI-PKDLP--ETLNELHLDH  202 (332)
T ss_dssp             EECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCS-SC-CSSSC--SSCSCCBCCS
T ss_pred             EECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCC-cc-Ccccc--CCCCEEECCC
Confidence            9999999998877778999999999999998852 1334445555 8999999999987 45 44433  7899999999


Q ss_pred             CCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecc
Q 040144          161 NTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDN  232 (289)
Q Consensus       161 n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n  232 (289)
                      |. +.+..+..+. +++|+.|++      ++|.+.+..+.++..+++|+.|++++|.++ .+|..+       .|++++|
T Consensus       203 n~-i~~~~~~~l~~l~~L~~L~L------~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l~~N  274 (332)
T 2ft3_A          203 NK-IQAIELEDLLRYSKLYRLGL------GHNQIRMIENGSLSFLPTLRELHLDNNKLS-RVPAGLPDLKLLQVVYLHTN  274 (332)
T ss_dssp             SC-CCCCCTTSSTTCTTCSCCBC------CSSCCCCCCTTGGGGCTTCCEEECCSSCCC-BCCTTGGGCTTCCEEECCSS
T ss_pred             Cc-CCccCHHHhcCCCCCCEEEC------CCCcCCcCChhHhhCCCCCCEEECCCCcCe-ecChhhhcCccCCEEECCCC
Confidence            98 7766667777 889998886      899999888888999999999999999998 555544       8999999


Q ss_pred             eeeeeeccccccc------cccccEEEecCCeee--eccCCCccccccccEEeccccc
Q 040144          233 KLNVTLFELHFAN------LIEMSWFRVGGNQLT--LEVKHDWIPHFQLVALGLHSCY  282 (289)
Q Consensus       233 ~~~~~~~~~~~~~------~~~L~~l~l~~n~~~--~~~~~~~~~~~~L~~l~l~~n~  282 (289)
                      .+++ ++...+..      ...|+.+++.+|++.  +..+..+..+++|+.+++++|+
T Consensus       275 ~l~~-~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~l~~n~  331 (332)
T 2ft3_A          275 NITK-VGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGNYK  331 (332)
T ss_dssp             CCCB-CCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEEC----
T ss_pred             CCCc-cChhHccccccccccccccceEeecCcccccccCcccccccchhhhhhccccc
Confidence            9984 54435544      467999999999887  5566778899999999999885

>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=99.95  E-value=1.1e-26  Score=201.44  Aligned_cols=262  Identities=24%  Similarity=0.352  Sum_probs=151.2

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchh-----------
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDW-----------   69 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~-----------   69 (289)
                      +++|++|++++|.+++..+  +.++++|++|++++|.+...+.   +.++++|++|++++|.+...+.+           
T Consensus        89 l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~---~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l  163 (466)
T 1o6v_A           89 LTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDIDP---LKNLTNLNRLELSSNTISDISALSGLTSLQQLSF  163 (466)
T ss_dssp             CTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCCGG---GTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEE
T ss_pred             cccCCEEECCCCccccChh--hcCCCCCCEEECCCCCCCCChH---HcCCCCCCEEECCCCccCCChhhccCCcccEeec
Confidence            4678888888888775433  7888888888888877655543   56677777777777766553211           


Q ss_pred             ------hHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeC
Q 040144           70 ------LMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTID  143 (289)
Q Consensus        70 ------~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~  143 (289)
                            ...+..+++|++|++++|.+...  ..+..+++|+.|++++|.++ ...+  ++.+++|++|++++|.+.+ + 
T Consensus       164 ~~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~l~~n~l~-~~~~--~~~l~~L~~L~l~~n~l~~-~-  236 (466)
T 1o6v_A          164 GNQVTDLKPLANLTTLERLDISSNKVSDI--SVLAKLTNLESLIATNNQIS-DITP--LGILTNLDELSLNGNQLKD-I-  236 (466)
T ss_dssp             EESCCCCGGGTTCTTCCEEECCSSCCCCC--GGGGGCTTCSEEECCSSCCC-CCGG--GGGCTTCCEEECCSSCCCC-C-
T ss_pred             CCcccCchhhccCCCCCEEECcCCcCCCC--hhhccCCCCCEEEecCCccc-cccc--ccccCCCCEEECCCCCccc-c-
Confidence                  01234455666666666655543  23455555666666555554 2111  3344555555555554441 2 


Q ss_pred             hhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccc----------------cccccCCcccccccccccCCCC
Q 040144          144 LEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQE----------------SLDMRSSSIYGHLTDQLGQFRN  206 (289)
Q Consensus       144 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~----------------~l~l~~~~~~~~~~~~l~~~~~  206 (289)
                       ..+..+++|++|++++|. +.+..+  +. +++|+.|++++                .+++++|.+.+..+  ++.+++
T Consensus       237 -~~l~~l~~L~~L~l~~n~-l~~~~~--~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~~~--~~~l~~  310 (466)
T 1o6v_A          237 -GTLASLTNLTDLDLANNQ-ISNLAP--LSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISP--ISNLKN  310 (466)
T ss_dssp             -GGGGGCTTCSEEECCSSC-CCCCGG--GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCCGG--GGGCTT
T ss_pred             -hhhhcCCCCCEEECCCCc-cccchh--hhcCCCCCEEECCCCccCccccccCCCccCeEEcCCCcccCchh--hcCCCC
Confidence             234444555555555554 332211  33 44444444321                12235566654433  556667


Q ss_pred             CcEEEccCCeeeecCC-----CceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccc
Q 040144          207 LVTFNLVNNSIVGFIP-----WSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSC  281 (289)
Q Consensus       207 L~~L~l~~n~~~~~~~-----~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n  281 (289)
                      |+.|++++|.+.+..|     ....|++++|.+++ + . .+.++++|+.|++++|++++..|  +..+++|+.|++++|
T Consensus       311 L~~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~-~-~-~l~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n  385 (466)
T 1o6v_A          311 LTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSD-V-S-SLANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQ  385 (466)
T ss_dssp             CSEEECCSSCCSCCGGGGGCTTCCEEECCSSCCCC-C-G-GGTTCTTCCEEECCSSCCCBCGG--GTTCTTCCEEECCCE
T ss_pred             CCEEECcCCcCCCchhhccCccCCEeECCCCccCC-c-h-hhccCCCCCEEeCCCCccCccch--hhcCCCCCEEeccCC
Confidence            7777777776665433     11167777777763 3 2 46677777777777777776554  677777777777777


Q ss_pred             cCcc
Q 040144          282 YIGS  285 (289)
Q Consensus       282 ~~~~  285 (289)
                      .+++
T Consensus       386 ~~~~  389 (466)
T 1o6v_A          386 AWTN  389 (466)
T ss_dssp             EEEC
T ss_pred             cccC
Confidence            7764

>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=99.95  E-value=4.1e-28  Score=214.77  Aligned_cols=275  Identities=20%  Similarity=0.180  Sum_probs=194.0

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +++++|++++|.+++..|..|.++++|++|++++|.+....+.. +.++++|++|++++|.+...++  ..+..+++|++
T Consensus        26 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~-~~~l~~L~~L~Ls~n~l~~~~~--~~~~~l~~L~~  102 (549)
T 2z81_A           26 AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDA-FYSLGSLEHLDLSDNHLSSLSS--SWFGPLSSLKY  102 (549)
T ss_dssp             TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTT-TTTCTTCCEEECTTSCCCSCCH--HHHTTCTTCCE
T ss_pred             CCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhh-ccccccCCEEECCCCccCccCH--HHhccCCCCcE
Confidence            47999999999999888889999999999999999877666443 7889999999999999888753  25889999999


Q ss_pred             EEccCCccCCC-CcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcC-----------
Q 040144           82 LRLSNCQLQHF-SPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGN-----------  149 (289)
Q Consensus        82 L~l~~~~l~~~-~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~-----------  149 (289)
                      |++++|.+... .+..++.+++|++|++++|.+.....+..+..+++|++|++++|.+.+.. +..++.           
T Consensus       103 L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~l~~l~~L~~L~l~~  181 (549)
T 2z81_A          103 LNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQ-SQSLKSIRDIHHLTLHL  181 (549)
T ss_dssp             EECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEEC-TTTTTTCSEEEEEEEEC
T ss_pred             EECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccC-hhhhhccccCceEeccc
Confidence            99999999864 34578899999999999997431333356778899999999999887654 555544           


Q ss_pred             -------------CCCccEEeCCCCCcccCCC--Ccccc--ccCcceeeccc----------------------------
Q 040144          150 -------------LTSINRLDLSLNTGLTGRI--PRSMA--LCNLKSINLQE----------------------------  184 (289)
Q Consensus       150 -------------~~~L~~L~l~~n~~~~~~~--~~~~~--~~~L~~L~l~~----------------------------  184 (289)
                                   +++|++|++++|. +.+..  |..+.  +++|+.|++.+                            
T Consensus       182 n~~~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~~~L~~l~l~~  260 (549)
T 2z81_A          182 SESAFLLEIFADILSSVRYLELRDTN-LARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDD  260 (549)
T ss_dssp             SBSTTHHHHHHHSTTTBSEEEEESCB-CTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGCTTCCEEEEES
T ss_pred             CcccccchhhHhhcccccEEEccCCc-cccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhhcccccccccc
Confidence                         4556666666665 43210  11111  22233222211                            


Q ss_pred             -----------------------------------------------------cccccCCcccccccccc-cCCCCCcEE
Q 040144          185 -----------------------------------------------------SLDMRSSSIYGHLTDQL-GQFRNLVTF  210 (289)
Q Consensus       185 -----------------------------------------------------~l~l~~~~~~~~~~~~l-~~~~~L~~L  210 (289)
                                                                           .+++++|.+. .+|..+ +.+++|+.|
T Consensus       261 ~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~~~~~~~~L~~L~l~~n~l~-~ip~~~~~~l~~L~~L  339 (549)
T 2z81_A          261 CTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVF-LVPCSFSQHLKSLEFL  339 (549)
T ss_dssp             CEEECCSCCCCCTTTCCCCCTTCCEEEEESCBCSCGGGSCCCCHHHHHSTTCCEEEEESSCCC-CCCHHHHHHCTTCCEE
T ss_pred             ccccccccccccchhhhhhhcccccccccccccchhhhcccchhhhhhcccceEEEeccCccc-cCCHHHHhcCccccEE
Confidence                                                                 1222333333 233333 467888888


Q ss_pred             EccCCeeeecC----------CCceEEEeecceeeeeecc--ccccccccccEEEecCCeeeeccCCCccccccccEEec
Q 040144          211 NLVNNSIVGFI----------PWSFELHIYDNKLNVTLFE--LHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGL  278 (289)
Q Consensus       211 ~l~~n~~~~~~----------~~~~~L~l~~n~~~~~~~~--~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  278 (289)
                      ++++|.+.+.+          +....|++++|.+++ ++.  ..+..+++|++|++++|+++ .+|..+..+++|+.|++
T Consensus       340 ~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~-~~~~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~~~~L~~L~L  417 (549)
T 2z81_A          340 DLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRS-MQKTGEILLTLKNLTSLDISRNTFH-PMPDSCQWPEKMRFLNL  417 (549)
T ss_dssp             ECCSSCCCHHHHHHHTCTTSSTTCCEEECTTSCCCC-HHHHHHHGGGCTTCCEEECTTCCCC-CCCSCCCCCTTCCEEEC
T ss_pred             EccCCccccccccchhhhhccccCcEEEccCCcccc-cccchhhhhcCCCCCEEECCCCCCc-cCChhhcccccccEEEC
Confidence            88888887543          222278888888873 331  25777888888888888888 46777777777888888


Q ss_pred             ccccCc
Q 040144          279 HSCYIG  284 (289)
Q Consensus       279 ~~n~~~  284 (289)
                      ++|+++
T Consensus       418 s~N~l~  423 (549)
T 2z81_A          418 SSTGIR  423 (549)
T ss_dssp             TTSCCS
T ss_pred             CCCCcc
Confidence            887775

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

Probab=99.95  E-value=2.7e-26  Score=197.68  Aligned_cols=246  Identities=21%  Similarity=0.218  Sum_probs=174.9

Q ss_pred             cEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEc
Q 040144            5 RYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRL   84 (289)
Q Consensus         5 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l   84 (289)
                      +.++..+..++ .+|..+.  ++++.|++++|.+....... +.++++|++|++++|.+.....  ..+..+++|++|++
T Consensus        46 ~~v~c~~~~l~-~iP~~~~--~~l~~L~L~~n~i~~~~~~~-~~~l~~L~~L~Ls~n~i~~i~~--~~~~~l~~L~~L~L  119 (440)
T 3zyj_A           46 SKVICVRKNLR-EVPDGIS--TNTRLLNLHENQIQIIKVNS-FKHLRHLEILQLSRNHIRTIEI--GAFNGLANLNTLEL  119 (440)
T ss_dssp             CEEECCSCCCS-SCCSCCC--TTCSEEECCSCCCCEECTTT-TSSCSSCCEEECCSSCCCEECG--GGGTTCSSCCEEEC
T ss_pred             CEEEeCCCCcC-cCCCCCC--CCCcEEEccCCcCCeeCHHH-hhCCCCCCEEECCCCcCCccCh--hhccCCccCCEEEC
Confidence            45555555555 3554443  57788888887766665433 6778888888888887776532  25677888888888


Q ss_pred             cCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcc
Q 040144           85 SNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGL  164 (289)
Q Consensus        85 ~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~  164 (289)
                      ++|.++...+..+..+++|+.|++++|.++ ...+..+..+++|++|++++|+..+.+++..|..+++|++|++++|. +
T Consensus       120 ~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~-~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~-l  197 (440)
T 3zyj_A          120 FDNRLTTIPNGAFVYLSKLKELWLRNNPIE-SIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN-L  197 (440)
T ss_dssp             CSSCCSSCCTTTSCSCSSCCEEECCSCCCC-EECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSC-C
T ss_pred             CCCcCCeeCHhHhhccccCceeeCCCCccc-ccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCc-C
Confidence            888888776667778888888888888876 44444566778888888887554445545577788888888888887 5


Q ss_pred             cCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccc
Q 040144          165 TGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHF  243 (289)
Q Consensus       165 ~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~  243 (289)
                      . .+|. +. +++|+.|++      ++|.+++..+..+..+++|+.|++++|.+++.                 .+. .+
T Consensus       198 ~-~~~~-~~~l~~L~~L~L------s~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~-----------------~~~-~~  251 (440)
T 3zyj_A          198 R-EIPN-LTPLIKLDELDL------SGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVI-----------------ERN-AF  251 (440)
T ss_dssp             S-SCCC-CTTCSSCCEEEC------TTSCCCEECTTTTTTCTTCCEEECTTCCCCEE-----------------CTT-SS
T ss_pred             c-cccc-cCCCcccCEEEC------CCCccCccChhhhccCccCCEEECCCCceeEE-----------------Chh-hh
Confidence            4 4443 44 777777775      77888777777888888888888888777632                 233 67


Q ss_pred             cccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          244 ANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       244 ~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      .++++|+.|++++|++++..+..+..+++|+.|++++|.+.
T Consensus       252 ~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~~  292 (440)
T 3zyj_A          252 DNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHHNPWN  292 (440)
T ss_dssp             TTCTTCCEEECTTSCCCCCCTTTTSSCTTCCEEECCSSCEE
T ss_pred             cCCCCCCEEECCCCCCCccChhHhccccCCCEEEcCCCCcc
Confidence            77788888888888887665566777778888888877653

>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=99.95  E-value=4.7e-27  Score=194.59  Aligned_cols=231  Identities=17%  Similarity=0.133  Sum_probs=122.4

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      ++++|++++|.++ .+|+.++++++|++|++++|.+..++.  .+.++++|++|++++|.+...+.   .+..+++|++|
T Consensus        82 ~l~~L~L~~n~l~-~lp~~l~~l~~L~~L~L~~n~l~~lp~--~~~~l~~L~~L~Ls~n~l~~lp~---~l~~l~~L~~L  155 (328)
T 4fcg_A           82 GRVALELRSVPLP-QFPDQAFRLSHLQHMTIDAAGLMELPD--TMQQFAGLETLTLARNPLRALPA---SIASLNRLREL  155 (328)
T ss_dssp             TCCEEEEESSCCS-SCCSCGGGGTTCSEEEEESSCCCCCCS--CGGGGTTCSEEEEESCCCCCCCG---GGGGCTTCCEE
T ss_pred             ceeEEEccCCCch-hcChhhhhCCCCCEEECCCCCccchhH--HHhccCCCCEEECCCCccccCcH---HHhcCcCCCEE
Confidence            4455555555554 344445555555555555554442221  13445555555555554443332   44445555555


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ++++|.+....+..+..      .          .....+..+++|++|++++|.+. .+ |..++.+++|++|++++|.
T Consensus       156 ~L~~n~~~~~~p~~~~~------~----------~~~~~~~~l~~L~~L~L~~n~l~-~l-p~~l~~l~~L~~L~L~~N~  217 (328)
T 4fcg_A          156 SIRACPELTELPEPLAS------T----------DASGEHQGLVNLQSLRLEWTGIR-SL-PASIANLQNLKSLKIRNSP  217 (328)
T ss_dssp             EEEEETTCCCCCSCSEE------E----------C-CCCEEESTTCCEEEEEEECCC-CC-CGGGGGCTTCCEEEEESSC
T ss_pred             ECCCCCCccccChhHhh------c----------cchhhhccCCCCCEEECcCCCcC-cc-hHhhcCCCCCCEEEccCCC
Confidence            55554443333322221      0          00001123556666666666655 44 4556666666666666665


Q ss_pred             cccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccc
Q 040144          163 GLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFEL  241 (289)
Q Consensus       163 ~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~  241 (289)
                       +. .+|..+. +++|+.|++      ++|.+.+.+|..++.+++|+.|++++|.+.+                 .+|. 
T Consensus       218 -l~-~l~~~l~~l~~L~~L~L------s~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~-----------------~~p~-  271 (328)
T 4fcg_A          218 -LS-ALGPAIHHLPKLEELDL------RGCTALRNYPPIFGGRAPLKRLILKDCSNLL-----------------TLPL-  271 (328)
T ss_dssp             -CC-CCCGGGGGCTTCCEEEC------TTCTTCCBCCCCTTCCCCCCEEECTTCTTCC-----------------BCCT-
T ss_pred             -CC-cCchhhccCCCCCEEEC------cCCcchhhhHHHhcCCCCCCEEECCCCCchh-----------------hcch-
Confidence             44 3444455 566665554      5556666666666666666666666655542                 3444 


Q ss_pred             cccccccccEEEecCCeeeeccCCCccccccccEEecccccC
Q 040144          242 HFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYI  283 (289)
Q Consensus       242 ~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~  283 (289)
                      .+.++++|+.|++++|++.+.+|..++.+++++.+++..+.+
T Consensus       272 ~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l~~~~~  313 (328)
T 4fcg_A          272 DIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQ  313 (328)
T ss_dssp             TGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEECCGGGS
T ss_pred             hhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeCCHHHH
Confidence            556666666666666666666666666666666666665544

>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=99.95  E-value=3e-26  Score=198.03  Aligned_cols=246  Identities=20%  Similarity=0.182  Sum_probs=169.1

Q ss_pred             cEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEc
Q 040144            5 RYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRL   84 (289)
Q Consensus         5 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l   84 (289)
                      +.++..+..++ .+|..+.  +++++|++++|.+....... +.++++|++|++++|.+.....  ..+..+++|++|++
T Consensus        57 ~~v~c~~~~l~-~iP~~~~--~~l~~L~L~~n~i~~~~~~~-~~~l~~L~~L~Ls~n~i~~~~~--~~~~~l~~L~~L~L  130 (452)
T 3zyi_A           57 SKVVCTRRGLS-EVPQGIP--SNTRYLNLMENNIQMIQADT-FRHLHHLEVLQLGRNSIRQIEV--GAFNGLASLNTLEL  130 (452)
T ss_dssp             CEEECCSSCCS-SCCSCCC--TTCSEEECCSSCCCEECTTT-TTTCTTCCEEECCSSCCCEECT--TTTTTCTTCCEEEC
T ss_pred             cEEEECCCCcC-ccCCCCC--CCccEEECcCCcCceECHHH-cCCCCCCCEEECCCCccCCcCh--hhccCcccCCEEEC
Confidence            34555555554 3444332  57778888877766554433 6677788888888877766532  25667778888888


Q ss_pred             cCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcc
Q 040144           85 SNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGL  164 (289)
Q Consensus        85 ~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~  164 (289)
                      ++|.++...+..+..+++|++|++++|.++ ...+..+..+++|++|++++|+..+.+++..+..+++|++|++++|. +
T Consensus       131 ~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~-l  208 (452)
T 3zyi_A          131 FDNWLTVIPSGAFEYLSKLRELWLRNNPIE-SIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCN-I  208 (452)
T ss_dssp             CSSCCSBCCTTTSSSCTTCCEEECCSCCCC-EECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSC-C
T ss_pred             CCCcCCccChhhhcccCCCCEEECCCCCcc-eeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCc-c
Confidence            888777776666777788888888888776 33344566777888888877544435545567777788888888877 5


Q ss_pred             cCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccc
Q 040144          165 TGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHF  243 (289)
Q Consensus       165 ~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~  243 (289)
                      . .+| .+. +++|+.|++      ++|.+++..+..+..+++|+.|++++|.+.+                 ..+. .+
T Consensus       209 ~-~~~-~~~~l~~L~~L~L------s~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~-----------------~~~~-~~  262 (452)
T 3zyi_A          209 K-DMP-NLTPLVGLEELEM------SGNHFPEIRPGSFHGLSSLKKLWVMNSQVSL-----------------IERN-AF  262 (452)
T ss_dssp             S-SCC-CCTTCTTCCEEEC------TTSCCSEECGGGGTTCTTCCEEECTTSCCCE-----------------ECTT-TT
T ss_pred             c-ccc-cccccccccEEEC------cCCcCcccCcccccCccCCCEEEeCCCcCce-----------------ECHH-Hh
Confidence            4 334 344 777777765      7777777777777778888888877777662                 2333 67


Q ss_pred             cccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          244 ANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       244 ~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      .++++|+.|++++|++++..+..+..+++|+.|++++|.+.
T Consensus       263 ~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~~  303 (452)
T 3zyi_A          263 DGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHHNPWN  303 (452)
T ss_dssp             TTCTTCCEEECCSSCCSCCCTTSSTTCTTCCEEECCSSCEE
T ss_pred             cCCCCCCEEECCCCcCCccChHHhccccCCCEEEccCCCcC
Confidence            77888888888888888666566777888888888888654

>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=99.95  E-value=6e-27  Score=192.35  Aligned_cols=231  Identities=19%  Similarity=0.232  Sum_probs=189.9

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCC-CcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDN-FLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +++++|++++|.++...+..|.++++|++|++++|.+...+. ...+..+++|++|++++|.+...+.   .+..+++|+
T Consensus        28 ~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~l~~---~~~~l~~L~  104 (306)
T 2z66_A           28 SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSS---NFLGLEQLE  104 (306)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSEEEEEE---EEETCTTCC
T ss_pred             CCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCCccccChh---hcCCCCCCC
Confidence            579999999999986555568999999999999988664421 1114568999999999999887655   577899999


Q ss_pred             EEEccCCccCCCCc-ccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeee-eeChhhhcCCCCccEEeC
Q 040144           81 ELRLSNCQLQHFSP-LATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQG-TIDLEALGNLTSINRLDL  158 (289)
Q Consensus        81 ~L~l~~~~l~~~~~-~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~-~~~~~~~~~~~~L~~L~l  158 (289)
                      +|++++|.+....+ ..+..+++|+.|++++|.+. ...+..+..+++|++|++++|.+.+ .. +..+..+++|++|++
T Consensus       105 ~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~~~~-~~~~~~l~~L~~L~L  182 (306)
T 2z66_A          105 HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTR-VAFNGIFNGLSSLEVLKMAGNSFQENFL-PDIFTELRNLTFLDL  182 (306)
T ss_dssp             EEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCE-ECSTTTTTTCTTCCEEECTTCEEGGGEE-CSCCTTCTTCCEEEC
T ss_pred             EEECCCCcccccccchhhhhccCCCEEECCCCcCC-ccchhhcccCcCCCEEECCCCccccccc-hhHHhhCcCCCEEEC
Confidence            99999999988755 57888999999999999987 5566667889999999999999975 34 778899999999999


Q ss_pred             CCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeee
Q 040144          159 SLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVT  237 (289)
Q Consensus       159 ~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~  237 (289)
                      ++|. +.+..|..+. +++|+.|++      ++|.+++..+..+..+++|+.|++++|.+.+..|               
T Consensus       183 s~n~-l~~~~~~~~~~l~~L~~L~L------~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~---------------  240 (306)
T 2z66_A          183 SQCQ-LEQLSPTAFNSLSSLQVLNM------SHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKK---------------  240 (306)
T ss_dssp             TTSC-CCEECTTTTTTCTTCCEEEC------TTSCCSBCCSGGGTTCTTCCEEECTTSCCCBCSS---------------
T ss_pred             CCCC-cCCcCHHHhcCCCCCCEEEC------CCCccCccChhhccCcccCCEeECCCCCCcccCH---------------
Confidence            9999 7766677888 999999987      8999998877789999999999999998885433               


Q ss_pred             ecccccccc-ccccEEEecCCeeeec
Q 040144          238 LFELHFANL-IEMSWFRVGGNQLTLE  262 (289)
Q Consensus       238 ~~~~~~~~~-~~L~~l~l~~n~~~~~  262 (289)
                        . .+..+ ++|++|++++|++...
T Consensus       241 --~-~~~~~~~~L~~L~L~~N~~~~~  263 (306)
T 2z66_A          241 --Q-ELQHFPSSLAFLNLTQNDFACT  263 (306)
T ss_dssp             --S-SCCCCCTTCCEEECTTCCEECS
T ss_pred             --H-HHHhhhccCCEEEccCCCeecc
Confidence              2 44555 3777777777777653

>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=99.95  E-value=9.5e-27  Score=192.74  Aligned_cols=206  Identities=23%  Similarity=0.250  Sum_probs=173.7

Q ss_pred             CCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCC
Q 040144           50 ISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLP  129 (289)
Q Consensus        50 l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~  129 (289)
                      ...++.|+++++.+...+.   .+..+++|++|++++|.+. ..+..++.+++|++|++++|.++  .++..++.+++|+
T Consensus        80 ~~~l~~L~L~~n~l~~lp~---~l~~l~~L~~L~L~~n~l~-~lp~~~~~l~~L~~L~Ls~n~l~--~lp~~l~~l~~L~  153 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQFPD---QAFRLSHLQHMTIDAAGLM-ELPDTMQQFAGLETLTLARNPLR--ALPASIASLNRLR  153 (328)
T ss_dssp             STTCCEEEEESSCCSSCCS---CGGGGTTCSEEEEESSCCC-CCCSCGGGGTTCSEEEEESCCCC--CCCGGGGGCTTCC
T ss_pred             ccceeEEEccCCCchhcCh---hhhhCCCCCEEECCCCCcc-chhHHHhccCCCCEEECCCCccc--cCcHHHhcCcCCC
Confidence            4678888888888876655   5667888999999999888 44667788899999999998886  5677788889999


Q ss_pred             EEEccCceeeeeeChhhhc---------CCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccc
Q 040144          130 FLDLGFNNFQGTIDLEALG---------NLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTD  199 (289)
Q Consensus       130 ~L~l~~n~~~~~~~~~~~~---------~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~  199 (289)
                      +|++++|+..+.+ |..+.         .+++|++|++++|. +. .+|..+. +++|++|++      ++|.+.+ +|.
T Consensus       154 ~L~L~~n~~~~~~-p~~~~~~~~~~~~~~l~~L~~L~L~~n~-l~-~lp~~l~~l~~L~~L~L------~~N~l~~-l~~  223 (328)
T 4fcg_A          154 ELSIRACPELTEL-PEPLASTDASGEHQGLVNLQSLRLEWTG-IR-SLPASIANLQNLKSLKI------RNSPLSA-LGP  223 (328)
T ss_dssp             EEEEEEETTCCCC-CSCSEEEC-CCCEEESTTCCEEEEEEEC-CC-CCCGGGGGCTTCCEEEE------ESSCCCC-CCG
T ss_pred             EEECCCCCCcccc-ChhHhhccchhhhccCCCCCEEECcCCC-cC-cchHhhcCCCCCCEEEc------cCCCCCc-Cch
Confidence            9999988776666 55444         49999999999998 66 7888888 999999987      8899985 555


Q ss_pred             cccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecc
Q 040144          200 QLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLH  279 (289)
Q Consensus       200 ~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~  279 (289)
                      .+..+++|+.|++++|.+.+                 .+|. .++++++|+.|++++|.+.+.+|..+..+++|+.|+++
T Consensus       224 ~l~~l~~L~~L~Ls~n~~~~-----------------~~p~-~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~  285 (328)
T 4fcg_A          224 AIHHLPKLEELDLRGCTALR-----------------NYPP-IFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLR  285 (328)
T ss_dssp             GGGGCTTCCEEECTTCTTCC-----------------BCCC-CTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECT
T ss_pred             hhccCCCCCEEECcCCcchh-----------------hhHH-HhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCC
Confidence            78999999999999987773                 4555 78899999999999999999999999999999999999


Q ss_pred             cccCccCCCC
Q 040144          280 SCYIGSRFPL  289 (289)
Q Consensus       280 ~n~~~~~~p~  289 (289)
                      +|++.+.+|+
T Consensus       286 ~n~~~~~iP~  295 (328)
T 4fcg_A          286 GCVNLSRLPS  295 (328)
T ss_dssp             TCTTCCCCCG
T ss_pred             CCCchhhccH
Confidence            9999999884

>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=99.94  E-value=2.6e-26  Score=186.70  Aligned_cols=199  Identities=18%  Similarity=0.165  Sum_probs=118.0

Q ss_pred             cEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEc
Q 040144            5 RYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRL   84 (289)
Q Consensus         5 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l   84 (289)
                      ++++..++.++. +|..+  .+++++|++++|.+...+... +..+++|++|++++|.+....+  ..+..+++|++|++
T Consensus        14 ~~~~c~~~~l~~-ip~~~--~~~l~~L~l~~n~i~~~~~~~-~~~~~~L~~L~l~~n~l~~~~~--~~~~~l~~L~~L~l   87 (285)
T 1ozn_A           14 VTTSCPQQGLQA-VPVGI--PAASQRIFLHGNRISHVPAAS-FRACRNLTILWLHSNVLARIDA--AAFTGLALLEQLDL   87 (285)
T ss_dssp             CEEECCSSCCSS-CCTTC--CTTCSEEECTTSCCCEECTTT-TTTCTTCCEEECCSSCCCEECT--TTTTTCTTCCEEEC
T ss_pred             eEEEcCcCCccc-CCcCC--CCCceEEEeeCCcCCccCHHH-cccCCCCCEEECCCCccceeCH--hhcCCccCCCEEeC
Confidence            345555555542 33322  346666777666655544332 4566667777776666655421  14556666777777


Q ss_pred             cCCc-cCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCc
Q 040144           85 SNCQ-LQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTG  163 (289)
Q Consensus        85 ~~~~-l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~  163 (289)
                      ++|. +....+..+..+++|++|++++|.++ ...+..+..+++|++|++++|.+. .+++..++.+++|++|++++|. 
T Consensus        88 ~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~-  164 (285)
T 1ozn_A           88 SDNAQLRSVDPATFHGLGRLHTLHLDRCGLQ-ELGPGLFRGLAALQYLYLQDNALQ-ALPDDTFRDLGNLTHLFLHGNR-  164 (285)
T ss_dssp             CSCTTCCCCCTTTTTTCTTCCEEECTTSCCC-CCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSC-
T ss_pred             CCCCCccccCHHHhcCCcCCCEEECCCCcCC-EECHhHhhCCcCCCEEECCCCccc-ccCHhHhccCCCccEEECCCCc-
Confidence            6665 55555556666666777777666665 333445556666777777666665 3324456666667777776666 


Q ss_pred             ccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeee
Q 040144          164 LTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       164 ~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                      +.+..+..+. +++|+.|++      ++|.+.+..+..++.+++|+.|++++|.++
T Consensus       165 l~~~~~~~~~~l~~L~~L~l------~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~  214 (285)
T 1ozn_A          165 ISSVPERAFRGLHSLDRLLL------HQNRVAHVHPHAFRDLGRLMTLYLFANNLS  214 (285)
T ss_dssp             CCEECTTTTTTCTTCCEEEC------CSSCCCEECTTTTTTCTTCCEEECCSSCCS
T ss_pred             ccccCHHHhcCccccCEEEC------CCCcccccCHhHccCcccccEeeCCCCcCC
Confidence            4433333455 666666664      666666666666666666777766666665

>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=99.94  E-value=5.5e-26  Score=202.82  Aligned_cols=265  Identities=18%  Similarity=0.209  Sum_probs=208.5

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++++.+++.++.++...+..+..+++|++|++++|.+...++.. +..+++|++|++++|.+...++  ..+..+++|++
T Consensus        51 ~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~  127 (597)
T 3oja_B           51 NNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYA-FAYAHTIQKLYMGFNAIRYLPP--HVFQNVPLLTV  127 (597)
T ss_dssp             CCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSCCCEECTTT-TTTCTTCCEEECCSSCCCCCCT--TTTTTCTTCCE
T ss_pred             CCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCCCCCCChHH-hcCCCCCCEEECCCCcCCCCCH--HHHcCCCCCCE
Confidence            57889999999988766666788999999999999877665443 7889999999999999888743  25688999999


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|.+....+..++.+++|+.|++++|.++ ...+..++.+++|++|++++|.+.+ +   .++.+++|+.+++++|
T Consensus       128 L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~L~~L~L~~N~l~~-~---~~~~l~~L~~L~l~~n  202 (597)
T 3oja_B          128 LVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLE-RIEDDTFQATTSLQNLQLSSNRLTH-V---DLSLIPSLFHANVSYN  202 (597)
T ss_dssp             EECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-BCCTTTTTTCTTCCEEECTTSCCSB-C---CGGGCTTCSEEECCSS
T ss_pred             EEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCC-CCChhhhhcCCcCcEEECcCCCCCC-c---ChhhhhhhhhhhcccC
Confidence            999999999887777889999999999999997 5566678889999999999999873 3   2345666777777666


Q ss_pred             CcccCCCCcccc-ccCcceeeccc---------------cccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQE---------------SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF  225 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~---------------~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~  225 (289)
                      . +.+     +. .+.|+.|+++.               .+++++|.+++  +..+..+++|+.|++++|.+.+..|..+
T Consensus       203 ~-l~~-----l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~--~~~l~~l~~L~~L~Ls~N~l~~~~~~~~  274 (597)
T 3oja_B          203 L-LST-----LAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTD--TAWLLNYPGLVEVDLSYNELEKIMYHPF  274 (597)
T ss_dssp             C-CSE-----EECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCC--CGGGGGCTTCSEEECCSSCCCEEESGGG
T ss_pred             c-ccc-----ccCCchhheeeccCCcccccccccCCCCCEEECCCCCCCC--ChhhccCCCCCEEECCCCccCCCCHHHh
Confidence            5 331     11 22333333221               23347888875  3568889999999999999987766555


Q ss_pred             -------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCcc
Q 040144          226 -------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       226 -------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                             .|++++|.+++ ++. .+..+++|+.|++++|++.+ +|..+..+++|+.|++++|.+++
T Consensus       275 ~~l~~L~~L~Ls~N~l~~-l~~-~~~~l~~L~~L~Ls~N~l~~-i~~~~~~l~~L~~L~L~~N~l~~  338 (597)
T 3oja_B          275 VKMQRLERLYISNNRLVA-LNL-YGQPIPTLKVLDLSHNHLLH-VERNQPQFDRLENLYLDHNSIVT  338 (597)
T ss_dssp             TTCSSCCEEECTTSCCCE-EEC-SSSCCTTCCEEECCSSCCCC-CGGGHHHHTTCSEEECCSSCCCC
T ss_pred             cCccCCCEEECCCCCCCC-CCc-ccccCCCCcEEECCCCCCCc-cCcccccCCCCCEEECCCCCCCC
Confidence                   89999999984 676 67788999999999999984 77788889999999999999874

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

Probab=99.94  E-value=2.6e-27  Score=195.37  Aligned_cols=236  Identities=18%  Similarity=0.205  Sum_probs=147.5

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|++|++++|.+++..|..+.++++|++|++++|.+....+   +..+++|++|++++|.+...+.       .++|++
T Consensus        34 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~---~~~l~~L~~L~Ls~n~l~~l~~-------~~~L~~  103 (317)
T 3o53_A           34 WNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD---LESLSTLRTLDLNNNYVQELLV-------GPSIET  103 (317)
T ss_dssp             GGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEE---ETTCTTCCEEECCSSEEEEEEE-------CTTCCE
T ss_pred             CCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchh---hhhcCCCCEEECcCCccccccC-------CCCcCE
Confidence            456777777777766555667777777777777766554432   5567777777777776655432       256777


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhh-cCCCCccEEeCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEAL-GNLTSINRLDLSL  160 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~-~~~~~L~~L~l~~  160 (289)
                      |++++|.+....+   ..+++|+.|++++|.++ ...+..+..+++|++|++++|.+.+.. +..+ ..+++|++|++++
T Consensus       104 L~l~~n~l~~~~~---~~~~~L~~L~l~~N~l~-~~~~~~~~~l~~L~~L~Ls~N~l~~~~-~~~~~~~l~~L~~L~L~~  178 (317)
T 3o53_A          104 LHAANNNISRVSC---SRGQGKKNIYLANNKIT-MLRDLDEGCRSRVQYLDLKLNEIDTVN-FAELAASSDTLEHLNLQY  178 (317)
T ss_dssp             EECCSSCCSEEEE---CCCSSCEEEECCSSCCC-SGGGBCTGGGSSEEEEECTTSCCCEEE-GGGGGGGTTTCCEEECTT
T ss_pred             EECCCCccCCcCc---cccCCCCEEECCCCCCC-CccchhhhccCCCCEEECCCCCCCccc-HHHHhhccCcCCEEECCC
Confidence            7777777665432   23566777777777775 333444556677777777777766433 4444 3567777777777


Q ss_pred             CCcccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeecc
Q 040144          161 NTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFE  240 (289)
Q Consensus       161 n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~  240 (289)
                      |. +.+. +....+++|+.|++      ++|.+++..+ .+..+++|+.|++++|.++                  .+|.
T Consensus       179 N~-l~~~-~~~~~l~~L~~L~L------s~N~l~~l~~-~~~~l~~L~~L~L~~N~l~------------------~l~~  231 (317)
T 3o53_A          179 NF-IYDV-KGQVVFAKLKTLDL------SSNKLAFMGP-EFQSAAGVTWISLRNNKLV------------------LIEK  231 (317)
T ss_dssp             SC-CCEE-ECCCCCTTCCEEEC------CSSCCCEECG-GGGGGTTCSEEECTTSCCC------------------EECT
T ss_pred             Cc-Cccc-ccccccccCCEEEC------CCCcCCcchh-hhcccCcccEEECcCCccc------------------chhh
Confidence            76 4422 22222566666665      6666664433 3666677777777766665                  4555


Q ss_pred             ccccccccccEEEecCCeee-eccCCCccccccccEEeccc
Q 040144          241 LHFANLIEMSWFRVGGNQLT-LEVKHDWIPHFQLVALGLHS  280 (289)
Q Consensus       241 ~~~~~~~~L~~l~l~~n~~~-~~~~~~~~~~~~L~~l~l~~  280 (289)
                       .+..+++|+.|++++|++. +..+..+..+++|+.+++++
T Consensus       232 -~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L~~l~l~~  271 (317)
T 3o53_A          232 -ALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQT  271 (317)
T ss_dssp             -TCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHHHHHHHHH
T ss_pred             -HhhcCCCCCEEEccCCCccCcCHHHHHhccccceEEECCC
Confidence             5666677777777777776 44555566666666666663

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

Probab=99.94  E-value=1.4e-25  Score=193.26  Aligned_cols=228  Identities=25%  Similarity=0.271  Sum_probs=191.6

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++++.|+|++|.+++..+..|.++++|++|++++|.+....... +.++++|++|++++|.+...+.  ..+..+++|++
T Consensus        64 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~  140 (440)
T 3zyj_A           64 TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGA-FNGLANLNTLELFDNRLTTIPN--GAFVYLSKLKE  140 (440)
T ss_dssp             TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGG-GTTCSSCCEEECCSSCCSSCCT--TTSCSCSSCCE
T ss_pred             CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhh-ccCCccCCEEECCCCcCCeeCH--hHhhccccCce
Confidence            46899999999999888899999999999999999877665443 7889999999999999887643  25788999999


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|.+....+..+..+++|+.|++++|..........+..+++|++|++++|.+. .+ + .+..+++|++|++++|
T Consensus       141 L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~-~~-~-~~~~l~~L~~L~Ls~N  217 (440)
T 3zyj_A          141 LWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLR-EI-P-NLTPLIKLDELDLSGN  217 (440)
T ss_dssp             EECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCS-SC-C-CCTTCSSCCEEECTTS
T ss_pred             eeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCc-cc-c-ccCCCcccCEEECCCC
Confidence            9999999998877788999999999999854331333446778999999999999987 55 3 4788999999999999


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeecc
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFE  240 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~  240 (289)
                      . +.+..|..+. +++|+.|++      ++|.+.+..+.++..+++|+.|++++|.++                  .++.
T Consensus       218 ~-l~~~~~~~~~~l~~L~~L~L------~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~------------------~~~~  272 (440)
T 3zyj_A          218 H-LSAIRPGSFQGLMHLQKLWM------IQSQIQVIERNAFDNLQSLVEINLAHNNLT------------------LLPH  272 (440)
T ss_dssp             C-CCEECTTTTTTCTTCCEEEC------TTCCCCEECTTSSTTCTTCCEEECTTSCCC------------------CCCT
T ss_pred             c-cCccChhhhccCccCCEEEC------CCCceeEEChhhhcCCCCCCEEECCCCCCC------------------ccCh
Confidence            9 7777778888 999999987      899999888999999999999999999888                  2333


Q ss_pred             ccccccccccEEEecCCeee
Q 040144          241 LHFANLIEMSWFRVGGNQLT  260 (289)
Q Consensus       241 ~~~~~~~~L~~l~l~~n~~~  260 (289)
                      ..+..+++|+.|++++|++.
T Consensus       273 ~~~~~l~~L~~L~L~~Np~~  292 (440)
T 3zyj_A          273 DLFTPLHHLERIHLHHNPWN  292 (440)
T ss_dssp             TTTSSCTTCCEEECCSSCEE
T ss_pred             hHhccccCCCEEEcCCCCcc
Confidence            35667778888888887764

>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=99.94  E-value=1.5e-25  Score=193.77  Aligned_cols=228  Identities=24%  Similarity=0.259  Sum_probs=191.3

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +++++|+|++|.+++..+..|.++++|++|++++|.+....... +.++++|++|++++|.+...+.  ..+..+++|++
T Consensus        75 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~  151 (452)
T 3zyi_A           75 SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGA-FNGLASLNTLELFDNWLTVIPS--GAFEYLSKLRE  151 (452)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTT-TTTCTTCCEEECCSSCCSBCCT--TTSSSCTTCCE
T ss_pred             CCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhh-ccCcccCCEEECCCCcCCccCh--hhhcccCCCCE
Confidence            47899999999999888999999999999999999877666443 7889999999999999887743  25778999999


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|.+....+..+..+++|+.|++++|..........+..+++|++|++++|.+. .+ + .+..+++|++|++++|
T Consensus       152 L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~-~~-~-~~~~l~~L~~L~Ls~N  228 (452)
T 3zyi_A          152 LWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIK-DM-P-NLTPLVGLEELEMSGN  228 (452)
T ss_dssp             EECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCS-SC-C-CCTTCTTCCEEECTTS
T ss_pred             EECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccc-cc-c-cccccccccEEECcCC
Confidence            9999999998877788999999999999854331333445778999999999999997 44 3 5778999999999999


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeecc
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFE  240 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~  240 (289)
                      . +.+..|..+. +++|+.|++      ++|.+.+..+..+..+++|+.|++++|.+++                  ++.
T Consensus       229 ~-l~~~~~~~~~~l~~L~~L~L------~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~------------------~~~  283 (452)
T 3zyi_A          229 H-FPEIRPGSFHGLSSLKKLWV------MNSQVSLIERNAFDGLASLVELNLAHNNLSS------------------LPH  283 (452)
T ss_dssp             C-CSEECGGGGTTCTTCCEEEC------TTSCCCEECTTTTTTCTTCCEEECCSSCCSC------------------CCT
T ss_pred             c-CcccCcccccCccCCCEEEe------CCCcCceECHHHhcCCCCCCEEECCCCcCCc------------------cCh
Confidence            9 7777777888 999999987      8999998889999999999999999998882                  333


Q ss_pred             ccccccccccEEEecCCeee
Q 040144          241 LHFANLIEMSWFRVGGNQLT  260 (289)
Q Consensus       241 ~~~~~~~~L~~l~l~~n~~~  260 (289)
                      ..+..+++|+.|++++|++.
T Consensus       284 ~~~~~l~~L~~L~L~~Np~~  303 (452)
T 3zyi_A          284 DLFTPLRYLVELHLHHNPWN  303 (452)
T ss_dssp             TSSTTCTTCCEEECCSSCEE
T ss_pred             HHhccccCCCEEEccCCCcC
Confidence            35667777888888877764

>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=99.94  E-value=8.7e-25  Score=196.45  Aligned_cols=111  Identities=28%  Similarity=0.298  Sum_probs=81.5

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +++|++|+|++|.+++..+.+|.++++|++|++++|.+...+... +.++++|++|++++|.+...+.  ..+..+++|+
T Consensus        75 l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~-f~~L~~L~~L~Ls~N~l~~l~~--~~~~~L~~L~  151 (635)
T 4g8a_A           75 FPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGA-FSGLSSLQKLVAVETNLASLEN--FPIGHLKTLK  151 (635)
T ss_dssp             CTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECGGG-GTTCTTCCEEECTTSCCCCSTT--CCCTTCTTCC
T ss_pred             CCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCCCHHH-hcCCCCCCEEECCCCcCCCCCh--hhhhcCcccC
Confidence            468889999998888777778888889999999888776655433 6778888888888887776543  1466777888


Q ss_pred             EEEccCCccCCC-CcccccCCCCCcEEeccCCCCC
Q 040144           81 ELRLSNCQLQHF-SPLATVNFSSLTMLDLSHNQFD  114 (289)
Q Consensus        81 ~L~l~~~~l~~~-~~~~l~~~~~L~~L~l~~~~~~  114 (289)
                      +|++++|.+... .+..++.+++|+.|++++|.++
T Consensus       152 ~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~  186 (635)
T 4g8a_A          152 ELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQ  186 (635)
T ss_dssp             EEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCC
T ss_pred             eeccccCccccCCCchhhccchhhhhhcccCcccc
Confidence            888888777653 3455666777777777766553

>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=99.94  E-value=1.7e-25  Score=181.92  Aligned_cols=205  Identities=25%  Similarity=0.285  Sum_probs=140.1

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCcc-ccccchhhHhhhcCCCcc
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN-LSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~~~~~~~~~~~~~~~~L~   80 (289)
                      +++++|++++|.+++..+..|..+++|++|++++|.+....+.. +.++++|++|++++|. +....+  ..+..+++|+
T Consensus        32 ~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~-~~~l~~L~~L~l~~n~~l~~~~~--~~~~~l~~L~  108 (285)
T 1ozn_A           32 AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAA-FTGLALLEQLDLSDNAQLRSVDP--ATFHGLGRLH  108 (285)
T ss_dssp             TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTT-TTTCTTCCEEECCSCTTCCCCCT--TTTTTCTTCC
T ss_pred             CCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhh-cCCccCCCEEeCCCCCCccccCH--HHhcCCcCCC
Confidence            46777777777777666666777777777777777655543332 5667777777777775 554421  2556677777


Q ss_pred             EEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCC
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSL  160 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~  160 (289)
                      +|++++|.+....+..+..+++|++|++++|.++ ...+..+..+++|++|++++|.+. .+++..+..+++|++|++++
T Consensus       109 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~  186 (285)
T 1ozn_A          109 TLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQ-ALPDDTFRDLGNLTHLFLHGNRIS-SVPERAFRGLHSLDRLLLHQ  186 (285)
T ss_dssp             EEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCC-EECTTTTTTCTTCCEEECCS
T ss_pred             EEECCCCcCCEECHhHhhCCcCCCEEECCCCccc-ccCHhHhccCCCccEEECCCCccc-ccCHHHhcCccccCEEECCC
Confidence            7777777777766666777777777777777775 333344566777777777777776 34245577777777777777


Q ss_pred             CCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeee
Q 040144          161 NTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       161 n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                      |. +.+..|..+. +++|+.|++      ++|.+++..+..+..+++|+.|++++|.+.
T Consensus       187 n~-l~~~~~~~~~~l~~L~~L~l------~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~  238 (285)
T 1ozn_A          187 NR-VAHVHPHAFRDLGRLMTLYL------FANNLSALPTEALAPLRALQYLRLNDNPWV  238 (285)
T ss_dssp             SC-CCEECTTTTTTCTTCCEEEC------CSSCCSCCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             Cc-ccccCHhHccCcccccEeeC------CCCcCCcCCHHHcccCcccCEEeccCCCcc
Confidence            77 6655566666 777777765      677777666666777777777777777666

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

Probab=99.94  E-value=1.7e-25  Score=193.02  Aligned_cols=254  Identities=20%  Similarity=0.187  Sum_probs=160.5

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +++|++|++++|.+++ .| .++.+++|++|++++|.+...+    +..+++|++|++++|.+...     .+..+++|+
T Consensus        41 l~~L~~L~Ls~n~l~~-~~-~l~~l~~L~~L~Ls~n~l~~~~----~~~l~~L~~L~Ls~N~l~~~-----~~~~l~~L~  109 (457)
T 3bz5_A           41 LATLTSLDCHNSSITD-MT-GIEKLTGLTKLICTSNNITTLD----LSQNTNLTYLACDSNKLTNL-----DVTPLTKLT  109 (457)
T ss_dssp             HTTCCEEECCSSCCCC-CT-TGGGCTTCSEEECCSSCCSCCC----CTTCTTCSEEECCSSCCSCC-----CCTTCTTCC
T ss_pred             cCCCCEEEccCCCccc-Ch-hhcccCCCCEEEccCCcCCeEc----cccCCCCCEEECcCCCCcee-----ecCCCCcCC
Confidence            3678888888888875 34 5888888888888888766653    66788888888888877664     256778888


Q ss_pred             EEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCC
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSL  160 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~  160 (289)
                      +|++++|.++..   .++.+++|+.|++++|.++ . ++  ++.+++|++|++++|...+.+   .++.+++|++|++++
T Consensus       110 ~L~L~~N~l~~l---~~~~l~~L~~L~l~~N~l~-~-l~--l~~l~~L~~L~l~~n~~~~~~---~~~~l~~L~~L~ls~  179 (457)
T 3bz5_A          110 YLNCDTNKLTKL---DVSQNPLLTYLNCARNTLT-E-ID--VSHNTQLTELDCHLNKKITKL---DVTPQTQLTTLDCSF  179 (457)
T ss_dssp             EEECCSSCCSCC---CCTTCTTCCEEECTTSCCS-C-CC--CTTCTTCCEEECTTCSCCCCC---CCTTCTTCCEEECCS
T ss_pred             EEECCCCcCCee---cCCCCCcCCEEECCCCccc-e-ec--cccCCcCCEEECCCCCccccc---ccccCCcCCEEECCC
Confidence            888888887764   2677788888888888776 2 22  455666777777666433232   244556666666666


Q ss_pred             CCcccCCCCcccc-ccCcceeeccc---------------cccccCCcccccccccccCCCCCcEEEccCCeeeecCCCc
Q 040144          161 NTGLTGRIPRSMA-LCNLKSINLQE---------------SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWS  224 (289)
Q Consensus       161 n~~~~~~~~~~~~-~~~L~~L~l~~---------------~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~  224 (289)
                      |. +.+ +|  +. +++|+.|+++.               .+++++|.+++ +|  ++.+++|+.|++++|.+++..+..
T Consensus       180 n~-l~~-l~--l~~l~~L~~L~l~~N~l~~~~l~~l~~L~~L~Ls~N~l~~-ip--~~~l~~L~~L~l~~N~l~~~~~~~  252 (457)
T 3bz5_A          180 NK-ITE-LD--VSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTE-ID--VTPLTQLTYFDCSVNPLTELDVST  252 (457)
T ss_dssp             SC-CCC-CC--CTTCTTCCEEECCSSCCSCCCCTTCTTCSEEECCSSCCSC-CC--CTTCTTCSEEECCSSCCSCCCCTT
T ss_pred             Cc-cce-ec--cccCCCCCEEECcCCcCCeeccccCCCCCEEECcCCcccc-cC--ccccCCCCEEEeeCCcCCCcCHHH
Confidence            65 443 23  33 55555555421               22235666665 33  556666666666666665443222


Q ss_pred             e--------------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCC--------CccccccccEEeccccc
Q 040144          225 F--------------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKH--------DWIPHFQLVALGLHSCY  282 (289)
Q Consensus       225 ~--------------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~--------~~~~~~~L~~l~l~~n~  282 (289)
                      +              .+++++|.+.+.+|.   +++++|+.|++++|+..+.+|.        .+..+++|+.|++++|+
T Consensus       253 l~~L~~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          253 LSKLTTLHCIQTDLLEIDLTHNTQLIYFQA---EGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNTE  329 (457)
T ss_dssp             CTTCCEEECTTCCCSCCCCTTCTTCCEEEC---TTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCC
T ss_pred             CCCCCEEeccCCCCCEEECCCCccCCcccc---cccccCCEEECCCCcccceeccCCCcceEechhhcccCCEEECCCCc
Confidence            2              334444443334432   4567777777777765444432        24555677888888887


Q ss_pred             Ccc
Q 040144          283 IGS  285 (289)
Q Consensus       283 ~~~  285 (289)
                      +++
T Consensus       330 l~~  332 (457)
T 3bz5_A          330 LTE  332 (457)
T ss_dssp             CSC
T ss_pred             ccc
Confidence            765

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

Probab=99.94  E-value=3.6e-25  Score=191.01  Aligned_cols=252  Identities=21%  Similarity=0.204  Sum_probs=165.9

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +++|++|++++|.+++. +  ++.+++|++|++++|.+...+    +.++++|++|++++|.+...+     +..+++|+
T Consensus        63 l~~L~~L~Ls~n~l~~~-~--~~~l~~L~~L~Ls~N~l~~~~----~~~l~~L~~L~L~~N~l~~l~-----~~~l~~L~  130 (457)
T 3bz5_A           63 LTGLTKLICTSNNITTL-D--LSQNTNLTYLACDSNKLTNLD----VTPLTKLTYLNCDTNKLTKLD-----VSQNPLLT  130 (457)
T ss_dssp             CTTCSEEECCSSCCSCC-C--CTTCTTCSEEECCSSCCSCCC----CTTCTTCCEEECCSSCCSCCC-----CTTCTTCC
T ss_pred             cCCCCEEEccCCcCCeE-c--cccCCCCCEEECcCCCCceee----cCCCCcCCEEECCCCcCCeec-----CCCCCcCC
Confidence            46777888888877753 3  677777777877777665543    566777777777777665531     45666666


Q ss_pred             EEEccCCccCCCC-------------------cccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeee
Q 040144           81 ELRLSNCQLQHFS-------------------PLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGT  141 (289)
Q Consensus        81 ~L~l~~~~l~~~~-------------------~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~  141 (289)
                      +|++++|.++...                   ...+..+++|+.|++++|.++  .++  +..+++|++|++++|.+++ 
T Consensus       131 ~L~l~~N~l~~l~l~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~--~l~--l~~l~~L~~L~l~~N~l~~-  205 (457)
T 3bz5_A          131 YLNCARNTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKIT--ELD--VSQNKLLNRLNCDTNNITK-  205 (457)
T ss_dssp             EEECTTSCCSCCCCTTCTTCCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCC--CCC--CTTCTTCCEEECCSSCCSC-
T ss_pred             EEECCCCccceeccccCCcCCEEECCCCCcccccccccCCcCCEEECCCCccc--eec--cccCCCCCEEECcCCcCCe-
Confidence            7777666665531                   002334455555555555554  122  4455666666666666652 


Q ss_pred             eChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCC-------CCcEEEcc
Q 040144          142 IDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFR-------NLVTFNLV  213 (289)
Q Consensus       142 ~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~-------~L~~L~l~  213 (289)
                      +   .++.+++|++|++++|. +.+ +|  +. +++|+.|++      ++|.+++..+..+..+.       +|+.|+++
T Consensus       206 ~---~l~~l~~L~~L~Ls~N~-l~~-ip--~~~l~~L~~L~l------~~N~l~~~~~~~l~~L~~L~l~~n~L~~L~l~  272 (457)
T 3bz5_A          206 L---DLNQNIQLTFLDCSSNK-LTE-ID--VTPLTQLTYFDC------SVNPLTELDVSTLSKLTTLHCIQTDLLEIDLT  272 (457)
T ss_dssp             C---CCTTCTTCSEEECCSSC-CSC-CC--CTTCTTCSEEEC------CSSCCSCCCCTTCTTCCEEECTTCCCSCCCCT
T ss_pred             e---ccccCCCCCEEECcCCc-ccc-cC--ccccCCCCEEEe------eCCcCCCcCHHHCCCCCEEeccCCCCCEEECC
Confidence            2   25567777777777777 554 44  55 777777775      88999876544443333       44555555


Q ss_pred             CCeeeecCCC-----ceEEEeecceeeeeecc-------ccccccccccEEEecCCeeeeccCCCccccccccEEecccc
Q 040144          214 NNSIVGFIPW-----SFELHIYDNKLNVTLFE-------LHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSC  281 (289)
Q Consensus       214 ~n~~~~~~~~-----~~~L~l~~n~~~~~~~~-------~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n  281 (289)
                      +|.+.+.+|.     ...|++++|...+.+|.       ..+.++++|++|++++|++++ +  .++.+++|+.|++++|
T Consensus       273 ~n~~~~~~~~~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~~N~l~~-l--~l~~l~~L~~L~l~~N  349 (457)
T 3bz5_A          273 HNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNTELTE-L--DVSHNTKLKSLSCVNA  349 (457)
T ss_dssp             TCTTCCEEECTTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCCCSC-C--CCTTCTTCSEEECCSS
T ss_pred             CCccCCcccccccccCCEEECCCCcccceeccCCCcceEechhhcccCCEEECCCCcccc-c--ccccCCcCcEEECCCC
Confidence            5554444432     22889999987666654       124567899999999999998 3  3889999999999999


Q ss_pred             cCcc
Q 040144          282 YIGS  285 (289)
Q Consensus       282 ~~~~  285 (289)
                      ++++
T Consensus       350 ~l~~  353 (457)
T 3bz5_A          350 HIQD  353 (457)
T ss_dssp             CCCB
T ss_pred             CCCC
Confidence            9985

>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=99.93  E-value=1.1e-25  Score=188.48  Aligned_cols=248  Identities=21%  Similarity=0.215  Sum_probs=200.6

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|++|++++|.+++..+..+.++++|++|++++|.+....... +.++++|++|++++|.+...+.  ..+..+++|++
T Consensus        52 ~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-~~~l~~L~~L~Ls~n~l~~~~~--~~~~~l~~L~~  128 (353)
T 2z80_A           52 EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDS-FSSLGSLEHLDLSYNYLSNLSS--SWFKPLSSLTF  128 (353)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTT-TTTCTTCCEEECCSSCCSSCCH--HHHTTCTTCSE
T ss_pred             ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhh-cCCCCCCCEEECCCCcCCcCCH--hHhCCCccCCE
Confidence            47999999999999877778999999999999999877665433 7889999999999999987654  24788999999


Q ss_pred             EEccCCccCCCCc-ccccCCCCCcEEeccCCC-CCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCC
Q 040144           82 LRLSNCQLQHFSP-LATVNFSSLTMLDLSHNQ-FDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLS  159 (289)
Q Consensus        82 L~l~~~~l~~~~~-~~l~~~~~L~~L~l~~~~-~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~  159 (289)
                      |++++|.+..... ..+..+++|+.|++++|. ++ ...+..+..+++|++|++++|.+.+.. +..++.+++|++|+++
T Consensus       129 L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~-~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~l~~l~~L~~L~l~  206 (353)
T 2z80_A          129 LNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFT-KIQRKDFAGLTFLEELEIDASDLQSYE-PKSLKSIQNVSHLILH  206 (353)
T ss_dssp             EECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCC-EECTTTTTTCCEEEEEEEEETTCCEEC-TTTTTTCSEEEEEEEE
T ss_pred             EECCCCCCcccCchhhhccCCCCcEEECCCCcccc-ccCHHHccCCCCCCEEECCCCCcCccC-HHHHhccccCCeecCC
Confidence            9999999998765 578899999999999984 54 444567788999999999999998655 7889999999999999


Q ss_pred             CCCcccCCCCccc-c-ccCcceeeccccccccCCcccccccccc---cCCCCCcEEEccCCeeeec-----------CCC
Q 040144          160 LNTGLTGRIPRSM-A-LCNLKSINLQESLDMRSSSIYGHLTDQL---GQFRNLVTFNLVNNSIVGF-----------IPW  223 (289)
Q Consensus       160 ~n~~~~~~~~~~~-~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l---~~~~~L~~L~l~~n~~~~~-----------~~~  223 (289)
                      +|. +. ..|..+ . +++|+.|++      ++|.+++..+..+   .....++.++++++.+.+.           .+.
T Consensus       207 ~n~-l~-~~~~~~~~~~~~L~~L~L------~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~  278 (353)
T 2z80_A          207 MKQ-HI-LLLEIFVDVTSSVECLEL------RDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISG  278 (353)
T ss_dssp             CSC-ST-THHHHHHHHTTTEEEEEE------ESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTT
T ss_pred             CCc-cc-cchhhhhhhcccccEEEC------CCCccccccccccccccccchhhccccccccccCcchhhhHHHHhcccC
Confidence            998 54 444443 3 788998887      7888876554433   2456788889988887652           233


Q ss_pred             ceEEEeecceeeeeeccccccccccccEEEecCCeeeecc
Q 040144          224 SFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEV  263 (289)
Q Consensus       224 ~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~  263 (289)
                      ...|++++|.++ .+|...+.++++|++|++++|++.+..
T Consensus       279 L~~L~Ls~N~l~-~i~~~~~~~l~~L~~L~L~~N~~~~~~  317 (353)
T 2z80_A          279 LLELEFSRNQLK-SVPDGIFDRLTSLQKIWLHTNPWDCSC  317 (353)
T ss_dssp             CCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCBCCCH
T ss_pred             CCEEECCCCCCC-ccCHHHHhcCCCCCEEEeeCCCccCcC
Confidence            338999999998 688745689999999999999998653

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

Probab=99.93  E-value=6.9e-26  Score=197.14  Aligned_cols=235  Identities=18%  Similarity=0.202  Sum_probs=163.5

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|++|+|++|.+++..|..|..+++|++|++++|.+....+   +..++.|++|++++|.+...+.       .++|++
T Consensus        34 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~---l~~l~~L~~L~Ls~N~l~~l~~-------~~~L~~  103 (487)
T 3oja_A           34 WNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD---LESLSTLRTLDLNNNYVQELLV-------GPSIET  103 (487)
T ss_dssp             GGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE---CTTCTTCCEEECCSSEEEEEEE-------CTTCCE
T ss_pred             CCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc---cccCCCCCEEEecCCcCCCCCC-------CCCcCE
Confidence            467888888888877667778888888888888877654443   5677888888888887766542       267888


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhc-CCCCccEEeCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALG-NLTSINRLDLSL  160 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~~L~~L~l~~  160 (289)
                      |++++|.+....+.   .+++|+.|++++|.++ ...+..++.+++|+.|++++|.+.+.. +..+. .+++|+.|++++
T Consensus       104 L~L~~N~l~~~~~~---~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~Ls~N~l~~~~-~~~l~~~l~~L~~L~Ls~  178 (487)
T 3oja_A          104 LHAANNNISRVSCS---RGQGKKNIYLANNKIT-MLRDLDEGCRSRVQYLDLKLNEIDTVN-FAELAASSDTLEHLNLQY  178 (487)
T ss_dssp             EECCSSCCCCEEEC---CCSSCEEEECCSSCCC-SGGGBCGGGGSSEEEEECTTSCCCEEE-GGGGGGGTTTCCEEECTT
T ss_pred             EECcCCcCCCCCcc---ccCCCCEEECCCCCCC-CCCchhhcCCCCCCEEECCCCCCCCcC-hHHHhhhCCcccEEecCC
Confidence            88888877765432   3577888888888876 444555667788888888888877555 55554 677888888888


Q ss_pred             CCcccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeecc
Q 040144          161 NTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFE  240 (289)
Q Consensus       161 n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~  240 (289)
                      |. +.+. +....+++|+.|++      ++|.+++.++ .+..+++|+.|++++|.++                  .+|.
T Consensus       179 N~-l~~~-~~~~~l~~L~~L~L------s~N~l~~~~~-~~~~l~~L~~L~Ls~N~l~------------------~lp~  231 (487)
T 3oja_A          179 NF-IYDV-KGQVVFAKLKTLDL------SSNKLAFMGP-EFQSAAGVTWISLRNNKLV------------------LIEK  231 (487)
T ss_dssp             SC-CCEE-ECCCCCTTCCEEEC------CSSCCCEECG-GGGGGTTCSEEECTTSCCC------------------EECT
T ss_pred             Cc-cccc-cccccCCCCCEEEC------CCCCCCCCCH-hHcCCCCccEEEecCCcCc------------------ccch
Confidence            87 5533 22222667777765      7777775444 3677777888777777666                  3555


Q ss_pred             ccccccccccEEEecCCeee-eccCCCccccccccEEecc
Q 040144          241 LHFANLIEMSWFRVGGNQLT-LEVKHDWIPHFQLVALGLH  279 (289)
Q Consensus       241 ~~~~~~~~L~~l~l~~n~~~-~~~~~~~~~~~~L~~l~l~  279 (289)
                       .+..+++|+.|++++|++. +.+|..+..++.++.++++
T Consensus       232 -~l~~l~~L~~L~l~~N~l~c~~~~~~~~~l~~L~~l~~~  270 (487)
T 3oja_A          232 -ALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQ  270 (487)
T ss_dssp             -TCCCCTTCCEEECTTCCBCHHHHHHHHTTCHHHHHHHHH
T ss_pred             -hhccCCCCCEEEcCCCCCcCcchHHHHHhCCCCcEEecc
Confidence             5667777888888887776 4455556666666666664

>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=99.93  E-value=1e-27  Score=207.88  Aligned_cols=280  Identities=18%  Similarity=0.102  Sum_probs=132.2

Q ss_pred             CCCcEEEccCCcccc----cCCCccCCCCCCcEEeCCCccccccCCCcccCCCC----cccEEeccCcccccc--chhhH
Q 040144            2 GNLRYLNFSKTRICG----IIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGIS----LLEHLDLRYVNLSIA--FDWLM   71 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~----~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~----~L~~L~l~~~~~~~~--~~~~~   71 (289)
                      ++|++|++++|.+++    .++..+..+++|++|++++|.+...........++    +|++|++++|.+...  ..+..
T Consensus        28 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~  107 (461)
T 1z7x_W           28 QQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSS  107 (461)
T ss_dssp             TTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHH
T ss_pred             CCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHH
Confidence            566777777776653    23445566667777777766543322111112232    466666666665542  12233


Q ss_pred             hhhcCCCccEEEccCCccCCCCcccc-----cCCCCCcEEeccCCCCCCc---chhhHhhcCCCCCEEEccCceeeeeeC
Q 040144           72 VANKLLSLVELRLSNCQLQHFSPLAT-----VNFSSLTMLDLSHNQFDNS---FILSWVFALSHLPFLDLGFNNFQGTID  143 (289)
Q Consensus        72 ~~~~~~~L~~L~l~~~~l~~~~~~~l-----~~~~~L~~L~l~~~~~~~~---~~~~~~~~~~~L~~L~l~~n~~~~~~~  143 (289)
                      .+..+++|++|++++|.++...+..+     ...++|++|++++|.+++.   .++..+..+++|++|++++|.+.+.. 
T Consensus       108 ~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~-  186 (461)
T 1z7x_W          108 TLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAG-  186 (461)
T ss_dssp             HTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHH-
T ss_pred             HHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHH-
Confidence            55566666666666665543222111     1133455555555555411   11233344455555555555543211 


Q ss_pred             hhhhc-----CCCCccEEeCCCCCcccCC----CCcccc-ccCcceeeccc-----------------------cccccC
Q 040144          144 LEALG-----NLTSINRLDLSLNTGLTGR----IPRSMA-LCNLKSINLQE-----------------------SLDMRS  190 (289)
Q Consensus       144 ~~~~~-----~~~~L~~L~l~~n~~~~~~----~~~~~~-~~~L~~L~l~~-----------------------~l~l~~  190 (289)
                      ...+.     ..++|++|++++|. +.+.    ++..+. +++|++|++++                       .+++++
T Consensus       187 ~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~  265 (461)
T 1z7x_W          187 VRVLCQGLKDSPCQLEALKLESCG-VTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWE  265 (461)
T ss_dssp             HHHHHHHHHHSCCCCCEEECTTSC-CBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTT
T ss_pred             HHHHHHHHhcCCCCceEEEccCCC-CcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcC
Confidence            11111     13344455554444 3321    122233 34444444322                       223366


Q ss_pred             Cccccc----ccccccCCCCCcEEEccCCeeeecC------------CCceEEEeecceeeee----ecccccccccccc
Q 040144          191 SSIYGH----LTDQLGQFRNLVTFNLVNNSIVGFI------------PWSFELHIYDNKLNVT----LFELHFANLIEMS  250 (289)
Q Consensus       191 ~~~~~~----~~~~l~~~~~L~~L~l~~n~~~~~~------------~~~~~L~l~~n~~~~~----~~~~~~~~~~~L~  250 (289)
                      |.++..    ++..+..+++|+.|++++|.+++..            +....|++++|.+++.    ++. .+..+++|+
T Consensus       266 n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~  344 (461)
T 1z7x_W          266 CGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSS-VLAQNRFLL  344 (461)
T ss_dssp             SCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHH-HHHHCSSCC
T ss_pred             CCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHH-HHhhCCCcc
Confidence            666543    4455556777777777777665321            1222555555555432    222 344445555


Q ss_pred             EEEecCCeeeeccCCCccc-----cccccEEecccccCc
Q 040144          251 WFRVGGNQLTLEVKHDWIP-----HFQLVALGLHSCYIG  284 (289)
Q Consensus       251 ~l~l~~n~~~~~~~~~~~~-----~~~L~~l~l~~n~~~  284 (289)
                      +|++++|++++..+..+..     .++|+.|++++|+++
T Consensus       345 ~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~  383 (461)
T 1z7x_W          345 ELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVS  383 (461)
T ss_dssp             EEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCC
T ss_pred             EEEccCCccccccHHHHHHHHcCCCCceEEEECCCCCCC
Confidence            5555555554433322221     334555555555444

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.93  E-value=2e-27  Score=195.62  Aligned_cols=243  Identities=17%  Similarity=0.149  Sum_probs=187.0

Q ss_pred             cCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhh-------hcCCCccEEEccCCccCCCCc
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVA-------NKLLSLVELRLSNCQLQHFSP   94 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-------~~~~~L~~L~l~~~~l~~~~~   94 (289)
                      ++..++|+++++++|.+ ..+..  +.  ..|++|+++++.+.... ++..+       ..+++|++|++++|.+....+
T Consensus        39 ~~~~~~L~~l~l~~n~l-~~p~~--~~--~~L~~L~L~~n~l~~~~-~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~  112 (312)
T 1wwl_A           39 YGGGRSLEYLLKRVDTE-ADLGQ--FT--DIIKSLSLKRLTVRAAR-IPSRILFGALRVLGISGLQELTLENLEVTGTAP  112 (312)
T ss_dssp             EEEEEECTTHHHHCCTT-CCCHH--HH--HHHHHCCCCEEEEEEEE-CBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCC
T ss_pred             EccCCCceeEeeccccc-ccHHH--HH--HHHhhcccccccccCCC-cCHHHHHHHHHhcCcCCccEEEccCCcccchhH
Confidence            34556788888888777 33321  22  23889999999885531 11122       268999999999999987767


Q ss_pred             ccc--cCCCCCcEEeccCCCCCCcchhhHhhcC-----CCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCC
Q 040144           95 LAT--VNFSSLTMLDLSHNQFDNSFILSWVFAL-----SHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR  167 (289)
Q Consensus        95 ~~l--~~~~~L~~L~l~~~~~~~~~~~~~~~~~-----~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~  167 (289)
                      ..+  ..+++|+.|++++|.++ .. +..+..+     ++|++|++++|.+.+ +++..++.+++|++|++++|. +.+.
T Consensus       113 ~~~~~~~l~~L~~L~Ls~N~l~-~~-~~~~~~l~~~~~~~L~~L~L~~N~l~~-~~~~~~~~l~~L~~L~Ls~N~-l~~~  188 (312)
T 1wwl_A          113 PPLLEATGPDLNILNLRNVSWA-TR-DAWLAELQQWLKPGLKVLSIAQAHSLN-FSCEQVRVFPALSTLDLSDNP-ELGE  188 (312)
T ss_dssp             CCSSSCCSCCCSEEEEESCBCS-SS-SSHHHHHHTTCCTTCCEEEEESCSCCC-CCTTTCCCCSSCCEEECCSCT-TCHH
T ss_pred             HHHHHhcCCCccEEEccCCCCc-ch-hHHHHHHHHhhcCCCcEEEeeCCCCcc-chHHHhccCCCCCEEECCCCC-cCcc
Confidence            665  88999999999999997 33 5556555     899999999999984 436889999999999999998 5543


Q ss_pred             --CCccc--c-ccCcceeeccccccccCCccccc---ccccccCCCCCcEEEccCCeeeecCCCc--------eEEEeec
Q 040144          168 --IPRSM--A-LCNLKSINLQESLDMRSSSIYGH---LTDQLGQFRNLVTFNLVNNSIVGFIPWS--------FELHIYD  231 (289)
Q Consensus       168 --~~~~~--~-~~~L~~L~l~~~l~l~~~~~~~~---~~~~l~~~~~L~~L~l~~n~~~~~~~~~--------~~L~l~~  231 (289)
                        .+..+  . +++|++|++      ++|.+++.   ....+..+++|+.|++++|.+++..|..        ..|++++
T Consensus       189 ~~~~~~~~~~~l~~L~~L~L------~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~Ls~  262 (312)
T 1wwl_A          189 RGLISALCPLKFPTLQVLAL------RNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSF  262 (312)
T ss_dssp             HHHHHHSCTTSCTTCCEEEC------TTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTCCEEECTT
T ss_pred             hHHHHHHHhccCCCCCEEEC------CCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCCCEEECCC
Confidence              23333  5 888888886      88888732   2234567899999999999998755321        1899999


Q ss_pred             ceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCccC
Q 040144          232 NKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSR  286 (289)
Q Consensus       232 n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  286 (289)
                      |.++ .+|. .+.  ++|++|++++|++++. |. +..+++|+.|++++|++++.
T Consensus       263 N~l~-~ip~-~~~--~~L~~L~Ls~N~l~~~-p~-~~~l~~L~~L~L~~N~l~~~  311 (312)
T 1wwl_A          263 TGLK-QVPK-GLP--AKLSVLDLSYNRLDRN-PS-PDELPQVGNLSLKGNPFLDS  311 (312)
T ss_dssp             SCCS-SCCS-SCC--SEEEEEECCSSCCCSC-CC-TTTSCEEEEEECTTCTTTCC
T ss_pred             CccC-hhhh-hcc--CCceEEECCCCCCCCC-hh-HhhCCCCCEEeccCCCCCCC
Confidence            9998 7888 565  8999999999999975 65 88999999999999999853

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

Probab=99.92  E-value=2.7e-25  Score=183.35  Aligned_cols=218  Identities=22%  Similarity=0.171  Sum_probs=117.3

Q ss_pred             CCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCC
Q 040144           23 GNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSS  102 (289)
Q Consensus        23 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~  102 (289)
                      ..+++|++|++++|.+....+.. +.++++|++|++++|.+...+    .+..+++|++|++++|.++...     ..++
T Consensus        31 ~~~~~L~~L~L~~n~l~~~~~~~-~~~l~~L~~L~Ls~n~l~~~~----~~~~l~~L~~L~Ls~n~l~~l~-----~~~~  100 (317)
T 3o53_A           31 QSAWNVKELDLSGNPLSQISAAD-LAPFTKLELLNLSSNVLYETL----DLESLSTLRTLDLNNNYVQELL-----VGPS  100 (317)
T ss_dssp             TTGGGCSEEECTTSCCCCCCHHH-HTTCTTCCEEECTTSCCEEEE----EETTCTTCCEEECCSSEEEEEE-----ECTT
T ss_pred             ccCCCCCEEECcCCccCcCCHHH-hhCCCcCCEEECCCCcCCcch----hhhhcCCCCEEECcCCcccccc-----CCCC
Confidence            33445555555555444332211 344555555555555544332    1344555555555555444321     2245


Q ss_pred             CcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc--ccCccee
Q 040144          103 LTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA--LCNLKSI  180 (289)
Q Consensus       103 L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~--~~~L~~L  180 (289)
                      |+.|++++|.++ ...+   ..+++|++|++++|.+.+.. +..++.+++|++|++++|. +.+..+..+.  +++|+.|
T Consensus       101 L~~L~l~~n~l~-~~~~---~~~~~L~~L~l~~N~l~~~~-~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~~l~~L~~L  174 (317)
T 3o53_A          101 IETLHAANNNIS-RVSC---SRGQGKKNIYLANNKITMLR-DLDEGCRSRVQYLDLKLNE-IDTVNFAELAASSDTLEHL  174 (317)
T ss_dssp             CCEEECCSSCCS-EEEE---CCCSSCEEEECCSSCCCSGG-GBCTGGGSSEEEEECTTSC-CCEEEGGGGGGGTTTCCEE
T ss_pred             cCEEECCCCccC-CcCc---cccCCCCEEECCCCCCCCcc-chhhhccCCCCEEECCCCC-CCcccHHHHhhccCcCCEE
Confidence            555555555543 1111   12344555555555554221 3344445555555555554 3332233221  3444444


Q ss_pred             eccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeee
Q 040144          181 NLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT  260 (289)
Q Consensus       181 ~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~  260 (289)
                      ++      ++|.+++...  ...+++|+.|                 ++++|.++ .++. .+..+++|+.|++++|+++
T Consensus       175 ~L------~~N~l~~~~~--~~~l~~L~~L-----------------~Ls~N~l~-~l~~-~~~~l~~L~~L~L~~N~l~  227 (317)
T 3o53_A          175 NL------QYNFIYDVKG--QVVFAKLKTL-----------------DLSSNKLA-FMGP-EFQSAAGVTWISLRNNKLV  227 (317)
T ss_dssp             EC------TTSCCCEEEC--CCCCTTCCEE-----------------ECCSSCCC-EECG-GGGGGTTCSEEECTTSCCC
T ss_pred             EC------CCCcCccccc--ccccccCCEE-----------------ECCCCcCC-cchh-hhcccCcccEEECcCCccc
Confidence            43      4444443211  1124444444                 55555554 5666 5889999999999999999


Q ss_pred             eccCCCccccccccEEecccccCc
Q 040144          261 LEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       261 ~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      + +|..+..+++|+.|++++|.++
T Consensus       228 ~-l~~~~~~l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          228 L-IEKALRFSQNLEHFDLRGNGFH  250 (317)
T ss_dssp             E-ECTTCCCCTTCCEEECTTCCCB
T ss_pred             c-hhhHhhcCCCCCEEEccCCCcc
Confidence            5 7888999999999999999987

>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=99.92  E-value=7.7e-24  Score=182.60  Aligned_cols=234  Identities=22%  Similarity=0.219  Sum_probs=107.5

Q ss_pred             CCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcE
Q 040144           26 SNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTM  105 (289)
Q Consensus        26 ~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~  105 (289)
                      ++|++|++++|.+..++  . +.++++|++|++++|.+...+.      ..++|++|++++|.+... + .++.+++|+.
T Consensus       131 ~~L~~L~L~~n~l~~lp--~-~~~l~~L~~L~l~~N~l~~lp~------~~~~L~~L~L~~n~l~~l-~-~~~~l~~L~~  199 (454)
T 1jl5_A          131 PLLEYLGVSNNQLEKLP--E-LQNSSFLKIIDVDNNSLKKLPD------LPPSLEFIAAGNNQLEEL-P-ELQNLPFLTA  199 (454)
T ss_dssp             TTCCEEECCSSCCSSCC--C-CTTCTTCCEEECCSSCCSCCCC------CCTTCCEEECCSSCCSSC-C-CCTTCTTCCE
T ss_pred             CCCCEEECcCCCCCCCc--c-cCCCCCCCEEECCCCcCcccCC------CcccccEEECcCCcCCcC-c-cccCCCCCCE
Confidence            46666666666555433  1 5566666666666666554332      113566666666665553 2 3555566666


Q ss_pred             EeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCccccccCcceeeccc-
Q 040144          106 LDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQE-  184 (289)
Q Consensus       106 L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~L~~L~l~~-  184 (289)
                      |++++|.++  .++..   ..+|++|++++|.+. .+ + .++.+++|++|++++|. +.+ +|..  +++|+.|++++ 
T Consensus       200 L~l~~N~l~--~l~~~---~~~L~~L~l~~n~l~-~l-p-~~~~l~~L~~L~l~~N~-l~~-l~~~--~~~L~~L~l~~N  267 (454)
T 1jl5_A          200 IYADNNSLK--KLPDL---PLSLESIVAGNNILE-EL-P-ELQNLPFLTTIYADNNL-LKT-LPDL--PPSLEALNVRDN  267 (454)
T ss_dssp             EECCSSCCS--SCCCC---CTTCCEEECCSSCCS-SC-C-CCTTCTTCCEEECCSSC-CSS-CCSC--CTTCCEEECCSS
T ss_pred             EECCCCcCC--cCCCC---cCcccEEECcCCcCC-cc-c-ccCCCCCCCEEECCCCc-CCc-cccc--ccccCEEECCCC
Confidence            666655554  12211   234555555555554 33 2 24455555555555554 331 2211  12333333211 


Q ss_pred             -------------cccccCCccccc--cccc-------------ccCC-CCCcEEEccCCeeeecCCCce----EEEeec
Q 040144          185 -------------SLDMRSSSIYGH--LTDQ-------------LGQF-RNLVTFNLVNNSIVGFIPWSF----ELHIYD  231 (289)
Q Consensus       185 -------------~l~l~~~~~~~~--~~~~-------------l~~~-~~L~~L~l~~n~~~~~~~~~~----~L~l~~  231 (289)
                                   .+++++|.+++.  .|..             +..+ ++|+.|++++|.+++ +|..+    .|++++
T Consensus       268 ~l~~l~~~~~~L~~L~ls~N~l~~l~~~~~~L~~L~l~~N~l~~i~~~~~~L~~L~Ls~N~l~~-lp~~~~~L~~L~L~~  346 (454)
T 1jl5_A          268 YLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIE-LPALPPRLERLIASF  346 (454)
T ss_dssp             CCSCCCCCCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSSCCSC-CCCCCTTCCEEECCS
T ss_pred             cccccCcccCcCCEEECcCCccCcccCcCCcCCEEECcCCcCCcccCCcCcCCEEECCCCcccc-ccccCCcCCEEECCC
Confidence                         122244444431  1110             1112 356666666666553 33222    666666


Q ss_pred             ceeeeeeccccccccccccEEEecCCeeee--ccCCCcccc-------------ccccEEecccccCcc--CCC
Q 040144          232 NKLNVTLFELHFANLIEMSWFRVGGNQLTL--EVKHDWIPH-------------FQLVALGLHSCYIGS--RFP  288 (289)
Q Consensus       232 n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~--~~~~~~~~~-------------~~L~~l~l~~n~~~~--~~p  288 (289)
                      |.++ .+|.    .+++|+.|++++|++++  .+|..+..+             ++|+.|++++|++++  .+|
T Consensus       347 N~l~-~lp~----~l~~L~~L~L~~N~l~~l~~ip~~l~~L~~n~~~~~i~~~~~~L~~L~ls~N~l~~~~~iP  415 (454)
T 1jl5_A          347 NHLA-EVPE----LPQNLKQLHVEYNPLREFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNPLREFPDIP  415 (454)
T ss_dssp             SCCS-CCCC----CCTTCCEEECCSSCCSSCCCCCTTCCEEECCC-----------------------------
T ss_pred             Cccc-cccc----hhhhccEEECCCCCCCcCCCChHHHHhhhhcccccccccccCcCCEEECCCCcCCccccch
Confidence            6665 3544    35677777777777776  566666666             667777777777765  555

>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=99.92  E-value=9.3e-27  Score=201.79  Aligned_cols=275  Identities=19%  Similarity=0.172  Sum_probs=167.9

Q ss_pred             CCcEEEccCCcccc----cCCCccCCCCCCcEEeCCCccccccCCCc----ccCCCCcccEEeccCccccccc--hhhHh
Q 040144            3 NLRYLNFSKTRICG----IIPQQLGNLSNLQFLDLSSKYLLYVDNFL----WLSGISLLEHLDLRYVNLSIAF--DWLMV   72 (289)
Q Consensus         3 ~L~~L~l~~~~~~~----~~~~~l~~l~~L~~L~l~~~~~~~~~~~~----~~~~l~~L~~L~l~~~~~~~~~--~~~~~   72 (289)
                      +|++|++++|.+++    .++..+..+++|++|++++|.+.......    .....++|++|++++|.+....  .+...
T Consensus        86 ~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~  165 (461)
T 1z7x_W           86 KIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASV  165 (461)
T ss_dssp             CCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHH
T ss_pred             ceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHH
Confidence            46666666666653    33555666666666666666543221110    0112345666666666655431  22334


Q ss_pred             hhcCCCccEEEccCCccCCCCccccc-----CCCCCcEEeccCCCCCCcc---hhhHhhcCCCCCEEEccCceeeeee--
Q 040144           73 ANKLLSLVELRLSNCQLQHFSPLATV-----NFSSLTMLDLSHNQFDNSF---ILSWVFALSHLPFLDLGFNNFQGTI--  142 (289)
Q Consensus        73 ~~~~~~L~~L~l~~~~l~~~~~~~l~-----~~~~L~~L~l~~~~~~~~~---~~~~~~~~~~L~~L~l~~n~~~~~~--  142 (289)
                      +..+++|++|++++|.+.......+.     ..++|+.|++++|.+++..   ++..+..+++|++|++++|.+.+..  
T Consensus       166 l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~  245 (461)
T 1z7x_W          166 LRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMA  245 (461)
T ss_dssp             HHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHH
T ss_pred             HhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHH
Confidence            55667777777777766543222222     2457777777777776221   3455666778888888888765321  


Q ss_pred             --ChhhhcCCCCccEEeCCCCCcccCC----CCcccc-ccCcceeeccccccccCCccccccccccc-----CCCCCcEE
Q 040144          143 --DLEALGNLTSINRLDLSLNTGLTGR----IPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLG-----QFRNLVTF  210 (289)
Q Consensus       143 --~~~~~~~~~~L~~L~l~~n~~~~~~----~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~-----~~~~L~~L  210 (289)
                        .+..+..+++|++|++++|. +++.    ++..+. +++|++|++      ++|.+++..+..+.     ..++|+.|
T Consensus       246 ~l~~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~L------s~n~i~~~~~~~l~~~l~~~~~~L~~L  318 (461)
T 1z7x_W          246 ELCPGLLHPSSRLRTLWIWECG-ITAKGCGDLCRVLRAKESLKELSL------AGNELGDEGARLLCETLLEPGCQLESL  318 (461)
T ss_dssp             HHHHHHTSTTCCCCEEECTTSC-CCHHHHHHHHHHHHHCTTCCEEEC------TTCCCHHHHHHHHHHHHTSTTCCCCEE
T ss_pred             HHHHHHhcCCCCceEEECcCCC-CCHHHHHHHHHHHhhCCCcceEEC------CCCCCchHHHHHHHHHhccCCccceee
Confidence              01112246778888888887 5532    455555 777887776      77777644333332     23588888


Q ss_pred             EccCCeeeecC-----------CCceEEEeecceeeeeeccccccc-----cccccEEEecCCeeee----ccCCCcccc
Q 040144          211 NLVNNSIVGFI-----------PWSFELHIYDNKLNVTLFELHFAN-----LIEMSWFRVGGNQLTL----EVKHDWIPH  270 (289)
Q Consensus       211 ~l~~n~~~~~~-----------~~~~~L~l~~n~~~~~~~~~~~~~-----~~~L~~l~l~~n~~~~----~~~~~~~~~  270 (289)
                      ++++|.+++..           +....|++++|.+++..+. .+..     .++|++|++++|++++    .++..+..+
T Consensus       319 ~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~-~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~  397 (461)
T 1z7x_W          319 WVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVR-ELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLAN  397 (461)
T ss_dssp             ECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHH-HHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHC
T ss_pred             EcCCCCCchHHHHHHHHHHhhCCCccEEEccCCccccccHH-HHHHHHcCCCCceEEEECCCCCCChhhHHHHHHHHHhC
Confidence            88888877542           2222788888887643333 3332     5688888888888885    566677778


Q ss_pred             ccccEEecccccCcc
Q 040144          271 FQLVALGLHSCYIGS  285 (289)
Q Consensus       271 ~~L~~l~l~~n~~~~  285 (289)
                      ++|++|++++|++++
T Consensus       398 ~~L~~L~l~~N~i~~  412 (461)
T 1z7x_W          398 HSLRELDLSNNCLGD  412 (461)
T ss_dssp             CCCCEEECCSSSCCH
T ss_pred             CCccEEECCCCCCCH
Confidence            888888888888764

>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=99.92  E-value=1.6e-23  Score=169.46  Aligned_cols=209  Identities=21%  Similarity=0.200  Sum_probs=162.2

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      ++++|++++|.+++..+..|.++++|++|++++|.+....... +.++++|++|++++|.+...+.  ..+..+++|++|
T Consensus        29 ~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~~~l~~L~~L  105 (276)
T 2z62_A           29 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGA-YQSLSHLSTLILTGNPIQSLAL--GAFSGLSSLQKL  105 (276)
T ss_dssp             TCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTT-TTTCTTCCEEECTTCCCCEECT--TTTTTCTTCCEE
T ss_pred             CccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHH-ccCCcCCCEEECCCCccCccCh--hhhcCCccccEE
Confidence            5889999999988777778888999999999988776655433 6778899999999998877642  257788899999


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCcc----EEeC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSIN----RLDL  158 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~----~L~l  158 (289)
                      ++.+|.+....+..+..+++|++|++++|.++...++..+..+++|++|++++|.+++.. +..+..+++++    ++++
T Consensus       106 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~-~~~~~~l~~L~~l~l~L~l  184 (276)
T 2z62_A          106 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIY-CTDLRVLHQMPLLNLSLDL  184 (276)
T ss_dssp             ECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEEC-GGGGHHHHTCTTCCEEEEC
T ss_pred             ECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCC-HHHhhhhhhccccceeeec
Confidence            999998888766678888999999999998873345777888899999999999887433 55666666666    8899


Q ss_pred             CCCCcccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCC
Q 040144          159 SLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIP  222 (289)
Q Consensus       159 ~~n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  222 (289)
                      ++|. +....+..+...+|+.|++      ++|.+++..+..+..+++|+.|++++|.+....+
T Consensus       185 s~n~-l~~~~~~~~~~~~L~~L~L------~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~c~c~  241 (276)
T 2z62_A          185 SLNP-MNFIQPGAFKEIRLKELAL------DTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  241 (276)
T ss_dssp             CSSC-CCEECTTSSCSCCEEEEEC------CSSCCSCCCTTTTTTCCSCCEEECCSSCBCCCTT
T ss_pred             CCCc-ccccCccccCCCcccEEEC------CCCceeecCHhHhcccccccEEEccCCcccccCC
Confidence            9888 6543333333557777776      8888887777777888999999999988885543

>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=99.91  E-value=7.4e-23  Score=165.49  Aligned_cols=206  Identities=21%  Similarity=0.214  Sum_probs=134.8

Q ss_pred             CcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCE
Q 040144           51 SLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPF  130 (289)
Q Consensus        51 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~  130 (289)
                      +.|++|++++|.+...+.  ..+..+++|++|++++|.+....+..+..+++|++|++++|.++ ...+..+..+++|++
T Consensus        28 ~~l~~L~ls~n~l~~~~~--~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~  104 (276)
T 2z62_A           28 FSTKNLDLSFNPLRHLGS--YSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ-SLALGAFSGLSSLQK  104 (276)
T ss_dssp             TTCCEEECTTCCCCEECT--TTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCC-EECTTTTTTCTTCCE
T ss_pred             CCccEEECCCCcccccCH--hHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccC-ccChhhhcCCccccE
Confidence            457788888877766532  14567777888888888777666666777778888888877776 444455667777888


Q ss_pred             EEccCceeeeeeChhhhcCCCCccEEeCCCCCcccC-CCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCc
Q 040144          131 LDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTG-RIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLV  208 (289)
Q Consensus       131 L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~-~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~  208 (289)
                      |++++|.+.+ +.+..++.+++|++|++++|. +.+ .+|..+. +++|+.|++      ++|.+++..+..+..+++|+
T Consensus       105 L~l~~n~l~~-~~~~~~~~l~~L~~L~l~~n~-l~~~~l~~~~~~l~~L~~L~L------s~N~l~~~~~~~~~~l~~L~  176 (276)
T 2z62_A          105 LVAVETNLAS-LENFPIGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLDL------SSNKIQSIYCTDLRVLHQMP  176 (276)
T ss_dssp             EECTTSCCCC-STTCCCTTCTTCCEEECCSSC-CCCCCCCGGGGGCTTCCEEEC------CSSCCCEECGGGGHHHHTCT
T ss_pred             EECCCCCccc-cCchhcccCCCCCEEECcCCc-cceecCchhhccCCCCCEEEC------CCCCCCcCCHHHhhhhhhcc
Confidence            8887777763 324457777778888887777 543 2466666 777777765      67777766666666655555


Q ss_pred             ----EEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          209 ----TFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       209 ----~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                          .|++++|.+.+                  ++. ......+|+.|++++|++++..+..+..+++|+.|++++|.++
T Consensus       177 ~l~l~L~ls~n~l~~------------------~~~-~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~  237 (276)
T 2z62_A          177 LLNLSLDLSLNPMNF------------------IQP-GAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWD  237 (276)
T ss_dssp             TCCEEEECCSSCCCE------------------ECT-TSSCSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSSCBC
T ss_pred             ccceeeecCCCcccc------------------cCc-cccCCCcccEEECCCCceeecCHhHhcccccccEEEccCCccc
Confidence                66666666552                  333 2223346666777666666544444566666667777766665


Q ss_pred             cC
Q 040144          285 SR  286 (289)
Q Consensus       285 ~~  286 (289)
                      ..
T Consensus       238 c~  239 (276)
T 2z62_A          238 CS  239 (276)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.91  E-value=3.9e-24  Score=175.98  Aligned_cols=224  Identities=21%  Similarity=0.185  Sum_probs=128.9

Q ss_pred             CcEEEccCCccc-ccCCCccC-------CCCCCcEEeCCCccccccCCCcc-cCCCCcccEEeccCccccccchhhHhhh
Q 040144            4 LRYLNFSKTRIC-GIIPQQLG-------NLSNLQFLDLSSKYLLYVDNFLW-LSGISLLEHLDLRYVNLSIAFDWLMVAN   74 (289)
Q Consensus         4 L~~L~l~~~~~~-~~~~~~l~-------~l~~L~~L~l~~~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~~~~   74 (289)
                      +++|++++|.++ ...+..+.       ++++|++|++++|.+....+... +..+++|++|++++|.+...+.   .+.
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 IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDA---WLA  141 (312)
T ss_dssp             HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSS---HHH
T ss_pred             HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchhH---HHH
Confidence            344555555552 23343333       56667777776666553322221 2556667777777766665533   222


Q ss_pred             cC-----CCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcc--hhhHh--hcCCCCCEEEccCceeee--eeC
Q 040144           75 KL-----LSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSF--ILSWV--FALSHLPFLDLGFNNFQG--TID  143 (289)
Q Consensus        75 ~~-----~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~--~~~~~--~~~~~L~~L~l~~n~~~~--~~~  143 (289)
                      .+     ++|++|++++|.+....+..++.+++|+.|++++|.+. +.  .+..+  ..+++|++|++++|.+.+  .++
T Consensus       142 ~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~  220 (312)
T 1wwl_A          142 ELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPEL-GERGLISALCPLKFPTLQVLALRNAGMETPSGVC  220 (312)
T ss_dssp             HHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTC-HHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHH
T ss_pred             HHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcC-cchHHHHHHHhccCCCCCEEECCCCcCcchHHHH
Confidence            22     66777777777666665566666677777777766654 22  12222  456667777777766652  111


Q ss_pred             hhhhcCCCCccEEeCCCCCcccCCCC-cccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecC
Q 040144          144 LEALGNLTSINRLDLSLNTGLTGRIP-RSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFI  221 (289)
Q Consensus       144 ~~~~~~~~~L~~L~l~~n~~~~~~~~-~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~  221 (289)
                      ...+..+++|++|++++|. +.+..| ..+. +++|+.|++      ++|.++ .+|..+.  ++|+.|++++|+++   
T Consensus       221 ~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~~l~~L~~L~L------s~N~l~-~ip~~~~--~~L~~L~Ls~N~l~---  287 (312)
T 1wwl_A          221 SALAAARVQLQGLDLSHNS-LRDAAGAPSCDWPSQLNSLNL------SFTGLK-QVPKGLP--AKLSVLDLSYNRLD---  287 (312)
T ss_dssp             HHHHHTTCCCSEEECTTSC-CCSSCCCSCCCCCTTCCEEEC------TTSCCS-SCCSSCC--SEEEEEECCSSCCC---
T ss_pred             HHHHhcCCCCCEEECCCCc-CCcccchhhhhhcCCCCEEEC------CCCccC-hhhhhcc--CCceEEECCCCCCC---
Confidence            2233455667777777666 554433 2233 556666554      566665 4444443  55666666665555   


Q ss_pred             CCceEEEeecceeeeeeccccccccccccEEEecCCeeee
Q 040144          222 PWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       222 ~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                                     .+|.  +..+++|++|++++|++++
T Consensus       288 ---------------~~p~--~~~l~~L~~L~L~~N~l~~  310 (312)
T 1wwl_A          288 ---------------RNPS--PDELPQVGNLSLKGNPFLD  310 (312)
T ss_dssp             ---------------SCCC--TTTSCEEEEEECTTCTTTC
T ss_pred             ---------------CChh--HhhCCCCCEEeccCCCCCC
Confidence                           3443  7789999999999999875

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

Probab=99.91  E-value=9.2e-24  Score=183.77  Aligned_cols=214  Identities=23%  Similarity=0.198  Sum_probs=119.6

Q ss_pred             CCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEE
Q 040144           27 NLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTML  106 (289)
Q Consensus        27 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L  106 (289)
                      +|++|++++|.+...++.. +..+++|++|++++|.+...++    +..+++|++|++++|.++...     ..++|+.|
T Consensus        35 ~L~~L~Ls~n~l~~~~~~~-~~~l~~L~~L~Ls~N~l~~~~~----l~~l~~L~~L~Ls~N~l~~l~-----~~~~L~~L  104 (487)
T 3oja_A           35 NVKELDLSGNPLSQISAAD-LAPFTKLELLNLSSNVLYETLD----LESLSTLRTLDLNNNYVQELL-----VGPSIETL  104 (487)
T ss_dssp             GCCEEECCSSCCCCCCGGG-GTTCTTCCEEECTTSCCEEEEE----CTTCTTCCEEECCSSEEEEEE-----ECTTCCEE
T ss_pred             CccEEEeeCCcCCCCCHHH-HhCCCCCCEEEeeCCCCCCCcc----cccCCCCCEEEecCCcCCCCC-----CCCCcCEE
Confidence            5555555555544433222 4455555555555555544321    445555555555555544321     12455555


Q ss_pred             eccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc--ccCcceeeccc
Q 040144          107 DLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA--LCNLKSINLQE  184 (289)
Q Consensus       107 ~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~--~~~L~~L~l~~  184 (289)
                      ++++|.++ ...+   ..+++|+.|++++|.+.+.. +..++.+++|+.|++++|. +.+..|..+.  +++|+.|++  
T Consensus       105 ~L~~N~l~-~~~~---~~l~~L~~L~L~~N~l~~~~-~~~~~~l~~L~~L~Ls~N~-l~~~~~~~l~~~l~~L~~L~L--  176 (487)
T 3oja_A          105 HAANNNIS-RVSC---SRGQGKKNIYLANNKITMLR-DLDEGCRSRVQYLDLKLNE-IDTVNFAELAASSDTLEHLNL--  176 (487)
T ss_dssp             ECCSSCCC-CEEE---CCCSSCEEEECCSSCCCSGG-GBCGGGGSSEEEEECTTSC-CCEEEGGGGGGGTTTCCEEEC--
T ss_pred             ECcCCcCC-CCCc---cccCCCCEEECCCCCCCCCC-chhhcCCCCCCEEECCCCC-CCCcChHHHhhhCCcccEEec--
Confidence            55555554 1111   12345555555555554322 3444455555555555555 4433333332  444444443  


Q ss_pred             cccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccC
Q 040144          185 SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVK  264 (289)
Q Consensus       185 ~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~  264 (289)
                          ++|.+++..+  ...+++|+.|++                 ++|.++ .++. .+..+++|+.|++++|.+++ +|
T Consensus       177 ----s~N~l~~~~~--~~~l~~L~~L~L-----------------s~N~l~-~~~~-~~~~l~~L~~L~Ls~N~l~~-lp  230 (487)
T 3oja_A          177 ----QYNFIYDVKG--QVVFAKLKTLDL-----------------SSNKLA-FMGP-EFQSAAGVTWISLRNNKLVL-IE  230 (487)
T ss_dssp             ----TTSCCCEEEC--CCCCTTCCEEEC-----------------CSSCCC-EECG-GGGGGTTCSEEECTTSCCCE-EC
T ss_pred             ----CCCccccccc--cccCCCCCEEEC-----------------CCCCCC-CCCH-hHcCCCCccEEEecCCcCcc-cc
Confidence                4444443321  123444555555                 455554 4666 58899999999999999996 78


Q ss_pred             CCccccccccEEecccccCc
Q 040144          265 HDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       265 ~~~~~~~~L~~l~l~~n~~~  284 (289)
                      ..+..+++|+.|++++|.+.
T Consensus       231 ~~l~~l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          231 KALRFSQNLEHFDLRGNGFH  250 (487)
T ss_dssp             TTCCCCTTCCEEECTTCCBC
T ss_pred             hhhccCCCCCEEEcCCCCCc
Confidence            88999999999999999987

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

Probab=99.91  E-value=1.9e-23  Score=168.48  Aligned_cols=210  Identities=20%  Similarity=0.179  Sum_probs=169.4

Q ss_pred             cCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCC
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFS  101 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~  101 (289)
                      ...+++|++|++.++.+.....   +..+++|++|++++|.+....    .+..+++|++|++++|.++...+..+..++
T Consensus        37 ~~~l~~L~~L~l~~~~i~~~~~---l~~l~~L~~L~l~~n~l~~~~----~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~  109 (272)
T 3rfs_A           37 QNELNSIDQIIANNSDIKSVQG---IQYLPNVRYLALGGNKLHDIS----ALKELTNLTYLILTGNQLQSLPNGVFDKLT  109 (272)
T ss_dssp             HHHHTTCCEEECTTSCCCCCTT---GGGCTTCCEEECTTSCCCCCG----GGTTCTTCCEEECTTSCCCCCCTTTTTTCT
T ss_pred             cccccceeeeeeCCCCcccccc---cccCCCCcEEECCCCCCCCch----hhcCCCCCCEEECCCCccCccChhHhcCCc
Confidence            4567899999999987665543   677999999999999887643    577889999999999999988777788999


Q ss_pred             CCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCccee
Q 040144          102 SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSI  180 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L  180 (289)
                      +|++|++++|.++ ...+..+..+++|++|++++|.+. .+++..++.+++|++|++++|. +.+..+..+. +++|+.|
T Consensus       110 ~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L  186 (272)
T 3rfs_A          110 NLKELVLVENQLQ-SLPDGVFDKLTNLTYLNLAHNQLQ-SLPKGVFDKLTNLTELDLSYNQ-LQSLPEGVFDKLTQLKDL  186 (272)
T ss_dssp             TCCEEECTTSCCC-CCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEE
T ss_pred             CCCEEECCCCcCC-ccCHHHhccCCCCCEEECCCCccC-ccCHHHhccCccCCEEECCCCC-cCccCHHHhcCCccCCEE
Confidence            9999999999987 545555778899999999999988 4436678899999999999998 7755555667 8999988


Q ss_pred             eccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeecccccccccc
Q 040144          181 NLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIE  248 (289)
Q Consensus       181 ~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~  248 (289)
                      ++      ++|.+.+..+..++.+++|+.|++++|.+.+..|....++++.|.++|.+|. +++++..
T Consensus       187 ~L------~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~~l~~l~~~~n~~~g~ip~-~~~~~~~  247 (272)
T 3rfs_A          187 RL------YQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCPGIRYLSEWINKHSGVVRN-SAGSVAP  247 (272)
T ss_dssp             EC------CSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCTTTTHHHHHHHHHTGGGBBC-TTSCBCG
T ss_pred             EC------CCCcCCccCHHHHhCCcCCCEEEccCCCccccCcHHHHHHHHHHhCCCcccC-cccccCC
Confidence            86      8899998888888999999999999998886666544566666666666666 5554443

>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=99.90  E-value=3.6e-22  Score=172.14  Aligned_cols=246  Identities=18%  Similarity=0.169  Sum_probs=136.5

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      +|++|++++|.+++ +|..   +++|++|++++|.+...+.     ..++|++|++++|.+...+    .+..+++|++|
T Consensus        92 ~L~~L~l~~n~l~~-lp~~---~~~L~~L~l~~n~l~~l~~-----~~~~L~~L~L~~n~l~~lp----~~~~l~~L~~L  158 (454)
T 1jl5_A           92 HLESLVASCNSLTE-LPEL---PQSLKSLLVDNNNLKALSD-----LPPLLEYLGVSNNQLEKLP----ELQNSSFLKII  158 (454)
T ss_dssp             TCSEEECCSSCCSS-CCCC---CTTCCEEECCSSCCSCCCS-----CCTTCCEEECCSSCCSSCC----CCTTCTTCCEE
T ss_pred             CCCEEEccCCcCCc-cccc---cCCCcEEECCCCccCcccC-----CCCCCCEEECcCCCCCCCc----ccCCCCCCCEE
Confidence            34455555555443 3321   2455555555554433221     1246777777777666533    35667777777


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ++++|.++... ..   ..+|++|++++|.++  .++ .++.+++|++|++++|.+.+ + +..   .++|++|++++|.
T Consensus       159 ~l~~N~l~~lp-~~---~~~L~~L~L~~n~l~--~l~-~~~~l~~L~~L~l~~N~l~~-l-~~~---~~~L~~L~l~~n~  226 (454)
T 1jl5_A          159 DVDNNSLKKLP-DL---PPSLEFIAAGNNQLE--ELP-ELQNLPFLTAIYADNNSLKK-L-PDL---PLSLESIVAGNNI  226 (454)
T ss_dssp             ECCSSCCSCCC-CC---CTTCCEEECCSSCCS--SCC-CCTTCTTCCEEECCSSCCSS-C-CCC---CTTCCEEECCSSC
T ss_pred             ECCCCcCcccC-CC---cccccEEECcCCcCC--cCc-cccCCCCCCEEECCCCcCCc-C-CCC---cCcccEEECcCCc
Confidence            77777766532 11   247777777777775  234 46677778888888777763 3 321   2478888888887


Q ss_pred             cccCCCCcccc-ccCcceeeccc--------------cccccCCcccccccccccCCCCCcEEEccCCeeee--cCCCce
Q 040144          163 GLTGRIPRSMA-LCNLKSINLQE--------------SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVG--FIPWSF  225 (289)
Q Consensus       163 ~~~~~~~~~~~-~~~L~~L~l~~--------------~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~--~~~~~~  225 (289)
                       +. .+|. +. +++|+.|++++              .+++++|.+.+ +|..   .++|+.|++++|.+++  .+|..+
T Consensus       227 -l~-~lp~-~~~l~~L~~L~l~~N~l~~l~~~~~~L~~L~l~~N~l~~-l~~~---~~~L~~L~ls~N~l~~l~~~~~~L  299 (454)
T 1jl5_A          227 -LE-ELPE-LQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTD-LPEL---PQSLTFLDVSENIFSGLSELPPNL  299 (454)
T ss_dssp             -CS-SCCC-CTTCTTCCEEECCSSCCSSCCSCCTTCCEEECCSSCCSC-CCCC---CTTCCEEECCSSCCSEESCCCTTC
T ss_pred             -CC-cccc-cCCCCCCCEEECCCCcCCcccccccccCEEECCCCcccc-cCcc---cCcCCEEECcCCccCcccCcCCcC
Confidence             55 5664 66 88899888744              34444444443 2211   2455666666665554  222222


Q ss_pred             -EEEeecceeee-------------------eeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCcc
Q 040144          226 -ELHIYDNKLNV-------------------TLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       226 -~L~l~~n~~~~-------------------~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                       .|++++|.+++                   .+|.    .+++|+.|++++|++++ +|.   .+++|+.|++++|++++
T Consensus       300 ~~L~l~~N~l~~i~~~~~~L~~L~Ls~N~l~~lp~----~~~~L~~L~L~~N~l~~-lp~---~l~~L~~L~L~~N~l~~  371 (454)
T 1jl5_A          300 YYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPA----LPPRLERLIASFNHLAE-VPE---LPQNLKQLHVEYNPLRE  371 (454)
T ss_dssp             CEEECCSSCCSEECCCCTTCCEEECCSSCCSCCCC----CCTTCCEEECCSSCCSC-CCC---CCTTCCEEECCSSCCSS
T ss_pred             CEEECcCCcCCcccCCcCcCCEEECCCCccccccc----cCCcCCEEECCCCcccc-ccc---hhhhccEEECCCCCCCc
Confidence             34444443331                   1222    13556666666666553 443   24567777777777765


Q ss_pred             --CCC
Q 040144          286 --RFP  288 (289)
Q Consensus       286 --~~p  288 (289)
                        .+|
T Consensus       372 l~~ip  376 (454)
T 1jl5_A          372 FPDIP  376 (454)
T ss_dssp             CCCCC
T ss_pred             CCCCh
Confidence              444

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

Probab=99.90  E-value=1.2e-22  Score=163.61  Aligned_cols=203  Identities=22%  Similarity=0.225  Sum_probs=147.6

Q ss_pred             CCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEE
Q 040144           27 NLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTML  106 (289)
Q Consensus        27 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L  106 (289)
                      ..++++++++.+..++..  +  .+.+++|+++++.+...+.  ..+..+++|++|++++|.++...+..+..+++|++|
T Consensus        17 ~~~~l~~~~~~l~~ip~~--~--~~~l~~L~l~~n~l~~~~~--~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L   90 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSN--I--PADTKKLDLQSNKLSSLPS--KAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETL   90 (270)
T ss_dssp             TTTEEECTTSCCSSCCSC--C--CTTCSEEECCSSCCSCCCT--TSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEE
T ss_pred             CCCEEEccCCCCCccCCC--C--CCCCCEEECcCCCCCeeCH--HHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEE
Confidence            567888888776665532  1  3578888888888776532  256778888888888888887766667778888888


Q ss_pred             eccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeecccc
Q 040144          107 DLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQES  185 (289)
Q Consensus       107 ~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~  185 (289)
                      ++++|.++ ...+..+..+++|++|++++|.+.+ +++..+..+++|++|++++|. +....+..+. +++|+.|++   
T Consensus        91 ~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~~-~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L---  164 (270)
T 2o6q_A           91 WVTDNKLQ-ALPIGVFDQLVNLAELRLDRNQLKS-LPPRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLTSLKELRL---  164 (270)
T ss_dssp             ECCSSCCC-CCCTTTTTTCSSCCEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEEC---
T ss_pred             ECCCCcCC-cCCHhHcccccCCCEEECCCCccCe-eCHHHhCcCcCCCEEECCCCc-CCccCHhHccCCcccceeEe---
Confidence            88888886 4334456677888888888888874 436667788888888888887 6644444456 778887775   


Q ss_pred             ccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeec
Q 040144          186 LDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLE  262 (289)
Q Consensus       186 l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  262 (289)
                         ++|.+....+..+..+++|+.|++++|.++                  .++...+..+++|+.|++++|++...
T Consensus       165 ---~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~------------------~~~~~~~~~l~~L~~L~l~~N~~~c~  220 (270)
T 2o6q_A          165 ---YNNQLKRVPEGAFDKLTELKTLKLDNNQLK------------------RVPEGAFDSLEKLKMLQLQENPWDCT  220 (270)
T ss_dssp             ---CSSCCSCCCTTTTTTCTTCCEEECCSSCCS------------------CCCTTTTTTCTTCCEEECCSSCBCCS
T ss_pred             ---cCCcCcEeChhHhccCCCcCEEECCCCcCC------------------cCCHHHhccccCCCEEEecCCCeeCC
Confidence               777777776667777888888888877766                  33333567788888888888887643

>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=99.90  E-value=1.5e-22  Score=179.86  Aligned_cols=240  Identities=19%  Similarity=0.132  Sum_probs=150.7

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      +++.|+++++.++ .+|..+.  ++|++|++++|.+..++.     .+++|++|++++|.+...+.      .+++|++|
T Consensus        41 ~l~~L~ls~n~L~-~lp~~l~--~~L~~L~L~~N~l~~lp~-----~l~~L~~L~Ls~N~l~~lp~------~l~~L~~L  106 (622)
T 3g06_A           41 GNAVLNVGESGLT-TLPDCLP--AHITTLVIPDNNLTSLPA-----LPPELRTLEVSGNQLTSLPV------LPPGLLEL  106 (622)
T ss_dssp             CCCEEECCSSCCS-CCCSCCC--TTCSEEEECSCCCSCCCC-----CCTTCCEEEECSCCCSCCCC------CCTTCCEE
T ss_pred             CCcEEEecCCCcC-ccChhhC--CCCcEEEecCCCCCCCCC-----cCCCCCEEEcCCCcCCcCCC------CCCCCCEE
Confidence            3566777777766 4555444  567777777766554432     35667777777776655432      45666666


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhh---------------
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEAL---------------  147 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~---------------  147 (289)
                      ++++|.+.....    .+++|+.|++++|.++  .++.   .+++|++|++++|.+.+ + +..+               
T Consensus       107 ~Ls~N~l~~l~~----~l~~L~~L~L~~N~l~--~lp~---~l~~L~~L~Ls~N~l~~-l-~~~~~~L~~L~L~~N~l~~  175 (622)
T 3g06_A          107 SIFSNPLTHLPA----LPSGLCKLWIFGNQLT--SLPV---LPPGLQELSVSDNQLAS-L-PALPSELCKLWAYNNQLTS  175 (622)
T ss_dssp             EECSCCCCCCCC----CCTTCCEEECCSSCCS--CCCC---CCTTCCEEECCSSCCSC-C-CCCCTTCCEEECCSSCCSC
T ss_pred             ECcCCcCCCCCC----CCCCcCEEECCCCCCC--cCCC---CCCCCCEEECcCCcCCC-c-CCccCCCCEEECCCCCCCC
Confidence            666666655422    3455566666655554  2222   13555555555555542 2 1111               


Q ss_pred             --cCCCCccEEeCCCCCcccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce
Q 040144          148 --GNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF  225 (289)
Q Consensus       148 --~~~~~L~~L~l~~n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~  225 (289)
                        ..+++|+.|++++|. +. .+|..  .++|+.|++      ++|.++. +|.   .+++|+.|++++|.+++ +|...
T Consensus       176 l~~~~~~L~~L~Ls~N~-l~-~l~~~--~~~L~~L~L------~~N~l~~-l~~---~~~~L~~L~Ls~N~L~~-lp~~l  240 (622)
T 3g06_A          176 LPMLPSGLQELSVSDNQ-LA-SLPTL--PSELYKLWA------YNNRLTS-LPA---LPSGLKELIVSGNRLTS-LPVLP  240 (622)
T ss_dssp             CCCCCTTCCEEECCSSC-CS-CCCCC--CTTCCEEEC------CSSCCSS-CCC---CCTTCCEEECCSSCCSC-CCCCC
T ss_pred             CcccCCCCcEEECCCCC-CC-CCCCc--cchhhEEEC------cCCcccc-cCC---CCCCCCEEEccCCccCc-CCCCC
Confidence              223556666666665 33 22221  345555554      6666663 332   24789999999998885 33222


Q ss_pred             ----EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCccCCC
Q 040144          226 ----ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFP  288 (289)
Q Consensus       226 ----~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~p  288 (289)
                          .|++++|.++ .+|.    .+++|+.|++++|+++ .+|..+..+++|+.|++++|.+++.+|
T Consensus       241 ~~L~~L~Ls~N~L~-~lp~----~~~~L~~L~Ls~N~L~-~lp~~l~~l~~L~~L~L~~N~l~~~~~  301 (622)
T 3g06_A          241 SELKELMVSGNRLT-SLPM----LPSGLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLSERTL  301 (622)
T ss_dssp             TTCCEEECCSSCCS-CCCC----CCTTCCEEECCSSCCC-SCCGGGGGSCTTCEEECCSCCCCHHHH
T ss_pred             CcCcEEECCCCCCC-cCCc----ccccCcEEeCCCCCCC-cCCHHHhhccccCEEEecCCCCCCcCH
Confidence                8999999988 5666    5688999999999999 578889999999999999999986543

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

Probab=99.90  E-value=5.1e-23  Score=166.04  Aligned_cols=203  Identities=17%  Similarity=0.149  Sum_probs=147.1

Q ss_pred             cCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCC
Q 040144           47 LSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALS  126 (289)
Q Consensus        47 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~  126 (289)
                      ...+++|+.|+++++.+....    .+..+++|++|++++|.+...  ..+..+++|++|++++|.++ ...+..+..++
T Consensus        37 ~~~l~~L~~L~l~~~~i~~~~----~l~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~L~~n~l~-~~~~~~~~~l~  109 (272)
T 3rfs_A           37 QNELNSIDQIIANNSDIKSVQ----GIQYLPNVRYLALGGNKLHDI--SALKELTNLTYLILTGNQLQ-SLPNGVFDKLT  109 (272)
T ss_dssp             HHHHTTCCEEECTTSCCCCCT----TGGGCTTCCEEECTTSCCCCC--GGGTTCTTCCEEECTTSCCC-CCCTTTTTTCT
T ss_pred             cccccceeeeeeCCCCccccc----ccccCCCCcEEECCCCCCCCc--hhhcCCCCCCEEECCCCccC-ccChhHhcCCc
Confidence            455777888888888766543    456778888888888887764  36677888888888888876 44444566778


Q ss_pred             CCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCC
Q 040144          127 HLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFR  205 (289)
Q Consensus       127 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~  205 (289)
                      +|++|++++|.+.+ +++..++.+++|++|++++|. +.+..+..+. +++|+.|++      ++|.+++..+..++.++
T Consensus       110 ~L~~L~L~~n~l~~-~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l------~~n~l~~~~~~~~~~l~  181 (272)
T 3rfs_A          110 NLKELVLVENQLQS-LPDGVFDKLTNLTYLNLAHNQ-LQSLPKGVFDKLTNLTELDL------SYNQLQSLPEGVFDKLT  181 (272)
T ss_dssp             TCCEEECTTSCCCC-CCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEEC------CSSCCCCCCTTTTTTCT
T ss_pred             CCCEEECCCCcCCc-cCHHHhccCCCCCEEECCCCc-cCccCHHHhccCccCCEEEC------CCCCcCccCHHHhcCCc
Confidence            88888888888773 435567778888888888887 6644445556 778887776      77778777776777888


Q ss_pred             CCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCcc
Q 040144          206 NLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       206 ~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                      +|+.|++++|.+++                  ++...+.++++|+.|++++|++.+       .+++++.++++.|.++|
T Consensus       182 ~L~~L~L~~N~l~~------------------~~~~~~~~l~~L~~L~l~~N~~~~-------~~~~l~~l~~~~n~~~g  236 (272)
T 3rfs_A          182 QLKDLRLYQNQLKS------------------VPDGVFDRLTSLQYIWLHDNPWDC-------TCPGIRYLSEWINKHSG  236 (272)
T ss_dssp             TCCEEECCSSCCSC------------------CCTTTTTTCTTCCEEECCSSCBCC-------CTTTTHHHHHHHHHTGG
T ss_pred             cCCEEECCCCcCCc------------------cCHHHHhCCcCCCEEEccCCCccc-------cCcHHHHHHHHHHhCCC
Confidence            88888888877763                  222256778888888888887764       35567777888888877


Q ss_pred             CCCC
Q 040144          286 RFPL  289 (289)
Q Consensus       286 ~~p~  289 (289)
                      .+|.
T Consensus       237 ~ip~  240 (272)
T 3rfs_A          237 VVRN  240 (272)
T ss_dssp             GBBC
T ss_pred             cccC
Confidence            7763

>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=99.90  E-value=5.8e-24  Score=176.78  Aligned_cols=251  Identities=16%  Similarity=0.149  Sum_probs=184.3

Q ss_pred             CcEEEccCCcccccCCCccCCC--CCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            4 LRYLNFSKTRICGIIPQQLGNL--SNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         4 L~~L~l~~~~~~~~~~~~l~~l--~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      +++++++++.+.   +..+..+  ++++.++++++.+......  +..+++|++|++++|.+... .+...+..+++|++
T Consensus        49 ~~~l~l~~~~~~---~~~~~~~~~~~l~~L~l~~n~l~~~~~~--~~~~~~L~~L~L~~~~l~~~-~~~~~~~~~~~L~~  122 (336)
T 2ast_B           49 WQTLDLTGKNLH---PDVTGRLLSQGVIAFRCPRSFMDQPLAE--HFSPFRVQHMDLSNSVIEVS-TLHGILSQCSKLQN  122 (336)
T ss_dssp             SSEEECTTCBCC---HHHHHHHHHTTCSEEECTTCEECSCCCS--CCCCBCCCEEECTTCEECHH-HHHHHHTTBCCCSE
T ss_pred             heeeccccccCC---HHHHHhhhhccceEEEcCCccccccchh--hccCCCCCEEEccCCCcCHH-HHHHHHhhCCCCCE
Confidence            678888888765   3445556  7899999998876655433  45789999999999986543 12336788899999


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCC-CCCCcchhhHhhcCCCCCEEEccCc-eeeee-eChhhhcCCC-CccEEe
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHN-QFDNSFILSWVFALSHLPFLDLGFN-NFQGT-IDLEALGNLT-SINRLD  157 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~-~~~~~~~~~~~~~~~~L~~L~l~~n-~~~~~-~~~~~~~~~~-~L~~L~  157 (289)
                      |++++|.+....+..++.+++|++|++++| .+++...+..+..+++|++|++++| .+++. + +..+..++ +|++|+
T Consensus       123 L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~-~~~~~~l~~~L~~L~  201 (336)
T 2ast_B          123 LSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHV-QVAVAHVSETITQLN  201 (336)
T ss_dssp             EECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHH-HHHHHHSCTTCCEEE
T ss_pred             EeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHH-HHHHHhcccCCCEEE
Confidence            999999887666667788999999999998 6763346666788999999999999 87743 4 56678888 999999


Q ss_pred             CCCCC-ccc-CCCCcccc-ccCcceeeccccccccCCc-ccccccccccCCCCCcEEEccCCe-eeecCCCceEEEeecc
Q 040144          158 LSLNT-GLT-GRIPRSMA-LCNLKSINLQESLDMRSSS-IYGHLTDQLGQFRNLVTFNLVNNS-IVGFIPWSFELHIYDN  232 (289)
Q Consensus       158 l~~n~-~~~-~~~~~~~~-~~~L~~L~l~~~l~l~~~~-~~~~~~~~l~~~~~L~~L~l~~n~-~~~~~~~~~~L~l~~n  232 (289)
                      +++|. .+. ..++..+. +++|+.|++      ++|. +++..+..++.+++|+.|++++|. +..             
T Consensus       202 l~~~~~~~~~~~l~~~~~~~~~L~~L~l------~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~-------------  262 (336)
T 2ast_B          202 LSGYRKNLQKSDLSTLVRRCPNLVHLDL------SDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIP-------------  262 (336)
T ss_dssp             CCSCGGGSCHHHHHHHHHHCTTCSEEEC------TTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCG-------------
T ss_pred             eCCCcccCCHHHHHHHHhhCCCCCEEeC------CCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCH-------------
Confidence            99984 133 33455566 889998886      7787 666677788889999999999884 221             


Q ss_pred             eeeeeeccccccccccccEEEecCCeeeeccCCCcccc-ccccEEecccccCccCCCC
Q 040144          233 KLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPH-FQLVALGLHSCYIGSRFPL  289 (289)
Q Consensus       233 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~-~~L~~l~l~~n~~~~~~p~  289 (289)
                          .... .+.++++|+.|++++| +++   ..+..+ ..+..|++++|++++..|+
T Consensus       263 ----~~~~-~l~~~~~L~~L~l~~~-i~~---~~~~~l~~~l~~L~l~~n~l~~~~~~  311 (336)
T 2ast_B          263 ----ETLL-ELGEIPTLKTLQVFGI-VPD---GTLQLLKEALPHLQINCSHFTTIARP  311 (336)
T ss_dssp             ----GGGG-GGGGCTTCCEEECTTS-SCT---TCHHHHHHHSTTSEESCCCSCCTTCS
T ss_pred             ----HHHH-HHhcCCCCCEEeccCc-cCH---HHHHHHHhhCcceEEecccCccccCC
Confidence                1112 4667888888888888 332   234444 2467777888888876663

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

Probab=99.90  E-value=7.4e-22  Score=159.06  Aligned_cols=203  Identities=22%  Similarity=0.263  Sum_probs=170.4

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      +.+.++++++.++. +|..+.  +++++|++++|.+...+... +.++++|++|++++|.+...+.  ..+..+++|++|
T Consensus        17 ~~~~l~~~~~~l~~-ip~~~~--~~l~~L~l~~n~l~~~~~~~-~~~l~~L~~L~l~~n~l~~i~~--~~~~~l~~L~~L   90 (270)
T 2o6q_A           17 NKNSVDCSSKKLTA-IPSNIP--ADTKKLDLQSNKLSSLPSKA-FHRLTKLRLLYLNDNKLQTLPA--GIFKELKNLETL   90 (270)
T ss_dssp             TTTEEECTTSCCSS-CCSCCC--TTCSEEECCSSCCSCCCTTS-SSSCTTCCEEECCSSCCSCCCT--TTTSSCTTCCEE
T ss_pred             CCCEEEccCCCCCc-cCCCCC--CCCCEEECcCCCCCeeCHHH-hcCCCCCCEEECCCCccCeeCh--hhhcCCCCCCEE
Confidence            56789999999884 665443  68999999999877766433 7889999999999999887643  245789999999


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ++++|.+....+..+..+++|+.|++++|.++ ...+..+..+++|++|++++|.+. .+++..+..+++|++|++++|.
T Consensus        91 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~L~~n~  168 (270)
T 2o6q_A           91 WVTDNKLQALPIGVFDQLVNLAELRLDRNQLK-SLPPRVFDSLTKLTYLSLGYNELQ-SLPKGVFDKLTSLKELRLYNNQ  168 (270)
T ss_dssp             ECCSSCCCCCCTTTTTTCSSCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSC
T ss_pred             ECCCCcCCcCCHhHcccccCCCEEECCCCccC-eeCHHHhCcCcCCCEEECCCCcCC-ccCHhHccCCcccceeEecCCc
Confidence            99999999887778889999999999999997 555556788999999999999998 4536678999999999999998


Q ss_pred             cccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeec
Q 040144          163 GLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF  220 (289)
Q Consensus       163 ~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~  220 (289)
                       +....+..+. +++|+.|++      ++|.+++..+..+..+++|+.|++++|.+...
T Consensus       169 -l~~~~~~~~~~l~~L~~L~L------~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~  220 (270)
T 2o6q_A          169 -LKRVPEGAFDKLTELKTLKL------DNNQLKRVPEGAFDSLEKLKMLQLQENPWDCT  220 (270)
T ss_dssp             -CSCCCTTTTTTCTTCCEEEC------CSSCCSCCCTTTTTTCTTCCEEECCSSCBCCS
T ss_pred             -CcEeChhHhccCCCcCEEEC------CCCcCCcCCHHHhccccCCCEEEecCCCeeCC
Confidence             7755555677 899999987      88999987777899999999999999988743

>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=99.89  E-value=2.3e-22  Score=163.57  Aligned_cols=204  Identities=22%  Similarity=0.205  Sum_probs=156.0

Q ss_pred             ccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCC
Q 040144           21 QLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNF  100 (289)
Q Consensus        21 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~  100 (289)
                      .+.+++++++++++++.+..++..  +  .+.++.|++++|.+.....  ..+..+++|++|++++|.++....  ...+
T Consensus         5 ~~~~l~~l~~l~~~~~~l~~ip~~--~--~~~l~~L~L~~N~l~~~~~--~~~~~l~~L~~L~L~~n~l~~~~~--~~~l   76 (290)
T 1p9a_G            5 EVSKVASHLEVNCDKRNLTALPPD--L--PKDTTILHLSENLLYTFSL--ATLMPYTRLTQLNLDRAELTKLQV--DGTL   76 (290)
T ss_dssp             EEECSTTCCEEECTTSCCSSCCSC--C--CTTCCEEECTTSCCSEEEG--GGGTTCTTCCEEECTTSCCCEEEC--CSCC
T ss_pred             cccccCCccEEECCCCCCCcCCCC--C--CCCCCEEEcCCCcCCccCH--HHhhcCCCCCEEECCCCccCcccC--CCCC
Confidence            366788899999998877766532  2  3678899999998877632  267788899999999998877533  2678


Q ss_pred             CCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcce
Q 040144          101 SSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKS  179 (289)
Q Consensus       101 ~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~  179 (289)
                      ++|+.|++++|.++  .++..+..+++|++|++++|.++ .+++..|..+++|++|++++|. +....+..+. +++|+.
T Consensus        77 ~~L~~L~Ls~N~l~--~l~~~~~~l~~L~~L~l~~N~l~-~l~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~  152 (290)
T 1p9a_G           77 PVLGTLDLSHNQLQ--SLPLLGQTLPALTVLDVSFNRLT-SLPLGALRGLGELQELYLKGNE-LKTLPPGLLTPTPKLEK  152 (290)
T ss_dssp             TTCCEEECCSSCCS--SCCCCTTTCTTCCEEECCSSCCC-CCCSSTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCE
T ss_pred             CcCCEEECCCCcCC--cCchhhccCCCCCEEECCCCcCc-ccCHHHHcCCCCCCEEECCCCC-CCccChhhcccccCCCE
Confidence            88999999998885  55666677888999999999887 4435778888889999999888 6654445555 788887


Q ss_pred             eeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCee
Q 040144          180 INLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQL  259 (289)
Q Consensus       180 L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~  259 (289)
                      |++      ++|.++...+..+..+++|+.|++++|.++                  .+|. .+....+|+.+++.+|++
T Consensus       153 L~L------~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~------------------~ip~-~~~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          153 LSL------ANNNLTELPAGLLNGLENLDTLLLQENSLY------------------TIPK-GFFGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             EEC------TTSCCSCCCTTTTTTCTTCCEEECCSSCCC------------------CCCT-TTTTTCCCSEEECCSCCB
T ss_pred             EEC------CCCcCCccCHHHhcCcCCCCEEECCCCcCC------------------ccCh-hhcccccCCeEEeCCCCc
Confidence            776      788888766667778888888888888777                  4555 566677888888888887


Q ss_pred             ee
Q 040144          260 TL  261 (289)
Q Consensus       260 ~~  261 (289)
                      ..
T Consensus       208 ~C  209 (290)
T 1p9a_G          208 LC  209 (290)
T ss_dssp             CC
T ss_pred             cC
Confidence            63

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.89  E-value=6.1e-24  Score=178.42  Aligned_cols=258  Identities=17%  Similarity=0.130  Sum_probs=164.1

Q ss_pred             EEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCC---cccCCCC-cccEEeccCccccccc-h-hhHhhhcC-CC
Q 040144            6 YLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNF---LWLSGIS-LLEHLDLRYVNLSIAF-D-WLMVANKL-LS   78 (289)
Q Consensus         6 ~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~~l~-~L~~L~l~~~~~~~~~-~-~~~~~~~~-~~   78 (289)
                      .+.++.+.+++.+|..+...++|++|++++|.+...+..   ..+..++ +|++|++++|.+.... . +...+... ++
T Consensus         2 ~~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~   81 (362)
T 3goz_A            2 NYKLTLHPGSNPVEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPAN   81 (362)
T ss_dssp             EEECCCCTTCCHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTT
T ss_pred             ccccccccchHHHHHHHhCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCC
Confidence            356788888887777666666799999999886665431   2245677 8999999999887752 2 22233333 88


Q ss_pred             ccEEEccCCccCCCCcccc----cCC-CCCcEEeccCCCCCCcchhhHh----hc-CCCCCEEEccCceeeeeeC---hh
Q 040144           79 LVELRLSNCQLQHFSPLAT----VNF-SSLTMLDLSHNQFDNSFILSWV----FA-LSHLPFLDLGFNNFQGTID---LE  145 (289)
Q Consensus        79 L~~L~l~~~~l~~~~~~~l----~~~-~~L~~L~l~~~~~~~~~~~~~~----~~-~~~L~~L~l~~n~~~~~~~---~~  145 (289)
                      |++|++++|.++...+..+    ..+ ++|+.|++++|.++ ......+    .. ..+|++|++++|.+.+...   +.
T Consensus        82 L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~-~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~  160 (362)
T 3goz_A           82 VTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFS-SKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQ  160 (362)
T ss_dssp             CCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGG-GSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHH
T ss_pred             ccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCC-cHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHH
Confidence            9999999998887655533    334 78999999999886 3333222    23 3589999999998873220   33


Q ss_pred             hhcCCC-CccEEeCCCCCcccCCCCcccc-----c-cCcceeeccccccccCCccccc----ccccccC-CCCCcEEEcc
Q 040144          146 ALGNLT-SINRLDLSLNTGLTGRIPRSMA-----L-CNLKSINLQESLDMRSSSIYGH----LTDQLGQ-FRNLVTFNLV  213 (289)
Q Consensus       146 ~~~~~~-~L~~L~l~~n~~~~~~~~~~~~-----~-~~L~~L~l~~~l~l~~~~~~~~----~~~~l~~-~~~L~~L~l~  213 (289)
                      .+...+ +|++|++++|. +.+..+..++     . ++|++|++      ++|.++..    ++..+.. .++|+.|+++
T Consensus       161 ~l~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~L------s~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls  233 (362)
T 3goz_A          161 ILAAIPANVNSLNLRGNN-LASKNCAELAKFLASIPASVTSLDL------SANLLGLKSYAELAYIFSSIPNHVVSLNLC  233 (362)
T ss_dssp             HHHTSCTTCCEEECTTSC-GGGSCHHHHHHHHHTSCTTCCEEEC------TTSCGGGSCHHHHHHHHHHSCTTCCEEECC
T ss_pred             HHhcCCccccEeeecCCC-CchhhHHHHHHHHHhCCCCCCEEEC------CCCCCChhHHHHHHHHHhcCCCCceEEECc
Confidence            445554 89999999988 6655554433     3 57887776      78888753    3444544 4589999999


Q ss_pred             CCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeee-------ccCCCccccccccEEecccccCcc
Q 040144          214 NNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL-------EVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       214 ~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~-------~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                      +|.+++..+.             .+.. .+..+++|+.|++++|.+.+       .++..+..+++|+.|++++|++.+
T Consensus       234 ~N~l~~~~~~-------------~l~~-~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~l~~  298 (362)
T 3goz_A          234 LNCLHGPSLE-------------NLKL-LKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKEIHP  298 (362)
T ss_dssp             SSCCCCCCHH-------------HHHH-TTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSCBCCG
T ss_pred             CCCCCcHHHH-------------HHHH-HHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCCcCCC
Confidence            8888754331             1222 33445555555555555221       122344455555555555555543

>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=99.88  E-value=1.1e-24  Score=184.45  Aligned_cols=246  Identities=15%  Similarity=0.083  Sum_probs=151.6

Q ss_pred             CCCccCCCCCCcEEeCCCccccccCCC---cccCCCCcccEEeccCcccccc----c----hhhHhhhcCCCccEEEccC
Q 040144           18 IPQQLGNLSNLQFLDLSSKYLLYVDNF---LWLSGISLLEHLDLRYVNLSIA----F----DWLMVANKLLSLVELRLSN   86 (289)
Q Consensus        18 ~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~~l~~L~~L~l~~~~~~~~----~----~~~~~~~~~~~L~~L~l~~   86 (289)
                      ++..+..+++|++|++++|.+......   ..+..+++|++|++++|.+...    +    .+...+..+++|++|++++
T Consensus        24 l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~  103 (386)
T 2ca6_A           24 VFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSD  103 (386)
T ss_dssp             TSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCS
T ss_pred             HHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCC
Confidence            445566677888888888765443211   1145677888888877644321    1    1122346778888888888


Q ss_pred             CccCCC----CcccccCCCCCcEEeccCCCCCCcchhh----HhhcC---------CCCCEEEccCceeee-eeCh---h
Q 040144           87 CQLQHF----SPLATVNFSSLTMLDLSHNQFDNSFILS----WVFAL---------SHLPFLDLGFNNFQG-TIDL---E  145 (289)
Q Consensus        87 ~~l~~~----~~~~l~~~~~L~~L~l~~~~~~~~~~~~----~~~~~---------~~L~~L~l~~n~~~~-~~~~---~  145 (289)
                      |.+...    .+..+..+++|+.|++++|.++ ...+.    .+..+         ++|++|++++|.+.. .+ +   .
T Consensus       104 n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~-~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~-~~l~~  181 (386)
T 2ca6_A          104 NAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLG-PQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSM-KEWAK  181 (386)
T ss_dssp             CCCCTTTHHHHHHHHHHCTTCCEEECCSSCCH-HHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGH-HHHHH
T ss_pred             CcCCHHHHHHHHHHHHhCCCCCEEECcCCCCC-HHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHH-HHHHH
Confidence            877763    3345567788888888888775 22222    22233         778888888887752 22 2   3


Q ss_pred             hhcCCCCccEEeCCCCCcccC-----CCCcccc-ccCcceeeccccccccCCccc----ccccccccCCCCCcEEEccCC
Q 040144          146 ALGNLTSINRLDLSLNTGLTG-----RIPRSMA-LCNLKSINLQESLDMRSSSIY----GHLTDQLGQFRNLVTFNLVNN  215 (289)
Q Consensus       146 ~~~~~~~L~~L~l~~n~~~~~-----~~~~~~~-~~~L~~L~l~~~l~l~~~~~~----~~~~~~l~~~~~L~~L~l~~n  215 (289)
                      .+..+++|++|++++|. +..     ..+..+. +++|+.|++      ++|.++    ..++..+..+++|+.|++++|
T Consensus       182 ~l~~~~~L~~L~L~~n~-l~~~g~~~l~~~~l~~~~~L~~L~L------s~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n  254 (386)
T 2ca6_A          182 TFQSHRLLHTVKMVQNG-IRPEGIEHLLLEGLAYCQELKVLDL------QDNTFTHLGSSALAIALKSWPNLRELGLNDC  254 (386)
T ss_dssp             HHHHCTTCCEEECCSSC-CCHHHHHHHHHTTGGGCTTCCEEEC------CSSCCHHHHHHHHHHHGGGCTTCCEEECTTC
T ss_pred             HHHhCCCcCEEECcCCC-CCHhHHHHHHHHHhhcCCCccEEEC------cCCCCCcHHHHHHHHHHccCCCcCEEECCCC
Confidence            56677788888888887 542     1232555 777777775      777775    456667777888888888888


Q ss_pred             eeeecCCCceEEEeecceeeeeeccccc--cccccccEEEecCCeeee----ccCCCc-cccccccEEecccccCccC
Q 040144          216 SIVGFIPWSFELHIYDNKLNVTLFELHF--ANLIEMSWFRVGGNQLTL----EVKHDW-IPHFQLVALGLHSCYIGSR  286 (289)
Q Consensus       216 ~~~~~~~~~~~L~l~~n~~~~~~~~~~~--~~~~~L~~l~l~~n~~~~----~~~~~~-~~~~~L~~l~l~~n~~~~~  286 (289)
                      .+++....             .++. .+  +.+++|+.|++++|++++    .+|..+ .++++|+.|++++|++++.
T Consensus       255 ~i~~~~~~-------------~l~~-~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l~~~  318 (386)
T 2ca6_A          255 LLSARGAA-------------AVVD-AFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSEE  318 (386)
T ss_dssp             CCCHHHHH-------------HHHH-HHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCTT
T ss_pred             CCchhhHH-------------HHHH-HHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCcCCcc
Confidence            77643110             1233 33  236667777777776665    345544 4456677777777766543

>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=99.88  E-value=2.7e-21  Score=157.18  Aligned_cols=199  Identities=26%  Similarity=0.269  Sum_probs=164.2

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      +++++++++.++.++. +|..+.  +++++|++++|.+....... +..+++|++|++++|.+...+.    ...+++|+
T Consensus         9 l~~l~~l~~~~~~l~~-ip~~~~--~~l~~L~L~~N~l~~~~~~~-~~~l~~L~~L~L~~n~l~~~~~----~~~l~~L~   80 (290)
T 1p9a_G            9 VASHLEVNCDKRNLTA-LPPDLP--KDTTILHLSENLLYTFSLAT-LMPYTRLTQLNLDRAELTKLQV----DGTLPVLG   80 (290)
T ss_dssp             STTCCEEECTTSCCSS-CCSCCC--TTCCEEECTTSCCSEEEGGG-GTTCTTCCEEECTTSCCCEEEC----CSCCTTCC
T ss_pred             cCCccEEECCCCCCCc-CCCCCC--CCCCEEEcCCCcCCccCHHH-hhcCCCCCEEECCCCccCcccC----CCCCCcCC
Confidence            4688999999999884 665553  68999999999877665433 7889999999999999887654    26889999


Q ss_pred             EEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCC
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSL  160 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~  160 (289)
                      +|++++|.+... +..+..+++|+.|++++|.++ ...+..+..+++|++|++++|.+. .+++..|..+++|+.|++++
T Consensus        81 ~L~Ls~N~l~~l-~~~~~~l~~L~~L~l~~N~l~-~l~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~L~~  157 (290)
T 1p9a_G           81 TLDLSHNQLQSL-PLLGQTLPALTVLDVSFNRLT-SLPLGALRGLGELQELYLKGNELK-TLPPGLLTPTPKLEKLSLAN  157 (290)
T ss_dssp             EEECCSSCCSSC-CCCTTTCTTCCEEECCSSCCC-CCCSSTTTTCTTCCEEECTTSCCC-CCCTTTTTTCTTCCEEECTT
T ss_pred             EEECCCCcCCcC-chhhccCCCCCEEECCCCcCc-ccCHHHHcCCCCCCEEECCCCCCC-ccChhhcccccCCCEEECCC
Confidence            999999999865 556788999999999999997 444566888999999999999998 45467788999999999999


Q ss_pred             CCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeee
Q 040144          161 NTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       161 n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                      |. +....+..+. +++|+.|++      ++|.+. .+|..+...++|+.+++++|.+.
T Consensus       158 N~-l~~l~~~~~~~l~~L~~L~L------~~N~l~-~ip~~~~~~~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          158 NN-LTELPAGLLNGLENLDTLLL------QENSLY-TIPKGFFGSHLLPFAFLHGNPWL  208 (290)
T ss_dssp             SC-CSCCCTTTTTTCTTCCEEEC------CSSCCC-CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             Cc-CCccCHHHhcCcCCCCEEEC------CCCcCC-ccChhhcccccCCeEEeCCCCcc
Confidence            99 7644444556 899998886      889998 56666777889999999999886

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.88  E-value=7.3e-22  Score=162.29  Aligned_cols=220  Identities=14%  Similarity=0.067  Sum_probs=168.2

Q ss_pred             CcccEEeccCcccccc-chhhHhhhcCCCccEEEccCCccCCCCcccc--cCCCCCcEEeccCCCCCCcchh----hHhh
Q 040144           51 SLLEHLDLRYVNLSIA-FDWLMVANKLLSLVELRLSNCQLQHFSPLAT--VNFSSLTMLDLSHNQFDNSFIL----SWVF  123 (289)
Q Consensus        51 ~~L~~L~l~~~~~~~~-~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l--~~~~~L~~L~l~~~~~~~~~~~----~~~~  123 (289)
                      ..++.+.+.++.+... .........+++|++|++++|.+....+..+  ..+++|++|++++|.++ ...+    ..+.
T Consensus        64 ~~l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~-~~~~~~~~~~~~  142 (310)
T 4glp_A           64 LRVRRLTVGAAQVPAQLLVGALRVLAYSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWA-TGRSWLAELQQW  142 (310)
T ss_dssp             CCCCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCS-STTSSHHHHHTT
T ss_pred             cceeEEEEeCCcCCHHHHHHHHHhcccCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeeccccc-chhhhhHHHHhh
Confidence            3577888887766543 1111123345679999999999998877777  88999999999999987 3222    3345


Q ss_pred             cCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCC--C--Ccccc-ccCcceeeccccccccCCccccccc
Q 040144          124 ALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGR--I--PRSMA-LCNLKSINLQESLDMRSSSIYGHLT  198 (289)
Q Consensus       124 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~--~--~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~  198 (289)
                      .+++|++|++++|.+.+.. +..++.+++|++|++++|. +.+.  .  +..+. +++|++|++      ++|.++....
T Consensus       143 ~~~~L~~L~Ls~n~l~~~~-~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~~~~~l~~L~~L~L------s~N~l~~l~~  214 (310)
T 4glp_A          143 LKPGLKVLSIAQAHSPAFS-CEQVRAFPALTSLDLSDNP-GLGERGLMAALCPHKFPAIQNLAL------RNTGMETPTG  214 (310)
T ss_dssp             BCSCCCEEEEECCSSCCCC-TTSCCCCTTCCEEECCSCT-TCHHHHHHTTSCTTSSCCCCSCBC------CSSCCCCHHH
T ss_pred             hccCCCEEEeeCCCcchhh-HHHhccCCCCCEEECCCCC-CccchhhhHHHhhhcCCCCCEEEC------CCCCCCchHH
Confidence            7899999999999997443 7789999999999999998 5431  2  22234 788888876      8888863222


Q ss_pred             --c-cccCCCCCcEEEccCCeeeecCCCce----------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCC
Q 040144          199 --D-QLGQFRNLVTFNLVNNSIVGFIPWSF----------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKH  265 (289)
Q Consensus       199 --~-~l~~~~~L~~L~l~~n~~~~~~~~~~----------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~  265 (289)
                        . .++.+++|++|++++|.+++..|..+          .|++++|.++ .+|. .+.  ++|+.|++++|++++. |.
T Consensus       215 ~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~-~lp~-~~~--~~L~~L~Ls~N~l~~~-~~  289 (310)
T 4glp_A          215 VCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLE-QVPK-GLP--AKLRVLDLSSNRLNRA-PQ  289 (310)
T ss_dssp             HHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCC-SCCS-CCC--SCCSCEECCSCCCCSC-CC
T ss_pred             HHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCC-chhh-hhc--CCCCEEECCCCcCCCC-ch
Confidence              1 35788999999999999987754322          8999999999 7887 554  8999999999999963 43


Q ss_pred             CccccccccEEecccccCcc
Q 040144          266 DWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       266 ~~~~~~~L~~l~l~~n~~~~  285 (289)
                       +..+++|+.|++++|++++
T Consensus       290 -~~~l~~L~~L~L~~N~l~~  308 (310)
T 4glp_A          290 -PDELPEVDNLTLDGNPFLV  308 (310)
T ss_dssp             -TTSCCCCSCEECSSTTTSC
T ss_pred             -hhhCCCccEEECcCCCCCC
Confidence             6788999999999999975

>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=99.87  E-value=3e-23  Score=175.74  Aligned_cols=242  Identities=17%  Similarity=0.158  Sum_probs=182.2

Q ss_pred             CCCCcEEEccCCcccccCC----CccCCCCCCcEEeCCCccccccCC--C-c------ccCCCCcccEEeccCcccccc-
Q 040144            1 MGNLRYLNFSKTRICGIIP----QQLGNLSNLQFLDLSSKYLLYVDN--F-L------WLSGISLLEHLDLRYVNLSIA-   66 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~----~~l~~l~~L~~L~l~~~~~~~~~~--~-~------~~~~l~~L~~L~l~~~~~~~~-   66 (289)
                      +++|++|+|++|.+++..+    ..+..+++|++|++++|.......  . .      .+..+++|++|++++|.+... 
T Consensus        31 ~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~  110 (386)
T 2ca6_A           31 DDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTA  110 (386)
T ss_dssp             CSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTT
T ss_pred             CCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHHH
Confidence            4789999999999886543    447789999999999975432211  0 0      135789999999999998773 


Q ss_pred             -chhhHhhhcCCCccEEEccCCccCCCCccccc----CC---------CCCcEEeccCCCCCCcchh---hHhhcCCCCC
Q 040144           67 -FDWLMVANKLLSLVELRLSNCQLQHFSPLATV----NF---------SSLTMLDLSHNQFDNSFIL---SWVFALSHLP  129 (289)
Q Consensus        67 -~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~----~~---------~~L~~L~l~~~~~~~~~~~---~~~~~~~~L~  129 (289)
                       ..++..+..+++|++|++++|.++...+..+.    .+         ++|+.|++++|.+++...+   ..+..+++|+
T Consensus       111 ~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~  190 (386)
T 2ca6_A          111 QEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLH  190 (386)
T ss_dssp             HHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCC
T ss_pred             HHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcC
Confidence             12344778899999999999998654333333    33         8999999999999744555   3566889999


Q ss_pred             EEEccCceeeee----eChhhhcCCCCccEEeCCCCCccc----CCCCcccc-ccCcceeeccccccccCCccccc----
Q 040144          130 FLDLGFNNFQGT----IDLEALGNLTSINRLDLSLNTGLT----GRIPRSMA-LCNLKSINLQESLDMRSSSIYGH----  196 (289)
Q Consensus       130 ~L~l~~n~~~~~----~~~~~~~~~~~L~~L~l~~n~~~~----~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~----  196 (289)
                      +|++++|.+...    +.+..+..+++|+.|++++|. +.    ..+|..+. +++|+.|++      ++|.+++.    
T Consensus       191 ~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~-l~~~g~~~l~~~l~~~~~L~~L~L------~~n~i~~~~~~~  263 (386)
T 2ca6_A          191 TVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT-FTHLGSSALAIALKSWPNLRELGL------NDCLLSARGAAA  263 (386)
T ss_dssp             EEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSC-CHHHHHHHHHHHGGGCTTCCEEEC------TTCCCCHHHHHH
T ss_pred             EEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCC-CCcHHHHHHHHHHccCCCcCEEEC------CCCCCchhhHHH
Confidence            999999988721    213377889999999999998 64    45666777 889998886      88988765    


Q ss_pred             cccccc--CCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccc-cccccccEEEecCCeeeecc
Q 040144          197 LTDQLG--QFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHF-ANLIEMSWFRVGGNQLTLEV  263 (289)
Q Consensus       197 ~~~~l~--~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~-~~~~~L~~l~l~~n~~~~~~  263 (289)
                      ++..+.  .+++|+.|++++|.+++...             ..++. .+ .++++|+.|++++|++++..
T Consensus       264 l~~~l~~~~~~~L~~L~L~~n~i~~~g~-------------~~l~~-~l~~~l~~L~~L~l~~N~l~~~~  319 (386)
T 2ca6_A          264 VVDAFSKLENIGLQTLRLQYNEIELDAV-------------RTLKT-VIDEKMPDLLFLELNGNRFSEED  319 (386)
T ss_dssp             HHHHHHTCSSCCCCEEECCSSCCBHHHH-------------HHHHH-HHHHHCTTCCEEECTTSBSCTTS
T ss_pred             HHHHHhhccCCCeEEEECcCCcCCHHHH-------------HHHHH-HHHhcCCCceEEEccCCcCCcch
Confidence            455663  38999999999998884200             02555 44 56899999999999998654

>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=99.87  E-value=7.2e-21  Score=156.11  Aligned_cols=190  Identities=24%  Similarity=0.321  Sum_probs=152.8

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|++|++.+|.++. ++ .+..+++|++|++++|.+...+.   +..+++|++|++++|.+...+    .+..+++|++
T Consensus        41 ~~L~~L~l~~~~i~~-l~-~~~~l~~L~~L~L~~n~i~~~~~---~~~l~~L~~L~L~~n~l~~~~----~~~~l~~L~~  111 (308)
T 1h6u_A           41 DGITTLSAFGTGVTT-IE-GVQYLNNLIGLELKDNQITDLAP---LKNLTKITELELSGNPLKNVS----AIAGLQSIKT  111 (308)
T ss_dssp             HTCCEEECTTSCCCC-CT-TGGGCTTCCEEECCSSCCCCCGG---GTTCCSCCEEECCSCCCSCCG----GGTTCTTCCE
T ss_pred             CCcCEEEeeCCCccC-ch-hhhccCCCCEEEccCCcCCCChh---HccCCCCCEEEccCCcCCCch----hhcCCCCCCE
Confidence            578999999998874 44 58889999999999988776654   678899999999999877653    5778899999


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|.+....  .+..+++|+.|++++|.++ . .+. +..+++|++|++++|.+. .+ +. +..+++|+.|++++|
T Consensus       112 L~l~~n~l~~~~--~l~~l~~L~~L~l~~n~l~-~-~~~-l~~l~~L~~L~l~~n~l~-~~-~~-l~~l~~L~~L~l~~n  183 (308)
T 1h6u_A          112 LDLTSTQITDVT--PLAGLSNLQVLYLDLNQIT-N-ISP-LAGLTNLQYLSIGNAQVS-DL-TP-LANLSKLTTLKADDN  183 (308)
T ss_dssp             EECTTSCCCCCG--GGTTCTTCCEEECCSSCCC-C-CGG-GGGCTTCCEEECCSSCCC-CC-GG-GTTCTTCCEEECCSS
T ss_pred             EECCCCCCCCch--hhcCCCCCCEEECCCCccC-c-Ccc-ccCCCCccEEEccCCcCC-CC-hh-hcCCCCCCEEECCCC
Confidence            999999988753  3788899999999999886 2 333 778899999999999887 34 33 888899999999999


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeee
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVG  219 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~  219 (289)
                      . +.+ .+. +. +++|+.|++      ++|.+.+..+  +..+++|+.|++++|.+++
T Consensus       184 ~-l~~-~~~-l~~l~~L~~L~L------~~N~l~~~~~--l~~l~~L~~L~l~~N~i~~  231 (308)
T 1h6u_A          184 K-ISD-ISP-LASLPNLIEVHL------KNNQISDVSP--LANTSNLFIVTLTNQTITN  231 (308)
T ss_dssp             C-CCC-CGG-GGGCTTCCEEEC------TTSCCCBCGG--GTTCTTCCEEEEEEEEEEC
T ss_pred             c-cCc-Chh-hcCCCCCCEEEc------cCCccCcccc--ccCCCCCCEEEccCCeeec
Confidence            8 653 333 56 888888886      8888886553  7889999999999998874

>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=99.87  E-value=5.1e-21  Score=156.98  Aligned_cols=194  Identities=22%  Similarity=0.286  Sum_probs=145.7

Q ss_pred             cCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCC
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFS  101 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~  101 (289)
                      ..++++|++|++++|.+...+.   +..+++|++|++++|.+...+.    +..+++|++|++++|.+...  ..+..++
T Consensus        37 ~~~l~~L~~L~l~~~~i~~l~~---~~~l~~L~~L~L~~n~i~~~~~----~~~l~~L~~L~L~~n~l~~~--~~~~~l~  107 (308)
T 1h6u_A           37 QADLDGITTLSAFGTGVTTIEG---VQYLNNLIGLELKDNQITDLAP----LKNLTKITELELSGNPLKNV--SAIAGLQ  107 (308)
T ss_dssp             HHHHHTCCEEECTTSCCCCCTT---GGGCTTCCEEECCSSCCCCCGG----GTTCCSCCEEECCSCCCSCC--GGGTTCT
T ss_pred             HHHcCCcCEEEeeCCCccCchh---hhccCCCCEEEccCCcCCCChh----HccCCCCCEEEccCCcCCCc--hhhcCCC
Confidence            3457788888888887666542   6678888888888888776542    67788888888888887765  3577888


Q ss_pred             CCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCccee
Q 040144          102 SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSI  180 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L  180 (289)
                      +|+.|++++|.++ . ++ .+..+++|++|++++|.+.+ + + .++.+++|+.|++++|. +.+ .+. +. +++|+.|
T Consensus       108 ~L~~L~l~~n~l~-~-~~-~l~~l~~L~~L~l~~n~l~~-~-~-~l~~l~~L~~L~l~~n~-l~~-~~~-l~~l~~L~~L  178 (308)
T 1h6u_A          108 SIKTLDLTSTQIT-D-VT-PLAGLSNLQVLYLDLNQITN-I-S-PLAGLTNLQYLSIGNAQ-VSD-LTP-LANLSKLTTL  178 (308)
T ss_dssp             TCCEEECTTSCCC-C-CG-GGTTCTTCCEEECCSSCCCC-C-G-GGGGCTTCCEEECCSSC-CCC-CGG-GTTCTTCCEE
T ss_pred             CCCEEECCCCCCC-C-ch-hhcCCCCCCEEECCCCccCc-C-c-cccCCCCccEEEccCCc-CCC-Chh-hcCCCCCCEE
Confidence            8888888888886 2 33 36778888888888888873 3 2 27788888888888887 553 333 55 7888877


Q ss_pred             eccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeee
Q 040144          181 NLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT  260 (289)
Q Consensus       181 ~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~  260 (289)
                      ++      ++|.+++..+  +..+++|+.|++++|.+.                  .++.  +..+++|+.|++++|+++
T Consensus       179 ~l------~~n~l~~~~~--l~~l~~L~~L~L~~N~l~------------------~~~~--l~~l~~L~~L~l~~N~i~  230 (308)
T 1h6u_A          179 KA------DDNKISDISP--LASLPNLIEVHLKNNQIS------------------DVSP--LANTSNLFIVTLTNQTIT  230 (308)
T ss_dssp             EC------CSSCCCCCGG--GGGCTTCCEEECTTSCCC------------------BCGG--GTTCTTCCEEEEEEEEEE
T ss_pred             EC------CCCccCcChh--hcCCCCCCEEEccCCccC------------------cccc--ccCCCCCCEEEccCCeee
Confidence            76      7777775544  677888888888888776                  2332  678899999999999998


Q ss_pred             e
Q 040144          261 L  261 (289)
Q Consensus       261 ~  261 (289)
                      +
T Consensus       231 ~  231 (308)
T 1h6u_A          231 N  231 (308)
T ss_dssp             C
T ss_pred             c
Confidence            6

>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=99.86  E-value=3.8e-22  Score=165.81  Aligned_cols=236  Identities=20%  Similarity=0.170  Sum_probs=178.0

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++++.+++.++.+++..+. +..+++|++|++++|.+........+..+++|++|++++|.+...  .+..+..+++|++
T Consensus        70 ~~l~~L~l~~n~l~~~~~~-~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~--~~~~l~~~~~L~~  146 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAE-HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDP--IVNTLAKNSNLVR  146 (336)
T ss_dssp             TTCSEEECTTCEECSCCCS-CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHH--HHHHHTTCTTCSE
T ss_pred             ccceEEEcCCccccccchh-hccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHH--HHHHHhcCCCCCE
Confidence            6789999999999876555 678999999999998765432222367899999999999987654  2236778999999


Q ss_pred             EEccCC-ccCCC-CcccccCCCCCcEEeccCC-CCCCcchhhHhhcCC-CCCEEEccCc--eee-eeeChhhhcCCCCcc
Q 040144           82 LRLSNC-QLQHF-SPLATVNFSSLTMLDLSHN-QFDNSFILSWVFALS-HLPFLDLGFN--NFQ-GTIDLEALGNLTSIN  154 (289)
Q Consensus        82 L~l~~~-~l~~~-~~~~l~~~~~L~~L~l~~~-~~~~~~~~~~~~~~~-~L~~L~l~~n--~~~-~~~~~~~~~~~~~L~  154 (289)
                      |++++| .++.. .+..+..+++|++|++++| .+++..++..+..++ +|++|++++|  .++ +.+ +..+..+++|+
T Consensus       147 L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l-~~~~~~~~~L~  225 (336)
T 2ast_B          147 LNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDL-STLVRRCPNLV  225 (336)
T ss_dssp             EECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHH-HHHHHHCTTCS
T ss_pred             EECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHH-HHHHhhCCCCC
Confidence            999999 56642 3445678999999999999 887334677788899 9999999999  454 234 66778899999


Q ss_pred             EEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCc-ccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecc
Q 040144          155 RLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSS-IYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDN  232 (289)
Q Consensus       155 ~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~-~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n  232 (289)
                      +|++++|..+++..+..+. +++|+.|++      ++|. ++......++.+++|+.|++++| +...            
T Consensus       226 ~L~l~~~~~l~~~~~~~l~~l~~L~~L~l------~~~~~~~~~~~~~l~~~~~L~~L~l~~~-i~~~------------  286 (336)
T 2ast_B          226 HLDLSDSVMLKNDCFQEFFQLNYLQHLSL------SRCYDIIPETLLELGEIPTLKTLQVFGI-VPDG------------  286 (336)
T ss_dssp             EEECTTCTTCCGGGGGGGGGCTTCCEEEC------TTCTTCCGGGGGGGGGCTTCCEEECTTS-SCTT------------
T ss_pred             EEeCCCCCcCCHHHHHHHhCCCCCCEeeC------CCCCCCCHHHHHHHhcCCCCCEEeccCc-cCHH------------
Confidence            9999999834455666777 999999987      6663 33333346788999999999987 3311            


Q ss_pred             eeeeeecccccccc-ccccEEEecCCeeeeccCCCccc
Q 040144          233 KLNVTLFELHFANL-IEMSWFRVGGNQLTLEVKHDWIP  269 (289)
Q Consensus       233 ~~~~~~~~~~~~~~-~~L~~l~l~~n~~~~~~~~~~~~  269 (289)
                               .+..+ .++..|++++|++++..|..++.
T Consensus       287 ---------~~~~l~~~l~~L~l~~n~l~~~~~~~~~~  315 (336)
T 2ast_B          287 ---------TLQLLKEALPHLQINCSHFTTIARPTIGN  315 (336)
T ss_dssp             ---------CHHHHHHHSTTSEESCCCSCCTTCSSCSS
T ss_pred             ---------HHHHHHhhCcceEEecccCccccCCcccc
Confidence                     12222 34666678999999877776654

>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=99.85  E-value=3e-20  Score=165.18  Aligned_cols=227  Identities=19%  Similarity=0.144  Sum_probs=152.6

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|++|++++|.++. +|.   .+++|++|++++|.+..++.     .+++|++|++++|.+...+.      .+++|+.
T Consensus        61 ~~L~~L~L~~N~l~~-lp~---~l~~L~~L~Ls~N~l~~lp~-----~l~~L~~L~Ls~N~l~~l~~------~l~~L~~  125 (622)
T 3g06_A           61 AHITTLVIPDNNLTS-LPA---LPPELRTLEVSGNQLTSLPV-----LPPGLLELSIFSNPLTHLPA------LPSGLCK  125 (622)
T ss_dssp             TTCSEEEECSCCCSC-CCC---CCTTCCEEEECSCCCSCCCC-----CCTTCCEEEECSCCCCCCCC------CCTTCCE
T ss_pred             CCCcEEEecCCCCCC-CCC---cCCCCCEEEcCCCcCCcCCC-----CCCCCCEEECcCCcCCCCCC------CCCCcCE
Confidence            467777777777763 444   45677777777776554432     45666666666666555432      2344455


Q ss_pred             EEccCCccCCCCcccc-----------------cCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeCh
Q 040144           82 LRLSNCQLQHFSPLAT-----------------VNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDL  144 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l-----------------~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~  144 (289)
                      |++++|.++.+.. .+                 ..+++|+.|++++|.++  .++   ..+++|+.|++++|.+. .+ +
T Consensus       126 L~L~~N~l~~lp~-~l~~L~~L~Ls~N~l~~l~~~~~~L~~L~L~~N~l~--~l~---~~~~~L~~L~Ls~N~l~-~l-~  197 (622)
T 3g06_A          126 LWIFGNQLTSLPV-LPPGLQELSVSDNQLASLPALPSELCKLWAYNNQLT--SLP---MLPSGLQELSVSDNQLA-SL-P  197 (622)
T ss_dssp             EECCSSCCSCCCC-CCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCS--CCC---CCCTTCCEEECCSSCCS-CC-C
T ss_pred             EECCCCCCCcCCC-CCCCCCEEECcCCcCCCcCCccCCCCEEECCCCCCC--CCc---ccCCCCcEEECCCCCCC-CC-C
Confidence            5555544443221 10                 12244555555555553  222   23578999999999887 44 3


Q ss_pred             hhhcCCCCccEEeCCCCCcccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCc
Q 040144          145 EALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWS  224 (289)
Q Consensus       145 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~  224 (289)
                      .   ..++|+.|++++|. +. .+|..  +++|+.|++      ++|.+++ +|   ..+++|+.|++++|.+++ +|..
T Consensus       198 ~---~~~~L~~L~L~~N~-l~-~l~~~--~~~L~~L~L------s~N~L~~-lp---~~l~~L~~L~Ls~N~L~~-lp~~  259 (622)
T 3g06_A          198 T---LPSELYKLWAYNNR-LT-SLPAL--PSGLKELIV------SGNRLTS-LP---VLPSELKELMVSGNRLTS-LPML  259 (622)
T ss_dssp             C---CCTTCCEEECCSSC-CS-SCCCC--CTTCCEEEC------CSSCCSC-CC---CCCTTCCEEECCSSCCSC-CCCC
T ss_pred             C---ccchhhEEECcCCc-cc-ccCCC--CCCCCEEEc------cCCccCc-CC---CCCCcCcEEECCCCCCCc-CCcc
Confidence            3   34789999999998 55 44432  578888886      8888886 44   456899999999999984 4433


Q ss_pred             e----EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccc
Q 040144          225 F----ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHF  271 (289)
Q Consensus       225 ~----~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~  271 (289)
                      .    .|++++|.++ .+|. .+.++++|+.|++++|++.+..+..+..++
T Consensus       260 ~~~L~~L~Ls~N~L~-~lp~-~l~~l~~L~~L~L~~N~l~~~~~~~l~~L~  308 (622)
T 3g06_A          260 PSGLLSLSVYRNQLT-RLPE-SLIHLSSETTVNLEGNPLSERTLQALREIT  308 (622)
T ss_dssp             CTTCCEEECCSSCCC-SCCG-GGGGSCTTCEEECCSCCCCHHHHHHHHHHH
T ss_pred             cccCcEEeCCCCCCC-cCCH-HHhhccccCEEEecCCCCCCcCHHHHHhcc
Confidence            3    8999999999 7888 899999999999999999987766555443

>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=99.85  E-value=4.6e-20  Score=146.95  Aligned_cols=179  Identities=21%  Similarity=0.230  Sum_probs=125.9

Q ss_pred             cccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEE
Q 040144           52 LLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFL  131 (289)
Q Consensus        52 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L  131 (289)
                      ..++++++++.+...+.   .+  .+.++.|++++|.+....+..+..+++|++|++++|.++ ...+..+..+++|++|
T Consensus        15 ~~~~l~~~~~~l~~~p~---~~--~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L   88 (251)
T 3m19_A           15 GKKEVDCQGKSLDSVPS---GI--PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQ-TLSAGVFDDLTELGTL   88 (251)
T ss_dssp             GGTEEECTTCCCSSCCS---CC--CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCC-CCCTTTTTTCTTCCEE
T ss_pred             CCeEEecCCCCccccCC---CC--CCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCC-ccCHhHhccCCcCCEE
Confidence            46677777777766543   22  257788888888887777767777888888888888776 4445556677788888


Q ss_pred             EccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEE
Q 040144          132 DLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTF  210 (289)
Q Consensus       132 ~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L  210 (289)
                      ++++|.+. .+++..+..+++|++|++++|. +....+..+. +++|+.|++      ++|.+.+..+..+..+++|+.|
T Consensus        89 ~L~~n~l~-~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L------s~N~l~~~~~~~~~~l~~L~~L  160 (251)
T 3m19_A           89 GLANNQLA-SLPLGVFDHLTQLDKLYLGGNQ-LKSLPSGVFDRLTKLKELRL------NTNQLQSIPAGAFDKLTNLQTL  160 (251)
T ss_dssp             ECTTSCCC-CCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEEC------CSSCCCCCCTTTTTTCTTCCEE
T ss_pred             ECCCCccc-ccChhHhcccCCCCEEEcCCCc-CCCcChhHhccCCcccEEEC------cCCcCCccCHHHcCcCcCCCEE
Confidence            88888877 3435667778888888888887 6544444455 777777765      7777776666667777777777


Q ss_pred             EccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeec
Q 040144          211 NLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLE  262 (289)
Q Consensus       211 ~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  262 (289)
                      ++++|.++                  .++...+.++++|+.|++++|++...
T Consensus       161 ~L~~N~l~------------------~~~~~~~~~l~~L~~L~l~~N~~~c~  194 (251)
T 3m19_A          161 SLSTNQLQ------------------SVPHGAFDRLGKLQTITLFGNQFDCS  194 (251)
T ss_dssp             ECCSSCCS------------------CCCTTTTTTCTTCCEEECCSCCBCTT
T ss_pred             ECCCCcCC------------------ccCHHHHhCCCCCCEEEeeCCceeCC
Confidence            77777666                  22322566778888888888877653

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.84  E-value=8.6e-21  Score=155.89  Aligned_cols=219  Identities=21%  Similarity=0.155  Sum_probs=129.0

Q ss_pred             CcEEEccCCcccccCCC---ccCCCCCCcEEeCCCccccccCCCccc-CCCCcccEEeccCccccccch-hh-HhhhcCC
Q 040144            4 LRYLNFSKTRICGIIPQ---QLGNLSNLQFLDLSSKYLLYVDNFLWL-SGISLLEHLDLRYVNLSIAFD-WL-MVANKLL   77 (289)
Q Consensus         4 L~~L~l~~~~~~~~~~~---~l~~l~~L~~L~l~~~~~~~~~~~~~~-~~l~~L~~L~l~~~~~~~~~~-~~-~~~~~~~   77 (289)
                      ++.+.+.++.++.....   .+..+++|++|++++|.+....+...+ ..+++|++|++++|.+..... +. ..+..++
T Consensus        66 l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~  145 (310)
T 4glp_A           66 VRRLTVGAAQVPAQLLVGALRVLAYSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKP  145 (310)
T ss_dssp             CCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCS
T ss_pred             eeEEEEeCCcCCHHHHHHHHHhcccCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhcc
Confidence            45666666655421110   112245577777777765544433312 567777777777777665311 11 1334667


Q ss_pred             CccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcc--hh--hHhhcCCCCCEEEccCceeeeeeChh----hhcC
Q 040144           78 SLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSF--IL--SWVFALSHLPFLDLGFNNFQGTIDLE----ALGN  149 (289)
Q Consensus        78 ~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~--~~--~~~~~~~~L~~L~l~~n~~~~~~~~~----~~~~  149 (289)
                      +|++|++++|.+....+..++.+++|++|++++|.+. ..  .+  ..+..+++|++|++++|.++ .+ +.    .++.
T Consensus       146 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~-~~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~l-~~~~~~l~~~  222 (310)
T 4glp_A          146 GLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGL-GERGLMAALCPHKFPAIQNLALRNTGME-TP-TGVCAALAAA  222 (310)
T ss_dssp             CCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTC-HHHHHHTTSCTTSSCCCCSCBCCSSCCC-CH-HHHHHHHHHH
T ss_pred             CCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCc-cchhhhHHHhhhcCCCCCEEECCCCCCC-ch-HHHHHHHHhc
Confidence            7777777777777666666777777777777777654 21  11  11245667777777777775 22 22    2456


Q ss_pred             CCCccEEeCCCCCcccCCCCcccc-c---cCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeec-CCCc
Q 040144          150 LTSINRLDLSLNTGLTGRIPRSMA-L---CNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF-IPWS  224 (289)
Q Consensus       150 ~~~L~~L~l~~n~~~~~~~~~~~~-~---~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~-~~~~  224 (289)
                      +++|++|++++|. +.+..|..+. +   ++|++|++      ++|.++ .+|..+.  ++|+.|++++|.+++. .+..
T Consensus       223 l~~L~~L~Ls~N~-l~~~~p~~~~~~~~~~~L~~L~L------s~N~l~-~lp~~~~--~~L~~L~Ls~N~l~~~~~~~~  292 (310)
T 4glp_A          223 GVQPHSLDLSHNS-LRATVNPSAPRCMWSSALNSLNL------SFAGLE-QVPKGLP--AKLRVLDLSSNRLNRAPQPDE  292 (310)
T ss_dssp             TCCCSSEECTTSC-CCCCCCSCCSSCCCCTTCCCEEC------CSSCCC-SCCSCCC--SCCSCEECCSCCCCSCCCTTS
T ss_pred             CCCCCEEECCCCC-CCccchhhHHhccCcCcCCEEEC------CCCCCC-chhhhhc--CCCCEEECCCCcCCCCchhhh
Confidence            6777777777777 6655555555 4   46666664      677777 4444443  6777777777777652 2222


Q ss_pred             e----EEEeecceee
Q 040144          225 F----ELHIYDNKLN  235 (289)
Q Consensus       225 ~----~L~l~~n~~~  235 (289)
                      +    .|++++|.++
T Consensus       293 l~~L~~L~L~~N~l~  307 (310)
T 4glp_A          293 LPEVDNLTLDGNPFL  307 (310)
T ss_dssp             CCCCSCEECSSTTTS
T ss_pred             CCCccEEECcCCCCC
Confidence            2    6777777654

>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=99.84  E-value=2.6e-20  Score=147.29  Aligned_cols=177  Identities=15%  Similarity=0.159  Sum_probs=91.6

Q ss_pred             CCcEEeCCCccccccCCCcccCCCCcccEEeccCcc-ccccchhhHhhhcCCCccEEEccC-CccCCCCcccccCCCCCc
Q 040144           27 NLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN-LSIAFDWLMVANKLLSLVELRLSN-CQLQHFSPLATVNFSSLT  104 (289)
Q Consensus        27 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~~~~~~~~~~~~~~~~L~~L~l~~-~~l~~~~~~~l~~~~~L~  104 (289)
                      ++++|++++|.+..++... +.++++|++|++++|. +...+.  ..+..+++|++|++++ |.++...+..+..+++|+
T Consensus        32 ~l~~L~l~~n~l~~i~~~~-~~~l~~L~~L~l~~n~~l~~i~~--~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~  108 (239)
T 2xwt_C           32 STQTLKLIETHLRTIPSHA-FSNLPNISRIYVSIDVTLQQLES--HSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLK  108 (239)
T ss_dssp             TCCEEEEESCCCSEECTTT-TTTCTTCCEEEEECCSSCCEECT--TTEESCTTCCEEEEEEETTCCEECTTSEECCTTCC
T ss_pred             cccEEEEeCCcceEECHHH-ccCCCCCcEEeCCCCCCcceeCH--hHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCC
Confidence            5555666555544444322 4455556666666554 444321  1344555666666655 555555444555556666


Q ss_pred             EEeccCCCCCCcchhhHhhcCCCCC---EEEccCc-eeeeeeChhhhcCCCCcc-EEeCCCCCcccCCCCcccc-ccCcc
Q 040144          105 MLDLSHNQFDNSFILSWVFALSHLP---FLDLGFN-NFQGTIDLEALGNLTSIN-RLDLSLNTGLTGRIPRSMA-LCNLK  178 (289)
Q Consensus       105 ~L~l~~~~~~~~~~~~~~~~~~~L~---~L~l~~n-~~~~~~~~~~~~~~~~L~-~L~l~~n~~~~~~~~~~~~-~~~L~  178 (289)
                      .|++++|.++  .++. +..+++|+   +|++++| .+. .+++..|..+++|+ ++++++|. +. .+|.... .++|+
T Consensus       109 ~L~l~~n~l~--~lp~-~~~l~~L~~L~~L~l~~N~~l~-~i~~~~~~~l~~L~~~L~l~~n~-l~-~i~~~~~~~~~L~  182 (239)
T 2xwt_C          109 FLGIFNTGLK--MFPD-LTKVYSTDIFFILEITDNPYMT-SIPVNAFQGLCNETLTLKLYNNG-FT-SVQGYAFNGTKLD  182 (239)
T ss_dssp             EEEEEEECCC--SCCC-CTTCCBCCSEEEEEEESCTTCC-EECTTTTTTTBSSEEEEECCSCC-CC-EECTTTTTTCEEE
T ss_pred             EEeCCCCCCc--cccc-cccccccccccEEECCCCcchh-hcCcccccchhcceeEEEcCCCC-Cc-ccCHhhcCCCCCC
Confidence            6666655554  2332 44445555   6666665 554 33244455556666 66666555 33 3333322 44455


Q ss_pred             eeeccccccccCCc-ccccccccccCC-CCCcEEEccCCeee
Q 040144          179 SINLQESLDMRSSS-IYGHLTDQLGQF-RNLVTFNLVNNSIV  218 (289)
Q Consensus       179 ~L~l~~~l~l~~~~-~~~~~~~~l~~~-~~L~~L~l~~n~~~  218 (289)
                      .|++      ++|. ++...+..+..+ ++|+.|++++|.++
T Consensus       183 ~L~L------~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~  218 (239)
T 2xwt_C          183 AVYL------NKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVT  218 (239)
T ss_dssp             EEEC------TTCTTCCEECTTTTTTCSBCCSEEECTTCCCC
T ss_pred             EEEc------CCCCCcccCCHHHhhccccCCcEEECCCCccc
Confidence            4443      5553 554444555555 56666666666555

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.84  E-value=8.9e-22  Score=165.22  Aligned_cols=241  Identities=20%  Similarity=0.193  Sum_probs=175.4

Q ss_pred             CCCcEEEccCCcccccCC----CccCCCC-CCcEEeCCCccccccCCCcccCCC-----CcccEEeccCccccccc--hh
Q 040144            2 GNLRYLNFSKTRICGIIP----QQLGNLS-NLQFLDLSSKYLLYVDNFLWLSGI-----SLLEHLDLRYVNLSIAF--DW   69 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~----~~l~~l~-~L~~L~l~~~~~~~~~~~~~~~~l-----~~L~~L~l~~~~~~~~~--~~   69 (289)
                      ++|++|++++|.+++..+    ..+..++ +|++|++++|.+....... +..+     +.|++|++++|.+....  .+
T Consensus        22 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~-l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l  100 (362)
T 3goz_A           22 HGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDE-LVQILAAIPANVTSLNLSGNFLSYKSSDEL  100 (362)
T ss_dssp             TTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHH-HHHHHHTSCTTCCEEECCSSCGGGSCHHHH
T ss_pred             CCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHH-HHHHHhccCCCccEEECcCCcCChHHHHHH
Confidence            359999999999987666    6788898 9999999999876654322 3332     89999999999987652  22


Q ss_pred             hHhhhcC-CCccEEEccCCccCCCCccccc----C-CCCCcEEeccCCCCCCc---chhhHhhcCC-CCCEEEccCceee
Q 040144           70 LMVANKL-LSLVELRLSNCQLQHFSPLATV----N-FSSLTMLDLSHNQFDNS---FILSWVFALS-HLPFLDLGFNNFQ  139 (289)
Q Consensus        70 ~~~~~~~-~~L~~L~l~~~~l~~~~~~~l~----~-~~~L~~L~l~~~~~~~~---~~~~~~~~~~-~L~~L~l~~n~~~  139 (289)
                      ...+..+ ++|++|++++|.++...+..+.    . ..+|++|++++|.+++.   .++..+..++ +|++|++++|.++
T Consensus       101 ~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~  180 (362)
T 3goz_A          101 VKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLA  180 (362)
T ss_dssp             HHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGG
T ss_pred             HHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCc
Confidence            3345566 8999999999999887664443    3 36999999999998732   2233445555 9999999999987


Q ss_pred             eeeChh----hhcCC-CCccEEeCCCCCcccCC----CCcccc--ccCcceeeccccccccCCccccccc----ccccCC
Q 040144          140 GTIDLE----ALGNL-TSINRLDLSLNTGLTGR----IPRSMA--LCNLKSINLQESLDMRSSSIYGHLT----DQLGQF  204 (289)
Q Consensus       140 ~~~~~~----~~~~~-~~L~~L~l~~n~~~~~~----~~~~~~--~~~L~~L~l~~~l~l~~~~~~~~~~----~~l~~~  204 (289)
                      +.. +.    .+... ++|++|++++|. +.+.    ++..+.  .++|+.|++      ++|.+++..+    ..+..+
T Consensus       181 ~~~-~~~l~~~l~~~~~~L~~L~Ls~N~-i~~~~~~~l~~~l~~~~~~L~~L~L------s~N~l~~~~~~~l~~~~~~l  252 (362)
T 3goz_A          181 SKN-CAELAKFLASIPASVTSLDLSANL-LGLKSYAELAYIFSSIPNHVVSLNL------CLNCLHGPSLENLKLLKDSL  252 (362)
T ss_dssp             GSC-HHHHHHHHHTSCTTCCEEECTTSC-GGGSCHHHHHHHHHHSCTTCCEEEC------CSSCCCCCCHHHHHHTTTTT
T ss_pred             hhh-HHHHHHHHHhCCCCCCEEECCCCC-CChhHHHHHHHHHhcCCCCceEEEC------cCCCCCcHHHHHHHHHHhcC
Confidence            443 43    34445 599999999999 6653    333444  348998886      8899886544    345678


Q ss_pred             CCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeec
Q 040144          205 RNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLE  262 (289)
Q Consensus       205 ~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  262 (289)
                      ++|+.|++++|.+.+..+.         .+ ..++. .+.++++|+.|++++|++.+.
T Consensus       253 ~~L~~L~L~~n~l~~i~~~---------~~-~~l~~-~~~~l~~L~~LdL~~N~l~~~  299 (362)
T 3goz_A          253 KHLQTVYLDYDIVKNMSKE---------QC-KALGA-AFPNIQKIILVDKNGKEIHPS  299 (362)
T ss_dssp             TTCSEEEEEHHHHTTCCHH---------HH-HHHHT-TSTTCCEEEEECTTSCBCCGG
T ss_pred             CCccEEEeccCCccccCHH---------HH-HHHHH-HhccCCceEEEecCCCcCCCc
Confidence            9999999999985522111         11 13444 667788888999998888765

>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=99.84  E-value=1.6e-20  Score=148.57  Aligned_cols=197  Identities=17%  Similarity=0.153  Sum_probs=103.3

Q ss_pred             cccEEeccCccccccchhhHhhhcCCCccEEEccCCc-cCCCCcccccCCCCCcEEeccC-CCCCCcchhhHhhcCCCCC
Q 040144           52 LLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQ-LQHFSPLATVNFSSLTMLDLSH-NQFDNSFILSWVFALSHLP  129 (289)
Q Consensus        52 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-l~~~~~~~l~~~~~L~~L~l~~-~~~~~~~~~~~~~~~~~L~  129 (289)
                      .+++|++++|.+...+.  ..+..+++|++|++++|. ++.+.+..+..+++|+.|++++ |.++ ...+..+..+++|+
T Consensus        32 ~l~~L~l~~n~l~~i~~--~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~-~i~~~~f~~l~~L~  108 (239)
T 2xwt_C           32 STQTLKLIETHLRTIPS--HAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLT-YIDPDALKELPLLK  108 (239)
T ss_dssp             TCCEEEEESCCCSEECT--TTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCC-EECTTSEECCTTCC
T ss_pred             cccEEEEeCCcceEECH--HHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCee-EcCHHHhCCCCCCC
Confidence            45555555555554422  134455555555555554 5444444455555555555555 5554 22223344455555


Q ss_pred             EEEccCceeeeeeChhhhcCCCCcc---EEeCCCC-CcccCCCCcccc-ccCcc-eeeccccccccCCcccccccccccC
Q 040144          130 FLDLGFNNFQGTIDLEALGNLTSIN---RLDLSLN-TGLTGRIPRSMA-LCNLK-SINLQESLDMRSSSIYGHLTDQLGQ  203 (289)
Q Consensus       130 ~L~l~~n~~~~~~~~~~~~~~~~L~---~L~l~~n-~~~~~~~~~~~~-~~~L~-~L~l~~~l~l~~~~~~~~~~~~l~~  203 (289)
                      +|++++|.+.+ + +. +..+++|+   ++++++| . +....+..+. +++|+ .|++      ++|.++...+..+..
T Consensus       109 ~L~l~~n~l~~-l-p~-~~~l~~L~~L~~L~l~~N~~-l~~i~~~~~~~l~~L~~~L~l------~~n~l~~i~~~~~~~  178 (239)
T 2xwt_C          109 FLGIFNTGLKM-F-PD-LTKVYSTDIFFILEITDNPY-MTSIPVNAFQGLCNETLTLKL------YNNGFTSVQGYAFNG  178 (239)
T ss_dssp             EEEEEEECCCS-C-CC-CTTCCBCCSEEEEEEESCTT-CCEECTTTTTTTBSSEEEEEC------CSCCCCEECTTTTTT
T ss_pred             EEeCCCCCCcc-c-cc-cccccccccccEEECCCCcc-hhhcCcccccchhcceeEEEc------CCCCCcccCHhhcCC
Confidence            55555555542 3 22 44444444   5555555 3 3322222333 44454 4443      444444222222222


Q ss_pred             CCCCcEEEccCCeeeecCCCceEEEeecceeeeeecccccccc-ccccEEEecCCeeeeccCCCccccccccEEeccccc
Q 040144          204 FRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANL-IEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCY  282 (289)
Q Consensus       204 ~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~-~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~  282 (289)
                       ++|+.|++++|+                .++ .++...+.++ ++|+.|++++|++++ +|..  .+++|+.|+++++.
T Consensus       179 -~~L~~L~L~~n~----------------~l~-~i~~~~~~~l~~~L~~L~l~~N~l~~-l~~~--~~~~L~~L~l~~~~  237 (239)
T 2xwt_C          179 -TKLDAVYLNKNK----------------YLT-VIDKDAFGGVYSGPSLLDVSQTSVTA-LPSK--GLEHLKELIARNTW  237 (239)
T ss_dssp             -CEEEEEECTTCT----------------TCC-EECTTTTTTCSBCCSEEECTTCCCCC-CCCT--TCTTCSEEECTTC-
T ss_pred             -CCCCEEEcCCCC----------------Ccc-cCCHHHhhccccCCcEEECCCCcccc-CChh--HhccCceeeccCcc
Confidence             444444444442                244 4554477888 999999999999985 4443  56778888888763

>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=99.84  E-value=1.8e-22  Score=180.13  Aligned_cols=209  Identities=12%  Similarity=0.003  Sum_probs=119.7

Q ss_pred             hhcCCCccEEEccCCccCCCCc-ccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccC-----------ceeee
Q 040144           73 ANKLLSLVELRLSNCQLQHFSP-LATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGF-----------NNFQG  140 (289)
Q Consensus        73 ~~~~~~L~~L~l~~~~l~~~~~-~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~-----------n~~~~  140 (289)
                      +..+++|++|++++|.++.... ..+..+++|+.|++. +.+.+..++.....+++|++|++++           +.+++
T Consensus       289 ~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~-~~~~~~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~  367 (592)
T 3ogk_B          289 FPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETR-NVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQ  367 (592)
T ss_dssp             GGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEE-GGGHHHHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCH
T ss_pred             HhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEecc-CccCHHHHHHHHHhCCCCCEEEeecCccccccccccCccCH
Confidence            3445566666666665433211 123456666666665 3333233333344566666666662           23332


Q ss_pred             eeChhhhcCCCCccEEeCCCCCcccCCCCcccc--ccCcceeeccccccccCCccccc-----ccccccCCCCCcEEEcc
Q 040144          141 TIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA--LCNLKSINLQESLDMRSSSIYGH-----LTDQLGQFRNLVTFNLV  213 (289)
Q Consensus       141 ~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~--~~~L~~L~l~~~l~l~~~~~~~~-----~~~~l~~~~~L~~L~l~  213 (289)
                      .........+++|++|+++.+. +++..+..+.  +++|+.|+++..-  ..+.+++.     ++..+..+++|+.|+++
T Consensus       368 ~~~~~l~~~~~~L~~L~l~~~~-l~~~~~~~l~~~~~~L~~L~l~~~~--~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~  444 (592)
T 3ogk_B          368 RGLIALAQGCQELEYMAVYVSD-ITNESLESIGTYLKNLCDFRLVLLD--REERITDLPLDNGVRSLLIGCKKLRRFAFY  444 (592)
T ss_dssp             HHHHHHHHHCTTCSEEEEEESC-CCHHHHHHHHHHCCSCCEEEEEECS--CCSCCSSCCCHHHHHHHHHHCTTCCEEEEE
T ss_pred             HHHHHHHhhCccCeEEEeecCC-ccHHHHHHHHhhCCCCcEEEEeecC--CCccccCchHHHHHHHHHHhCCCCCEEEEe
Confidence            1102223346667777765555 4443333443  5667766652100  14445542     33345678889999886


Q ss_pred             CCe--eeec--------CCCceEEEeecceeeee-eccccccccccccEEEecCCeeeeccC-CCccccccccEEecccc
Q 040144          214 NNS--IVGF--------IPWSFELHIYDNKLNVT-LFELHFANLIEMSWFRVGGNQLTLEVK-HDWIPHFQLVALGLHSC  281 (289)
Q Consensus       214 ~n~--~~~~--------~~~~~~L~l~~n~~~~~-~~~~~~~~~~~L~~l~l~~n~~~~~~~-~~~~~~~~L~~l~l~~n  281 (289)
                      .|.  +++.        .+....|++++|.+++. ++. .+.++++|++|++++|++++... ..+..+++|+.|++++|
T Consensus       445 ~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~-~~~~~~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~ls~n  523 (592)
T 3ogk_B          445 LRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESDEGLME-FSRGCPNLQKLEMRGCCFSERAIAAAVTKLPSLRYLWVQGY  523 (592)
T ss_dssp             CCGGGCCHHHHHHHHHSCTTCCEEEECSCCSSHHHHHH-HHTCCTTCCEEEEESCCCBHHHHHHHHHHCSSCCEEEEESC
T ss_pred             cCCCCccHHHHHHHHHhCccceEeeccCCCCCHHHHHH-HHhcCcccCeeeccCCCCcHHHHHHHHHhcCccCeeECcCC
Confidence            543  4432        23333889999888753 333 56788999999999999875433 33457889999999999


Q ss_pred             cCccC
Q 040144          282 YIGSR  286 (289)
Q Consensus       282 ~~~~~  286 (289)
                      ++++.
T Consensus       524 ~it~~  528 (592)
T 3ogk_B          524 RASMT  528 (592)
T ss_dssp             BCCTT
T ss_pred             cCCHH
Confidence            98753

>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=99.83  E-value=1.2e-19  Score=144.47  Aligned_cols=180  Identities=25%  Similarity=0.249  Sum_probs=150.7

Q ss_pred             CCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcE
Q 040144           26 SNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTM  105 (289)
Q Consensus        26 ~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~  105 (289)
                      ...++++++++....++..  +  .+.+++|++++|.+.....  ..+..+++|++|++++|.+....+..+..+++|+.
T Consensus        14 ~~~~~l~~~~~~l~~~p~~--~--~~~l~~L~L~~n~l~~~~~--~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~   87 (251)
T 3m19_A           14 EGKKEVDCQGKSLDSVPSG--I--PADTEKLDLQSTGLATLSD--ATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGT   87 (251)
T ss_dssp             GGGTEEECTTCCCSSCCSC--C--CTTCCEEECTTSCCCCCCT--TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCE
T ss_pred             CCCeEEecCCCCccccCCC--C--CCCCCEEEccCCCcCccCH--hHhcCcccCCEEECCCCcCCccCHhHhccCCcCCE
Confidence            3567899998877766643  2  3689999999999888643  25788999999999999999988888899999999


Q ss_pred             EeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccc
Q 040144          106 LDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQE  184 (289)
Q Consensus       106 L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~  184 (289)
                      |++++|.++ ...+..+..+++|++|++++|.+. .+++..+..+++|++|++++|. +.+..+..+. +++|+.|++  
T Consensus        88 L~L~~n~l~-~~~~~~~~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L--  162 (251)
T 3m19_A           88 LGLANNQLA-SLPLGVFDHLTQLDKLYLGGNQLK-SLPSGVFDRLTKLKELRLNTNQ-LQSIPAGAFDKLTNLQTLSL--  162 (251)
T ss_dssp             EECTTSCCC-CCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEEC--
T ss_pred             EECCCCccc-ccChhHhcccCCCCEEEcCCCcCC-CcChhHhccCCcccEEECcCCc-CCccCHHHcCcCcCCCEEEC--
Confidence            999999997 545566788999999999999998 4536678899999999999998 7755555677 899999886  


Q ss_pred             cccccCCcccccccccccCCCCCcEEEccCCeeeec
Q 040144          185 SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF  220 (289)
Q Consensus       185 ~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~  220 (289)
                          ++|.+.+..+..+..+++|+.|++++|.+...
T Consensus       163 ----~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~  194 (251)
T 3m19_A          163 ----STNQLQSVPHGAFDRLGKLQTITLFGNQFDCS  194 (251)
T ss_dssp             ----CSSCCSCCCTTTTTTCTTCCEEECCSCCBCTT
T ss_pred             ----CCCcCCccCHHHHhCCCCCCEEEeeCCceeCC
Confidence                89999988888899999999999999998744

>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=99.83  E-value=4.9e-22  Score=177.36  Aligned_cols=105  Identities=17%  Similarity=0.173  Sum_probs=67.4

Q ss_pred             ccCcceeeccccccccCCcccccccccccC-CCCCcEEEcc----CCeeeec------------CCCceEEEeecc--ee
Q 040144          174 LCNLKSINLQESLDMRSSSIYGHLTDQLGQ-FRNLVTFNLV----NNSIVGF------------IPWSFELHIYDN--KL  234 (289)
Q Consensus       174 ~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~-~~~L~~L~l~----~n~~~~~------------~~~~~~L~l~~n--~~  234 (289)
                      +++|++|++      ..+.+++..+..++. +++|+.|+++    .|.+++.            .+....|++++|  .+
T Consensus       377 ~~~L~~L~l------~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~~~l  450 (592)
T 3ogk_B          377 CQELEYMAV------YVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGL  450 (592)
T ss_dssp             CTTCSEEEE------EESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCGGGC
T ss_pred             CccCeEEEe------ecCCccHHHHHHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCCCCc
Confidence            555665554      555565555445544 7788888885    4555542            222227777643  35


Q ss_pred             eeeecccccc-ccccccEEEecCCeeeecc-CCCccccccccEEecccccCcc
Q 040144          235 NVTLFELHFA-NLIEMSWFRVGGNQLTLEV-KHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       235 ~~~~~~~~~~-~~~~L~~l~l~~n~~~~~~-~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                      ++.... .+. .+++|++|++++|++++.. +..+..+++|+.|++++|.+++
T Consensus       451 ~~~~~~-~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~  502 (592)
T 3ogk_B          451 TDLGLS-YIGQYSPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSE  502 (592)
T ss_dssp             CHHHHH-HHHHSCTTCCEEEECSCCSSHHHHHHHHTCCTTCCEEEEESCCCBH
T ss_pred             cHHHHH-HHHHhCccceEeeccCCCCCHHHHHHHHhcCcccCeeeccCCCCcH
Confidence            544444 333 4788999999999987633 3345678999999999998764

>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=99.81  E-value=3.5e-19  Score=148.75  Aligned_cols=236  Identities=18%  Similarity=0.147  Sum_probs=161.2

Q ss_pred             cEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE-EE
Q 040144            5 RYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE-LR   83 (289)
Q Consensus         5 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~-L~   83 (289)
                      ++++.++++++ .+|..+  .+++++|++++|.+..++... +.++++|++|++++|.+....+ ...+.+++++++ +.
T Consensus        12 ~~v~C~~~~Lt-~iP~~l--~~~l~~L~Ls~N~i~~i~~~~-f~~l~~L~~L~Ls~N~i~~~i~-~~~f~~L~~l~~~l~   86 (350)
T 4ay9_X           12 RVFLCQESKVT-EIPSDL--PRNAIELRFVLTKLRVIQKGA-FSGFGDLEKIEISQNDVLEVIE-ADVFSNLPKLHEIRI   86 (350)
T ss_dssp             TEEEEESTTCC-SCCTTC--CTTCSEEEEESCCCSEECTTS-STTCTTCCEEEEECCTTCCEEC-TTSBCSCTTCCEEEE
T ss_pred             CEEEecCCCCC-ccCcCc--CCCCCEEEccCCcCCCcCHHH-HcCCCCCCEEECcCCCCCCccC-hhHhhcchhhhhhhc
Confidence            45677777777 466555  358999999999887776544 7889999999999998755421 125677877775 55


Q ss_pred             ccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCc-eeeeeeChhhhcCCC-CccEEeCCCC
Q 040144           84 LSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFN-NFQGTIDLEALGNLT-SINRLDLSLN  161 (289)
Q Consensus        84 l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n-~~~~~~~~~~~~~~~-~L~~L~l~~n  161 (289)
                      +..|.+..+.+..+..+++|++|++++|.++ ...+..+....++..+++.++ .+. .+++..|..+. .++.|++++|
T Consensus        87 ~~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~-~~~~~~~~~~~~l~~l~l~~~~~i~-~l~~~~f~~~~~~l~~L~L~~N  164 (350)
T 4ay9_X           87 EKANNLLYINPEAFQNLPNLQYLLISNTGIK-HLPDVHKIHSLQKVLLDIQDNINIH-TIERNSFVGLSFESVILWLNKN  164 (350)
T ss_dssp             EEETTCCEECTTSBCCCTTCCEEEEEEECCS-SCCCCTTCCBSSCEEEEEESCTTCC-EECTTSSTTSBSSCEEEECCSS
T ss_pred             ccCCcccccCchhhhhccccccccccccccc-cCCchhhcccchhhhhhhccccccc-cccccchhhcchhhhhhccccc
Confidence            6678888887888899999999999999886 333333344556778888664 444 55355666654 6889999999


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce----EEEeecceeee
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF----ELHIYDNKLNV  236 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~----~L~l~~n~~~~  236 (289)
                      . +. .++.... ..+|+++.+     ...|.++...+.+|+.+++|+.|++++|+++...+..+    .|.+.++.-..
T Consensus       165 ~-i~-~i~~~~f~~~~L~~l~l-----~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~~~~~L~~L~~l~~~~l~  237 (350)
T 4ay9_X          165 G-IQ-EIHNSAFNGTQLDELNL-----SDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYNLK  237 (350)
T ss_dssp             C-CC-EECTTSSTTEEEEEEEC-----TTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSSSCTTCCEEECTTCTTCC
T ss_pred             c-cc-CCChhhccccchhHHhh-----ccCCcccCCCHHHhccCcccchhhcCCCCcCccChhhhccchHhhhccCCCcC
Confidence            8 65 4555444 667777776     13466666666678999999999999999883322222    45444432222


Q ss_pred             eeccccccccccccEEEecC
Q 040144          237 TLFELHFANLIEMSWFRVGG  256 (289)
Q Consensus       237 ~~~~~~~~~~~~L~~l~l~~  256 (289)
                      .+|.  +.++++|+.+++.+
T Consensus       238 ~lP~--l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          238 KLPT--LEKLVALMEASLTY  255 (350)
T ss_dssp             CCCC--TTTCCSCCEEECSC
T ss_pred             cCCC--chhCcChhhCcCCC
Confidence            4553  55666666666654

>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=99.80  E-value=3.1e-21  Score=172.24  Aligned_cols=176  Identities=11%  Similarity=-0.002  Sum_probs=104.9

Q ss_pred             CCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCC------------------
Q 040144           99 NFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSL------------------  160 (289)
Q Consensus        99 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~------------------  160 (289)
                      .+++|+.|++++|.+++......+..+++|++|++.+| +...........+++|++|++.+                  
T Consensus       287 ~~~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~~-~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~  365 (594)
T 2p1m_B          287 VCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDY-IEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLV  365 (594)
T ss_dssp             HHTTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEGG-GHHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHHHHH
T ss_pred             hhCCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcCc-cCHHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHHHHH
Confidence            45788888888887763333444556778888888776 33111022223456666666622                  


Q ss_pred             ----------------CCcccCCCCcccc--ccCcceeecccccccc--C----Ccccc-----cccccccCCCCCcEEE
Q 040144          161 ----------------NTGLTGRIPRSMA--LCNLKSINLQESLDMR--S----SSIYG-----HLTDQLGQFRNLVTFN  211 (289)
Q Consensus       161 ----------------n~~~~~~~~~~~~--~~~L~~L~l~~~l~l~--~----~~~~~-----~~~~~l~~~~~L~~L~  211 (289)
                                      +. +++.....+.  +++|+.|++      +  +    +.++.     .++..+..+++|+.|+
T Consensus       366 ~l~~~~~~L~~L~~~~~~-l~~~~~~~l~~~~~~L~~L~L------~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~  438 (594)
T 2p1m_B          366 SVSMGCPKLESVLYFCRQ-MTNAALITIARNRPNMTRFRL------CIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLS  438 (594)
T ss_dssp             HHHHHCTTCCEEEEEESC-CCHHHHHHHHHHCTTCCEEEE------EESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEE
T ss_pred             HHHHhchhHHHHHHhcCC-cCHHHHHHHHhhCCCcceeEe------ecccCCCcccccCCchhhHHHHHHhhCCCccEEe
Confidence                            22 1111111121  445555544      3  1    23331     1222356678888888


Q ss_pred             ccCCeeeec--------CCCceEEEeecceeeeeeccccc-cccccccEEEecCCeeeeccCC-CccccccccEEecccc
Q 040144          212 LVNNSIVGF--------IPWSFELHIYDNKLNVTLFELHF-ANLIEMSWFRVGGNQLTLEVKH-DWIPHFQLVALGLHSC  281 (289)
Q Consensus       212 l~~n~~~~~--------~~~~~~L~l~~n~~~~~~~~~~~-~~~~~L~~l~l~~n~~~~~~~~-~~~~~~~L~~l~l~~n  281 (289)
                      +++ .+++.        .+....|++++|.+++.... .+ .++++|++|++++|++++.... .+..+++|+.|++++|
T Consensus       439 L~~-~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~-~l~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~l~~~  516 (594)
T 2p1m_B          439 LSG-LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMH-HVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSSC  516 (594)
T ss_dssp             CCS-SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHH-HHHHHCTTCCEEEEESCSCCHHHHHHTGGGGGGSSEEEEESS
T ss_pred             ecC-cccHHHHHHHHHhchhccEeeccCCCCcHHHHH-HHHhcCCCcCEEECcCCCCcHHHHHHHHHhCCCCCEEeeeCC
Confidence            866 44432        23333899999988754444 34 6789999999999998654443 3456889999999999


Q ss_pred             cCc
Q 040144          282 YIG  284 (289)
Q Consensus       282 ~~~  284 (289)
                      +++
T Consensus       517 ~~~  519 (594)
T 2p1m_B          517 SVS  519 (594)
T ss_dssp             CCB
T ss_pred             CCC
Confidence            875

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.79  E-value=9.1e-19  Score=135.43  Aligned_cols=159  Identities=21%  Similarity=0.183  Sum_probs=88.8

Q ss_pred             CCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEE
Q 040144           77 LSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRL  156 (289)
Q Consensus        77 ~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L  156 (289)
                      +++++|++++|.+....+..+..+++|++|++++|.++ ...+..+..+++|++|++++|.+. .+++..+..+++|++|
T Consensus        28 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L  105 (208)
T 2o6s_A           28 AQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQ-SLPNGVFNKLTSLTYLNLSTNQLQ-SLPNGVFDKLTQLKEL  105 (208)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEE
T ss_pred             CCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccC-ccChhhcCCCCCcCEEECCCCcCC-ccCHhHhcCccCCCEE
Confidence            35556666666555554444555666666666666554 222333455566666666666665 3324445566666666


Q ss_pred             eCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceee
Q 040144          157 DLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLN  235 (289)
Q Consensus       157 ~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~  235 (289)
                      ++++|. +....+..+. +++|+.|++      ++|.+++..+..+..+++|+.|++++|.+.+..|....|+++.|.++
T Consensus       106 ~L~~N~-l~~~~~~~~~~l~~L~~L~l------~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~~l~~L~~~~n~~~  178 (208)
T 2o6s_A          106 ALNTNQ-LQSLPDGVFDKLTQLKDLRL------YQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCPGIRYLSEWINKHS  178 (208)
T ss_dssp             ECCSSC-CCCCCTTTTTTCTTCCEEEC------CSSCCSCCCTTTTTTCTTCCEEECCSCCBCCCTTTTHHHHHHHHHCT
T ss_pred             EcCCCc-CcccCHhHhccCCcCCEEEC------CCCccceeCHHHhccCCCccEEEecCCCeecCCCCHHHHHHHHHhCC
Confidence            666666 4433333444 666666654      56666655555567777777777777766544443334444444444


Q ss_pred             eeeccccccc
Q 040144          236 VTLFELHFAN  245 (289)
Q Consensus       236 ~~~~~~~~~~  245 (289)
                      |.+|. +++.
T Consensus       179 g~ip~-~~~~  187 (208)
T 2o6s_A          179 GVVRN-SAGS  187 (208)
T ss_dssp             TTBBC-TTSS
T ss_pred             ceeec-cCcc
Confidence            44554 4443

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.79  E-value=1.7e-18  Score=133.89  Aligned_cols=174  Identities=18%  Similarity=0.142  Sum_probs=133.2

Q ss_pred             ccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeC
Q 040144           79 LVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL  158 (289)
Q Consensus        79 L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l  158 (289)
                      .+.++..++.++....   ...+++++|++++|.++ ...+..+..+++|++|++++|.+. .+++..+..+++|++|++
T Consensus         9 ~~~v~c~~~~l~~~p~---~~~~~l~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~L   83 (208)
T 2o6s_A            9 GTTVECYSQGRTSVPT---GIPAQTTYLDLETNSLK-SLPNGVFDELTSLTQLYLGGNKLQ-SLPNGVFNKLTSLTYLNL   83 (208)
T ss_dssp             TTEEECCSSCCSSCCS---CCCTTCSEEECCSSCCC-CCCTTTTTTCTTCSEEECCSSCCC-CCCTTTTTTCTTCCEEEC
T ss_pred             CCEEEecCCCccCCCC---CCCCCCcEEEcCCCccC-cCChhhhcccccCcEEECCCCccC-ccChhhcCCCCCcCEEEC
Confidence            4566777777666532   23468999999999987 444555678899999999999988 453667889999999999


Q ss_pred             CCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeee
Q 040144          159 SLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVT  237 (289)
Q Consensus       159 ~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~  237 (289)
                      ++|. +....+..+. +++|+.|++      ++|.+++..+..+..+++|+.|++++|.+++                  
T Consensus        84 s~n~-l~~~~~~~~~~l~~L~~L~L------~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~------------------  138 (208)
T 2o6s_A           84 STNQ-LQSLPNGVFDKLTQLKELAL------NTNQLQSLPDGVFDKLTQLKDLRLYQNQLKS------------------  138 (208)
T ss_dssp             CSSC-CCCCCTTTTTTCTTCCEEEC------CSSCCCCCCTTTTTTCTTCCEEECCSSCCSC------------------
T ss_pred             CCCc-CCccCHhHhcCccCCCEEEc------CCCcCcccCHhHhccCCcCCEEECCCCccce------------------
Confidence            9998 7655555566 889998886      8899988777778899999999999988872                  


Q ss_pred             eccccccccccccEEEecCCeeeeccCCCccccccccEEecccccCccCCCC
Q 040144          238 LFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGSRFPL  289 (289)
Q Consensus       238 ~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~p~  289 (289)
                      ++...+..+++|++|++++|++.+       .+++|+.|+++.|++++.+|+
T Consensus       139 ~~~~~~~~l~~L~~L~l~~N~~~~-------~~~~l~~L~~~~n~~~g~ip~  183 (208)
T 2o6s_A          139 VPDGVFDRLTSLQYIWLHDNPWDC-------TCPGIRYLSEWINKHSGVVRN  183 (208)
T ss_dssp             CCTTTTTTCTTCCEEECCSCCBCC-------CTTTTHHHHHHHHHCTTTBBC
T ss_pred             eCHHHhccCCCccEEEecCCCeec-------CCCCHHHHHHHHHhCCceeec
Confidence            333256677888888888886653       355677778888888777763

>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=99.78  E-value=3.1e-18  Score=139.21  Aligned_cols=170  Identities=22%  Similarity=0.289  Sum_probs=98.7

Q ss_pred             CCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCC
Q 040144           23 GNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSS  102 (289)
Q Consensus        23 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~  102 (289)
                      ..+++|++|++++|.+...+.   +..+++|++|++++|.+...+.    +..+++|++|++++|.+...  ..+..+++
T Consensus        43 ~~l~~L~~L~l~~~~i~~~~~---~~~l~~L~~L~L~~n~l~~~~~----l~~l~~L~~L~l~~n~l~~~--~~l~~l~~  113 (291)
T 1h6t_A           43 NELNSIDQIIANNSDIKSVQG---IQYLPNVTKLFLNGNKLTDIKP----LANLKNLGWLFLDENKVKDL--SSLKDLKK  113 (291)
T ss_dssp             HHHHTCCEEECTTSCCCCCTT---GGGCTTCCEEECCSSCCCCCGG----GTTCTTCCEEECCSSCCCCG--GGGTTCTT
T ss_pred             hhcCcccEEEccCCCcccChh---HhcCCCCCEEEccCCccCCCcc----cccCCCCCEEECCCCcCCCC--hhhccCCC
Confidence            345666666666665544432   4556666666666666655432    45666666666666666553  23566666


Q ss_pred             CcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceee
Q 040144          103 LTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSIN  181 (289)
Q Consensus       103 L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~  181 (289)
                      |+.|++++|.++ . + ..+..+++|++|++++|.+.+ +  ..++.+++|+.|++++|. +.+..+  +. +++|+.|+
T Consensus       114 L~~L~L~~n~i~-~-~-~~l~~l~~L~~L~l~~n~l~~-~--~~l~~l~~L~~L~L~~N~-l~~~~~--l~~l~~L~~L~  184 (291)
T 1h6t_A          114 LKSLSLEHNGIS-D-I-NGLVHLPQLESLYLGNNKITD-I--TVLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNLY  184 (291)
T ss_dssp             CCEEECTTSCCC-C-C-GGGGGCTTCCEEECCSSCCCC-C--GGGGGCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEE
T ss_pred             CCEEECCCCcCC-C-C-hhhcCCCCCCEEEccCCcCCc-c--hhhccCCCCCEEEccCCc-cccchh--hcCCCccCEEE
Confidence            666666666665 1 2 235556666666666666652 2  345566666666666666 443222  44 66666665


Q ss_pred             ccccccccCCcccccccccccCCCCCcEEEccCCeee
Q 040144          182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       182 l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                      +      ++|.+++. + .+..+++|+.|++++|.+.
T Consensus       185 L------~~N~i~~l-~-~l~~l~~L~~L~l~~n~i~  213 (291)
T 1h6t_A          185 L------SKNHISDL-R-ALAGLKNLDVLELFSQECL  213 (291)
T ss_dssp             C------CSSCCCBC-G-GGTTCTTCSEEEEEEEEEE
T ss_pred             C------CCCcCCCC-h-hhccCCCCCEEECcCCccc
Confidence            4      55655542 2 2556666666666666555

>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=99.77  E-value=5.2e-20  Score=164.30  Aligned_cols=165  Identities=15%  Similarity=0.061  Sum_probs=96.3

Q ss_pred             hhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccc------------
Q 040144          118 ILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQE------------  184 (289)
Q Consensus       118 ~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~------------  184 (289)
                      ++..+..+++|++|++++|.+.+......+..+++|++|++++|. ....++.... +++|++|++..            
T Consensus       281 l~~~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~~~-~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l  359 (594)
T 2p1m_B          281 LPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYI-EDAGLEVLASTCKDLRELRVFPSEPFVMEPNVAL  359 (594)
T ss_dssp             GGGGHHHHTTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEGGG-HHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCC
T ss_pred             HHHHHHhhCCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcCcc-CHHHHHHHHHhCCCCCEEEEecCcccccccCCCC
Confidence            333444678999999999997643213346688999999999873 2222222233 78888887611            


Q ss_pred             ----------------cccccCCccccccccccc-CCCCCcEEEcc--C----Ceeeec------------CCCceEEEe
Q 040144          185 ----------------SLDMRSSSIYGHLTDQLG-QFRNLVTFNLV--N----NSIVGF------------IPWSFELHI  229 (289)
Q Consensus       185 ----------------~l~l~~~~~~~~~~~~l~-~~~~L~~L~l~--~----n~~~~~------------~~~~~~L~l  229 (289)
                                      .+.+..+.+++.....+. .+++|+.|+++  +    +.+++.            .+....|++
T Consensus       360 ~~~~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L  439 (594)
T 2p1m_B          360 TEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSL  439 (594)
T ss_dssp             CHHHHHHHHHHCTTCCEEEEEESCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEEC
T ss_pred             CHHHHHHHHHhchhHHHHHHhcCCcCHHHHHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEee
Confidence                            111222333322222222 35666666666  2    233310            111225666


Q ss_pred             ecceeeeeeccccccc-cccccEEEecCCeeeeccCCCc-cccccccEEecccccCcc
Q 040144          230 YDNKLNVTLFELHFAN-LIEMSWFRVGGNQLTLEVKHDW-IPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       230 ~~n~~~~~~~~~~~~~-~~~L~~l~l~~n~~~~~~~~~~-~~~~~L~~l~l~~n~~~~  285 (289)
                      ++ .++..... .++. +++|++|++++|.+++..+..+ ..+++|+.|++++|.+++
T Consensus       440 ~~-~l~~~~~~-~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~~~  495 (594)
T 2p1m_B          440 SG-LLTDKVFE-YIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGD  495 (594)
T ss_dssp             CS-SCCHHHHH-HHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSCCH
T ss_pred             cC-cccHHHHH-HHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCCcH
Confidence            55 44433333 3443 7788888888888876555444 567889999999998753

>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=99.77  E-value=2.3e-18  Score=140.00  Aligned_cols=173  Identities=20%  Similarity=0.241  Sum_probs=132.0

Q ss_pred             cCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCC
Q 040144           47 LSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALS  126 (289)
Q Consensus        47 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~  126 (289)
                      ...+++|++|++++|.+...+    .+..+++|++|++++|.+....+  +..+++|+.|++++|.++  ..+ .+..++
T Consensus        42 ~~~l~~L~~L~l~~~~i~~~~----~~~~l~~L~~L~L~~n~l~~~~~--l~~l~~L~~L~l~~n~l~--~~~-~l~~l~  112 (291)
T 1h6t_A           42 QNELNSIDQIIANNSDIKSVQ----GIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENKVK--DLS-SLKDLK  112 (291)
T ss_dssp             HHHHHTCCEEECTTSCCCCCT----TGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCC--CGG-GGTTCT
T ss_pred             hhhcCcccEEEccCCCcccCh----hHhcCCCCCEEEccCCccCCCcc--cccCCCCCEEECCCCcCC--CCh-hhccCC
Confidence            345778888888888776653    46678888888888888877644  778888888888888886  233 477788


Q ss_pred             CCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCC
Q 040144          127 HLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFR  205 (289)
Q Consensus       127 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~  205 (289)
                      +|++|++++|.+.+ +  ..+..+++|+.|++++|. +.+.  ..+. +++|+.|++      ++|.+.+..+  +..++
T Consensus       113 ~L~~L~L~~n~i~~-~--~~l~~l~~L~~L~l~~n~-l~~~--~~l~~l~~L~~L~L------~~N~l~~~~~--l~~l~  178 (291)
T 1h6t_A          113 KLKSLSLEHNGISD-I--NGLVHLPQLESLYLGNNK-ITDI--TVLSRLTKLDTLSL------EDNQISDIVP--LAGLT  178 (291)
T ss_dssp             TCCEEECTTSCCCC-C--GGGGGCTTCCEEECCSSC-CCCC--GGGGGCTTCSEEEC------CSSCCCCCGG--GTTCT
T ss_pred             CCCEEECCCCcCCC-C--hhhcCCCCCCEEEccCCc-CCcc--hhhccCCCCCEEEc------cCCccccchh--hcCCC
Confidence            88888888888873 3  457788888888888887 5533  4555 788888776      7788876554  77888


Q ss_pred             CCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeec
Q 040144          206 NLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLE  262 (289)
Q Consensus       206 ~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  262 (289)
                      +|+.|++++|.++                  .++  .+..+++|+.|++++|++.+.
T Consensus       179 ~L~~L~L~~N~i~------------------~l~--~l~~l~~L~~L~l~~n~i~~~  215 (291)
T 1h6t_A          179 KLQNLYLSKNHIS------------------DLR--ALAGLKNLDVLELFSQECLNK  215 (291)
T ss_dssp             TCCEEECCSSCCC------------------BCG--GGTTCTTCSEEEEEEEEEECC
T ss_pred             ccCEEECCCCcCC------------------CCh--hhccCCCCCEEECcCCcccCC
Confidence            8888888888776                  333  377889999999999998864

>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=99.77  E-value=4.4e-18  Score=151.10  Aligned_cols=173  Identities=22%  Similarity=0.278  Sum_probs=131.7

Q ss_pred             cCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCC
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFS  101 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~  101 (289)
                      +..+++|++|++++|.+...+.   +..+++|+.|++++|.+...++    +..+++|+.|++++|.+...  ..+..++
T Consensus        39 ~~~L~~L~~L~l~~n~i~~l~~---l~~l~~L~~L~Ls~N~l~~~~~----l~~l~~L~~L~Ls~N~l~~l--~~l~~l~  109 (605)
T 1m9s_A           39 QNELNSIDQIIANNSDIKSVQG---IQYLPNVTKLFLNGNKLTDIKP----LTNLKNLGWLFLDENKIKDL--SSLKDLK  109 (605)
T ss_dssp             HHHHTTCCCCBCTTCCCCCCTT---GGGCTTCCEEECTTSCCCCCGG----GGGCTTCCEEECCSSCCCCC--TTSTTCT
T ss_pred             hhcCCCCCEEECcCCCCCCChH---HccCCCCCEEEeeCCCCCCChh----hccCCCCCEEECcCCCCCCC--hhhccCC
Confidence            4567788888888887666542   6778888889988888777542    67888888888888888764  3577888


Q ss_pred             CCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCccee
Q 040144          102 SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSI  180 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L  180 (289)
                      +|+.|++++|.+. . + ..+..+++|+.|++++|.+.+ +  ..++.+++|+.|++++|. +.+..|  +. +++|+.|
T Consensus       110 ~L~~L~Ls~N~l~-~-l-~~l~~l~~L~~L~Ls~N~l~~-l--~~l~~l~~L~~L~Ls~N~-l~~~~~--l~~l~~L~~L  180 (605)
T 1m9s_A          110 KLKSLSLEHNGIS-D-I-NGLVHLPQLESLYLGNNKITD-I--TVLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNL  180 (605)
T ss_dssp             TCCEEECTTSCCC-C-C-GGGGGCTTCSEEECCSSCCCC-C--GGGGSCTTCSEEECCSSC-CCCCGG--GTTCTTCCEE
T ss_pred             CCCEEEecCCCCC-C-C-ccccCCCccCEEECCCCccCC-c--hhhcccCCCCEEECcCCc-CCCchh--hccCCCCCEE
Confidence            8888888888886 2 2 346778888888888888873 3  467788888888888888 665444  56 8888888


Q ss_pred             eccccccccCCcccccccccccCCCCCcEEEccCCeeeec
Q 040144          181 NLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF  220 (289)
Q Consensus       181 ~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~  220 (289)
                      ++      ++|.+.+.  ..+..+++|+.|++++|.+.+.
T Consensus       181 ~L------s~N~i~~l--~~l~~l~~L~~L~L~~N~l~~~  212 (605)
T 1m9s_A          181 YL------SKNHISDL--RALAGLKNLDVLELFSQECLNK  212 (605)
T ss_dssp             EC------CSSCCCBC--GGGTTCTTCSEEECCSEEEECC
T ss_pred             EC------cCCCCCCC--hHHccCCCCCEEEccCCcCcCC
Confidence            76      77877754  3577888888888888887743

>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=99.76  E-value=8.2e-18  Score=140.43  Aligned_cols=231  Identities=13%  Similarity=0.045  Sum_probs=116.8

Q ss_pred             cEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCC-CCcccccCCCCCcE-E
Q 040144           29 QFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQH-FSPLATVNFSSLTM-L  106 (289)
Q Consensus        29 ~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~-~~~~~l~~~~~L~~-L  106 (289)
                      ++++.+++....++..  +  .+.+++|++++|.+...+.  ..+.++++|++|++++|.+.. +.+..|.+++++.. +
T Consensus        12 ~~v~C~~~~Lt~iP~~--l--~~~l~~L~Ls~N~i~~i~~--~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l   85 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSD--L--PRNAIELRFVLTKLRVIQK--GAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIR   85 (350)
T ss_dssp             TEEEEESTTCCSCCTT--C--CTTCSEEEEESCCCSEECT--TSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEE
T ss_pred             CEEEecCCCCCccCcC--c--CCCCCEEEccCCcCCCcCH--HHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhh
Confidence            3455555444444321  1  3456777777777666532  145667777777777776544 33345566666554 4


Q ss_pred             eccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-c-cCcceeeccc
Q 040144          107 DLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-L-CNLKSINLQE  184 (289)
Q Consensus       107 ~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~-~~L~~L~l~~  184 (289)
                      .+..|.++ ...+..+..+++|++|++++|.+. .+++..+....++..+++.++..+....+..+. + ..++.|++  
T Consensus        86 ~~~~N~l~-~l~~~~f~~l~~L~~L~l~~n~l~-~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L--  161 (350)
T 4ay9_X           86 IEKANNLL-YINPEAFQNLPNLQYLLISNTGIK-HLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWL--  161 (350)
T ss_dssp             EEEETTCC-EECTTSBCCCTTCCEEEEEEECCS-SCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEEC--
T ss_pred             cccCCccc-ccCchhhhhccccccccccccccc-cCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcc--
Confidence            44556665 333445566677777777777665 232334445555666666543312221222233 2 34555554  


Q ss_pred             cccccCCcccccccccccCCCCCcEEEccC-CeeeecCCCce--------EEEeecceeeeeeccccccccccccEEEec
Q 040144          185 SLDMRSSSIYGHLTDQLGQFRNLVTFNLVN-NSIVGFIPWSF--------ELHIYDNKLNVTLFELHFANLIEMSWFRVG  255 (289)
Q Consensus       185 ~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~-n~~~~~~~~~~--------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~  255 (289)
                          ++|.++...+.++ ...+|+.+++.+ |.++ .+|...        .|++++|+++ .+|..   .+.+|+.|.+.
T Consensus       162 ----~~N~i~~i~~~~f-~~~~L~~l~l~~~n~l~-~i~~~~f~~l~~L~~LdLs~N~l~-~lp~~---~~~~L~~L~~l  231 (350)
T 4ay9_X          162 ----NKNGIQEIHNSAF-NGTQLDELNLSDNNNLE-ELPNDVFHGASGPVILDISRTRIH-SLPSY---GLENLKKLRAR  231 (350)
T ss_dssp             ----CSSCCCEECTTSS-TTEEEEEEECTTCTTCC-CCCTTTTTTEECCSEEECTTSCCC-CCCSS---SCTTCCEEECT
T ss_pred             ----ccccccCCChhhc-cccchhHHhhccCCccc-CCCHHHhccCcccchhhcCCCCcC-ccChh---hhccchHhhhc
Confidence                6666664333333 345566666654 3333 333211        5566666555 34441   23344444443


Q ss_pred             CCeeeeccCCCccccccccEEeccc
Q 040144          256 GNQLTLEVKHDWIPHFQLVALGLHS  280 (289)
Q Consensus       256 ~n~~~~~~~~~~~~~~~L~~l~l~~  280 (289)
                      ++.-.+.+| .+..+++|+.+++++
T Consensus       232 ~~~~l~~lP-~l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          232 STYNLKKLP-TLEKLVALMEASLTY  255 (350)
T ss_dssp             TCTTCCCCC-CTTTCCSCCEEECSC
T ss_pred             cCCCcCcCC-CchhCcChhhCcCCC
Confidence            332222333 245555566655544

>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=99.75  E-value=4e-17  Score=144.94  Aligned_cols=169  Identities=22%  Similarity=0.249  Sum_probs=108.0

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      ++|+.|++.+|.+.. ++ .+..+++|++|++++|.+...+.   +..+++|+.|++++|.+...+    .+..+++|++
T Consensus        43 ~~L~~L~l~~n~i~~-l~-~l~~l~~L~~L~Ls~N~l~~~~~---l~~l~~L~~L~Ls~N~l~~l~----~l~~l~~L~~  113 (605)
T 1m9s_A           43 NSIDQIIANNSDIKS-VQ-GIQYLPNVTKLFLNGNKLTDIKP---LTNLKNLGWLFLDENKIKDLS----SLKDLKKLKS  113 (605)
T ss_dssp             TTCCCCBCTTCCCCC-CT-TGGGCTTCCEEECTTSCCCCCGG---GGGCTTCCEEECCSSCCCCCT----TSTTCTTCCE
T ss_pred             CCCCEEECcCCCCCC-Ch-HHccCCCCCEEEeeCCCCCCChh---hccCCCCCEEECcCCCCCCCh----hhccCCCCCE
Confidence            466677777777653 33 46677777777777766555443   556777777777777666533    4566677777


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|.+...  ..+..+++|+.|++++|.++ . + ..+..+++|+.|++++|.+.+.. +  +..+++|+.|++++|
T Consensus       114 L~Ls~N~l~~l--~~l~~l~~L~~L~Ls~N~l~-~-l-~~l~~l~~L~~L~Ls~N~l~~~~-~--l~~l~~L~~L~Ls~N  185 (605)
T 1m9s_A          114 LSLEHNGISDI--NGLVHLPQLESLYLGNNKIT-D-I-TVLSRLTKLDTLSLEDNQISDIV-P--LAGLTKLQNLYLSKN  185 (605)
T ss_dssp             EECTTSCCCCC--GGGGGCTTCSEEECCSSCCC-C-C-GGGGSCTTCSEEECCSSCCCCCG-G--GTTCTTCCEEECCSS
T ss_pred             EEecCCCCCCC--ccccCCCccCEEECCCCccC-C-c-hhhcccCCCCEEECcCCcCCCch-h--hccCCCCCEEECcCC
Confidence            77777776654  34666777777777777775 2 2 34566777777777777766322 2  667777777777777


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCccccc
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGH  196 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~  196 (289)
                      . +.+ ++ .+. +++|+.|++      ++|.+...
T Consensus       186 ~-i~~-l~-~l~~l~~L~~L~L------~~N~l~~~  212 (605)
T 1m9s_A          186 H-ISD-LR-ALAGLKNLDVLEL------FSQECLNK  212 (605)
T ss_dssp             C-CCB-CG-GGTTCTTCSEEEC------CSEEEECC
T ss_pred             C-CCC-Ch-HHccCCCCCEEEc------cCCcCcCC
Confidence            6 543 22 344 666776665      66666543

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.74  E-value=1.4e-17  Score=146.38  Aligned_cols=183  Identities=19%  Similarity=0.235  Sum_probs=95.7

Q ss_pred             cccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEE
Q 040144           52 LLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFL  131 (289)
Q Consensus        52 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L  131 (289)
                      +++.|+++++.+...+.   .+  .++|++|++++|.++.+.    ..+++|+.|++++|.++ . ++. +..  +|++|
T Consensus        60 ~L~~L~Ls~n~L~~lp~---~l--~~~L~~L~Ls~N~l~~ip----~~l~~L~~L~Ls~N~l~-~-ip~-l~~--~L~~L  125 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPD---NL--PPQITVLEITQNALISLP----ELPASLEYLDACDNRLS-T-LPE-LPA--SLKHL  125 (571)
T ss_dssp             TCSEEECCSSCCSCCCS---CC--CTTCSEEECCSSCCSCCC----CCCTTCCEEECCSSCCS-C-CCC-CCT--TCCEE
T ss_pred             CccEEEeCCCCCCccCH---hH--cCCCCEEECcCCCCcccc----cccCCCCEEEccCCCCC-C-cch-hhc--CCCEE
Confidence            55555555555544332   11  245556666665555332    23455566666665554 2 333 222  56666


Q ss_pred             EccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEE
Q 040144          132 DLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFN  211 (289)
Q Consensus       132 ~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~  211 (289)
                      ++++|.+++ + |.   .+++|+.|++++|. +.+ +|.  .+++|+.|++      ++|.+++ +|. +.  ++|+.|+
T Consensus       126 ~Ls~N~l~~-l-p~---~l~~L~~L~Ls~N~-l~~-lp~--~l~~L~~L~L------s~N~L~~-lp~-l~--~~L~~L~  186 (571)
T 3cvr_A          126 DVDNNQLTM-L-PE---LPALLEYINADNNQ-LTM-LPE--LPTSLEVLSV------RNNQLTF-LPE-LP--ESLEALD  186 (571)
T ss_dssp             ECCSSCCSC-C-CC---CCTTCCEEECCSSC-CSC-CCC--CCTTCCEEEC------CSSCCSC-CCC-CC--TTCCEEE
T ss_pred             ECCCCcCCC-C-CC---cCccccEEeCCCCc-cCc-CCC--cCCCcCEEEC------CCCCCCC-cch-hh--CCCCEEE
Confidence            666665553 3 22   34556666666555 432 333  1345555544      5555554 333 33  5566666


Q ss_pred             ccCCeeeecCCC----c-------eEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCcccc
Q 040144          212 LVNNSIVGFIPW----S-------FELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPH  270 (289)
Q Consensus       212 l~~n~~~~~~~~----~-------~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~  270 (289)
                      +++|.++ .+|.    .       ..|++++|.++ .+|. .+..+++|+.|++++|++++..|..+..+
T Consensus       187 Ls~N~L~-~lp~~~~~L~~~~~~L~~L~Ls~N~l~-~lp~-~l~~l~~L~~L~L~~N~l~~~~p~~l~~l  253 (571)
T 3cvr_A          187 VSTNLLE-SLPAVPVRNHHSEETEIFFRCRENRIT-HIPE-NILSLDPTCTIILEDNPLSSRIRESLSQQ  253 (571)
T ss_dssp             CCSSCCS-SCCCCC--------CCEEEECCSSCCC-CCCG-GGGGSCTTEEEECCSSSCCHHHHHHHHHH
T ss_pred             CcCCCCC-chhhHHHhhhcccccceEEecCCCcce-ecCH-HHhcCCCCCEEEeeCCcCCCcCHHHHHHh
Confidence            6666555 2221    1       13455555555 5666 56667777777777777777666655554

>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=99.74  E-value=1.1e-17  Score=128.15  Aligned_cols=152  Identities=14%  Similarity=0.171  Sum_probs=91.7

Q ss_pred             CCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCc
Q 040144           99 NFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNL  177 (289)
Q Consensus        99 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L  177 (289)
                      .+++++.|++++|.++  .++ .+..+++|++|++++|.+. .  ...+..+++|++|++++|. +.+..+..+. +++|
T Consensus        42 ~l~~L~~L~l~~n~i~--~l~-~l~~l~~L~~L~l~~n~~~-~--~~~l~~l~~L~~L~l~~n~-l~~~~~~~l~~l~~L  114 (197)
T 4ezg_A           42 QMNSLTYITLANINVT--DLT-GIEYAHNIKDLTINNIHAT-N--YNPISGLSNLERLRIMGKD-VTSDKIPNLSGLTSL  114 (197)
T ss_dssp             HHHTCCEEEEESSCCS--CCT-TGGGCTTCSEEEEESCCCS-C--CGGGTTCTTCCEEEEECTT-CBGGGSCCCTTCTTC
T ss_pred             hcCCccEEeccCCCcc--ChH-HHhcCCCCCEEEccCCCCC-c--chhhhcCCCCCEEEeECCc-cCcccChhhcCCCCC
Confidence            3445555555555553  222 3445556666666665443 1  2345556666666666665 4444455555 6666


Q ss_pred             ceeeccccccccCCcccccccccccCCCCCcEEEccCCe-eeecCCCceEEEeecceeeeeeccccccccccccEEEecC
Q 040144          178 KSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNS-IVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGG  256 (289)
Q Consensus       178 ~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~-~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~  256 (289)
                      +.|++      ++|.+++..+..++.+++|+.|++++|. ++                  .++  .+.++++|+.|++++
T Consensus       115 ~~L~L------s~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~------------------~~~--~l~~l~~L~~L~l~~  168 (197)
T 4ezg_A          115 TLLDI------SHSAHDDSILTKINTLPKVNSIDLSYNGAIT------------------DIM--PLKTLPELKSLNIQF  168 (197)
T ss_dssp             CEEEC------CSSBCBGGGHHHHTTCSSCCEEECCSCTBCC------------------CCG--GGGGCSSCCEEECTT
T ss_pred             CEEEe------cCCccCcHhHHHHhhCCCCCEEEccCCCCcc------------------ccH--hhcCCCCCCEEECCC
Confidence            66654      5666665566667777788888887776 44                  333  366778888888888


Q ss_pred             CeeeeccCCCccccccccEEecccccCcc
Q 040144          257 NQLTLEVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       257 n~~~~~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                      |++++ ++ .+..+++|+.|++++|+|.+
T Consensus       169 n~i~~-~~-~l~~l~~L~~L~l~~N~i~~  195 (197)
T 4ezg_A          169 DGVHD-YR-GIEDFPKLNQLYAFSQTIGG  195 (197)
T ss_dssp             BCCCC-CT-TGGGCSSCCEEEECBC----
T ss_pred             CCCcC-hH-HhccCCCCCEEEeeCcccCC
Confidence            88875 33 67777888888888887753

>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=99.73  E-value=2.7e-17  Score=128.13  Aligned_cols=154  Identities=20%  Similarity=0.201  Sum_probs=115.0

Q ss_pred             ccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchh-hHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEe
Q 040144           79 LVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL-SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLD  157 (289)
Q Consensus        79 L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~-~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~  157 (289)
                      .++++++++.++.++ ..+  ...++.|++++|.++ ...+ ..+..+++|++|++++|.+++ +++..|..+++|++|+
T Consensus        13 ~~~l~~s~n~l~~iP-~~~--~~~~~~L~L~~N~l~-~~~~~~~~~~l~~L~~L~L~~N~i~~-i~~~~~~~l~~L~~L~   87 (220)
T 2v70_A           13 GTTVDCSNQKLNKIP-EHI--PQYTAELRLNNNEFT-VLEATGIFKKLPQLRKINFSNNKITD-IEEGAFEGASGVNEIL   87 (220)
T ss_dssp             TTEEECCSSCCSSCC-SCC--CTTCSEEECCSSCCC-EECCCCCGGGCTTCCEEECCSSCCCE-ECTTTTTTCTTCCEEE
T ss_pred             CCEeEeCCCCcccCc-cCC--CCCCCEEEcCCCcCC-ccCchhhhccCCCCCEEECCCCcCCE-ECHHHhCCCCCCCEEE
Confidence            457888888887753 222  345688999988886 3322 346778889999999988874 4366788888899999


Q ss_pred             CCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeee
Q 040144          158 LSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNV  236 (289)
Q Consensus       158 l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~  236 (289)
                      +++|. +....+..+. +++|++|++      ++|.+.+..|..+..+++|+.|++++|.+++.                
T Consensus        88 Ls~N~-l~~~~~~~~~~l~~L~~L~L------s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~----------------  144 (220)
T 2v70_A           88 LTSNR-LENVQHKMFKGLESLKTLML------RSNRITCVGNDSFIGLSSVRLLSLYDNQITTV----------------  144 (220)
T ss_dssp             CCSSC-CCCCCGGGGTTCSSCCEEEC------TTSCCCCBCTTSSTTCTTCSEEECTTSCCCCB----------------
T ss_pred             CCCCc-cCccCHhHhcCCcCCCEEEC------CCCcCCeECHhHcCCCccCCEEECCCCcCCEE----------------
Confidence            98888 6655555666 888888776      78888877788888888888888888877722                


Q ss_pred             eeccccccccccccEEEecCCeeeec
Q 040144          237 TLFELHFANLIEMSWFRVGGNQLTLE  262 (289)
Q Consensus       237 ~~~~~~~~~~~~L~~l~l~~n~~~~~  262 (289)
                       .+. .+..+++|+.|++++|++...
T Consensus       145 -~~~-~~~~l~~L~~L~L~~N~l~c~  168 (220)
T 2v70_A          145 -APG-AFDTLHSLSTLNLLANPFNCN  168 (220)
T ss_dssp             -CTT-TTTTCTTCCEEECCSCCEECS
T ss_pred             -CHH-HhcCCCCCCEEEecCcCCcCC
Confidence             233 677888888888888888754

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.73  E-value=5.8e-17  Score=142.56  Aligned_cols=182  Identities=21%  Similarity=0.259  Sum_probs=142.2

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      +++.|++++|.+++ +|..+  .++|++|++++|.+..++     ..+++|++|++++|.+...+.    +..  +|++|
T Consensus        60 ~L~~L~Ls~n~L~~-lp~~l--~~~L~~L~Ls~N~l~~ip-----~~l~~L~~L~Ls~N~l~~ip~----l~~--~L~~L  125 (571)
T 3cvr_A           60 QFSELQLNRLNLSS-LPDNL--PPQITVLEITQNALISLP-----ELPASLEYLDACDNRLSTLPE----LPA--SLKHL  125 (571)
T ss_dssp             TCSEEECCSSCCSC-CCSCC--CTTCSEEECCSSCCSCCC-----CCCTTCCEEECCSSCCSCCCC----CCT--TCCEE
T ss_pred             CccEEEeCCCCCCc-cCHhH--cCCCCEEECcCCCCcccc-----cccCCCCEEEccCCCCCCcch----hhc--CCCEE
Confidence            78999999999986 66655  378999999999877555     247899999999998887543    222  89999


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ++++|.++.+..    .+++|+.|++++|.++  .++.   .+++|++|++++|.+++ + |. +.  ++|+.|++++|.
T Consensus       126 ~Ls~N~l~~lp~----~l~~L~~L~Ls~N~l~--~lp~---~l~~L~~L~Ls~N~L~~-l-p~-l~--~~L~~L~Ls~N~  191 (571)
T 3cvr_A          126 DVDNNQLTMLPE----LPALLEYINADNNQLT--MLPE---LPTSLEVLSVRNNQLTF-L-PE-LP--ESLEALDVSTNL  191 (571)
T ss_dssp             ECCSSCCSCCCC----CCTTCCEEECCSSCCS--CCCC---CCTTCCEEECCSSCCSC-C-CC-CC--TTCCEEECCSSC
T ss_pred             ECCCCcCCCCCC----cCccccEEeCCCCccC--cCCC---cCCCcCEEECCCCCCCC-c-ch-hh--CCCCEEECcCCC
Confidence            999999988533    6789999999999986  3554   57899999999999884 6 55 55  889999999998


Q ss_pred             cccCCCCccccccCc-------ceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCC
Q 040144          163 GLTGRIPRSMALCNL-------KSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPW  223 (289)
Q Consensus       163 ~~~~~~~~~~~~~~L-------~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~  223 (289)
                       ++ .+|. +. .+|       +.|++      ++|.++ .+|..+..+++|+.|++++|.+++.+|.
T Consensus       192 -L~-~lp~-~~-~~L~~~~~~L~~L~L------s~N~l~-~lp~~l~~l~~L~~L~L~~N~l~~~~p~  248 (571)
T 3cvr_A          192 -LE-SLPA-VP-VRNHHSEETEIFFRC------RENRIT-HIPENILSLDPTCTIILEDNPLSSRIRE  248 (571)
T ss_dssp             -CS-SCCC-CC---------CCEEEEC------CSSCCC-CCCGGGGGSCTTEEEECCSSSCCHHHHH
T ss_pred             -CC-chhh-HH-HhhhcccccceEEec------CCCcce-ecCHHHhcCCCCCEEEeeCCcCCCcCHH
Confidence             66 5665 33 245       76665      889888 4666777799999999999998865544

>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=99.73  E-value=7.2e-17  Score=125.75  Aligned_cols=151  Identities=21%  Similarity=0.219  Sum_probs=106.2

Q ss_pred             cEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEc
Q 040144           54 EHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDL  133 (289)
Q Consensus        54 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l  133 (289)
                      +.++++++.+...+.   .+  .+.+++|++++|.+....+..+..+++|+.|++++|.++ ...+..+..+++|++|++
T Consensus        14 ~~v~c~~~~l~~iP~---~l--~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~-~~~~~~~~~l~~L~~L~L   87 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPT---NL--PETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQIS-ELAPDAFQGLRSLNSLVL   87 (220)
T ss_dssp             TEEECTTSCCSSCCS---SC--CTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCC-EECTTTTTTCSSCCEEEC
T ss_pred             CEEEcCCCCcCcCCC---cc--CcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCC-CcCHHHhhCCcCCCEEEC
Confidence            445555555555432   11  146777777777777666666777777777777777776 444566777777888888


Q ss_pred             cCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEc
Q 040144          134 GFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNL  212 (289)
Q Consensus       134 ~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l  212 (289)
                      ++|.+. .+++..|..+++|++|++++|. +....|..+. +++|+.|++      ++|.+++..+..+..+++|+.|++
T Consensus        88 s~N~l~-~l~~~~f~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L------~~N~l~~~~~~~~~~l~~L~~L~L  159 (220)
T 2v9t_B           88 YGNKIT-ELPKSLFEGLFSLQLLLLNANK-INCLRVDAFQDLHNLNLLSL------YDNKLQTIAKGTFSPLRAIQTMHL  159 (220)
T ss_dssp             CSSCCC-CCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEEC------CSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcCC-ccCHhHccCCCCCCEEECCCCC-CCEeCHHHcCCCCCCCEEEC------CCCcCCEECHHHHhCCCCCCEEEe
Confidence            877776 4535556777788888888877 6655566666 777777775      777777777777888888899998


Q ss_pred             cCCeee
Q 040144          213 VNNSIV  218 (289)
Q Consensus       213 ~~n~~~  218 (289)
                      ++|.+.
T Consensus       160 ~~N~~~  165 (220)
T 2v9t_B          160 AQNPFI  165 (220)
T ss_dssp             CSSCEE
T ss_pred             CCCCcC
Confidence            888876

>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=99.72  E-value=4.2e-17  Score=124.91  Aligned_cols=154  Identities=20%  Similarity=0.284  Sum_probs=106.2

Q ss_pred             CCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCC
Q 040144           48 SGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSH  127 (289)
Q Consensus        48 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~  127 (289)
                      ..+++|++|+++++.+...+    .+..+++|++|++++|.+...  ..+..+++|+.|++++|.++ ...+..++.+++
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~----~l~~l~~L~~L~l~~n~~~~~--~~l~~l~~L~~L~l~~n~l~-~~~~~~l~~l~~  113 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLT----GIEYAHNIKDLTINNIHATNY--NPISGLSNLERLRIMGKDVT-SDKIPNLSGLTS  113 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCT----TGGGCTTCSEEEEESCCCSCC--GGGTTCTTCCEEEEECTTCB-GGGSCCCTTCTT
T ss_pred             hhcCCccEEeccCCCccChH----HHhcCCCCCEEEccCCCCCcc--hhhhcCCCCCEEEeECCccC-cccChhhcCCCC
Confidence            45667777888777766433    456677788888887765543  35667778888888887776 334555667778


Q ss_pred             CCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCC
Q 040144          128 LPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRN  206 (289)
Q Consensus       128 L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~  206 (289)
                      |++|++++|.+.+.. +..++.+++|++|++++|. ....+| .+. +++|+.|++      ++|.+++..  .+..+++
T Consensus       114 L~~L~Ls~n~i~~~~-~~~l~~l~~L~~L~L~~n~-~i~~~~-~l~~l~~L~~L~l------~~n~i~~~~--~l~~l~~  182 (197)
T 4ezg_A          114 LTLLDISHSAHDDSI-LTKINTLPKVNSIDLSYNG-AITDIM-PLKTLPELKSLNI------QFDGVHDYR--GIEDFPK  182 (197)
T ss_dssp             CCEEECCSSBCBGGG-HHHHTTCSSCCEEECCSCT-BCCCCG-GGGGCSSCCEEEC------TTBCCCCCT--TGGGCSS
T ss_pred             CCEEEecCCccCcHh-HHHHhhCCCCCEEEccCCC-CccccH-hhcCCCCCCEEEC------CCCCCcChH--HhccCCC
Confidence            888888888777544 6677778888888888876 344454 455 777777775      677776533  5778889


Q ss_pred             CcEEEccCCeeee
Q 040144          207 LVTFNLVNNSIVG  219 (289)
Q Consensus       207 L~~L~l~~n~~~~  219 (289)
                      |+.|++++|++++
T Consensus       183 L~~L~l~~N~i~~  195 (197)
T 4ezg_A          183 LNQLYAFSQTIGG  195 (197)
T ss_dssp             CCEEEECBC----
T ss_pred             CCEEEeeCcccCC
Confidence            9999999988764

>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=99.72  E-value=4.7e-17  Score=126.80  Aligned_cols=153  Identities=19%  Similarity=0.171  Sum_probs=117.4

Q ss_pred             ccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeC
Q 040144           79 LVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL  158 (289)
Q Consensus        79 L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l  158 (289)
                      -+.++..++.++.++. .+  .++++.|++++|.++ ...+..+..+++|++|++++|.+.+.. +..|..+++|++|++
T Consensus        13 ~~~v~c~~~~l~~iP~-~l--~~~l~~L~l~~n~i~-~i~~~~~~~l~~L~~L~Ls~N~i~~~~-~~~~~~l~~L~~L~L   87 (220)
T 2v9t_B           13 NNIVDCRGKGLTEIPT-NL--PETITEIRLEQNTIK-VIPPGAFSPYKKLRRIDLSNNQISELA-PDAFQGLRSLNSLVL   87 (220)
T ss_dssp             TTEEECTTSCCSSCCS-SC--CTTCCEEECCSSCCC-EECTTSSTTCTTCCEEECCSSCCCEEC-TTTTTTCSSCCEEEC
T ss_pred             CCEEEcCCCCcCcCCC-cc--CcCCCEEECCCCcCC-CcCHhHhhCCCCCCEEECCCCcCCCcC-HHHhhCCcCCCEEEC
Confidence            3577888888776633 22  268899999999887 444446778889999999999888544 778889999999999


Q ss_pred             CCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeee
Q 040144          159 SLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVT  237 (289)
Q Consensus       159 ~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~  237 (289)
                      ++|. +....+..+. +++|+.|++      ++|.+.+..+..+..+++|+.|++++|.++                  .
T Consensus        88 s~N~-l~~l~~~~f~~l~~L~~L~L------~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~------------------~  142 (220)
T 2v9t_B           88 YGNK-ITELPKSLFEGLFSLQLLLL------NANKINCLRVDAFQDLHNLNLLSLYDNKLQ------------------T  142 (220)
T ss_dssp             CSSC-CCCCCTTTTTTCTTCCEEEC------CSSCCCCCCTTTTTTCTTCCEEECCSSCCS------------------C
T ss_pred             CCCc-CCccCHhHccCCCCCCEEEC------CCCCCCEeCHHHcCCCCCCCEEECCCCcCC------------------E
Confidence            9998 6643334455 888888876      888888888888888888998888888777                  2


Q ss_pred             eccccccccccccEEEecCCeeee
Q 040144          238 LFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       238 ~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                      ++...+..+++|+.|++++|++..
T Consensus       143 ~~~~~~~~l~~L~~L~L~~N~~~c  166 (220)
T 2v9t_B          143 IAKGTFSPLRAIQTMHLAQNPFIC  166 (220)
T ss_dssp             CCTTTTTTCTTCCEEECCSSCEEC
T ss_pred             ECHHHHhCCCCCCEEEeCCCCcCC
Confidence            333367788899999999998864

>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=99.72  E-value=7.6e-17  Score=126.41  Aligned_cols=154  Identities=20%  Similarity=0.209  Sum_probs=106.2

Q ss_pred             CccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEe
Q 040144           78 SLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLD  157 (289)
Q Consensus        78 ~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~  157 (289)
                      ..+.++.+++.++.++. .+  .++++.|++++|.++ ...+..+..+++|++|++++|.+. .+++..|..+++|+.|+
T Consensus        20 s~~~v~c~~~~l~~ip~-~~--~~~L~~L~Ls~n~i~-~~~~~~~~~l~~L~~L~L~~N~l~-~i~~~~~~~l~~L~~L~   94 (229)
T 3e6j_A           20 SGTTVDCRSKRHASVPA-GI--PTNAQILYLHDNQIT-KLEPGVFDSLINLKELYLGSNQLG-ALPVGVFDSLTQLTVLD   94 (229)
T ss_dssp             ETTEEECTTSCCSSCCS-CC--CTTCSEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEE
T ss_pred             eCCEeEccCCCcCccCC-CC--CCCCCEEEcCCCccC-ccCHHHhhCccCCcEEECCCCCCC-CcChhhcccCCCcCEEE
Confidence            45667777777766533 22  377888888888876 444566677788888888888876 45355677788888888


Q ss_pred             CCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeee
Q 040144          158 LSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNV  236 (289)
Q Consensus       158 l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~  236 (289)
                      +++|. +....+..+. +++|+.|++      ++|.+. .+|..+..+++|+.|++++|.++                  
T Consensus        95 Ls~N~-l~~l~~~~~~~l~~L~~L~L------s~N~l~-~lp~~~~~l~~L~~L~L~~N~l~------------------  148 (229)
T 3e6j_A           95 LGTNQ-LTVLPSAVFDRLVHLKELFM------CCNKLT-ELPRGIERLTHLTHLALDQNQLK------------------  148 (229)
T ss_dssp             CCSSC-CCCCCTTTTTTCTTCCEEEC------CSSCCC-SCCTTGGGCTTCSEEECCSSCCC------------------
T ss_pred             CCCCc-CCccChhHhCcchhhCeEec------cCCccc-ccCcccccCCCCCEEECCCCcCC------------------
Confidence            88887 6644444455 777777765      677777 55666677777777777777666                  


Q ss_pred             eeccccccccccccEEEecCCeeeec
Q 040144          237 TLFELHFANLIEMSWFRVGGNQLTLE  262 (289)
Q Consensus       237 ~~~~~~~~~~~~L~~l~l~~n~~~~~  262 (289)
                      .++...+..+++|+.|++++|++...
T Consensus       149 ~~~~~~~~~l~~L~~L~l~~N~~~c~  174 (229)
T 3e6j_A          149 SIPHGAFDRLSSLTHAYLFGNPWDCE  174 (229)
T ss_dssp             CCCTTTTTTCTTCCEEECTTSCBCTT
T ss_pred             ccCHHHHhCCCCCCEEEeeCCCccCC
Confidence            23333566778888888888877653

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.72  E-value=7.5e-17  Score=135.13  Aligned_cols=174  Identities=26%  Similarity=0.222  Sum_probs=96.8

Q ss_pred             cEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhh-cCCCccEEEccCCccCCCCcccccCCCCCcEEe
Q 040144           29 QFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVAN-KLLSLVELRLSNCQLQHFSPLATVNFSSLTMLD  107 (289)
Q Consensus        29 ~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~  107 (289)
                      +.++++++.+..++..  +  ...++.|++++|.+...+.  ..+. .+++|++|++++|.+....+..+..+++|+.|+
T Consensus        21 ~~l~c~~~~l~~iP~~--~--~~~l~~L~Ls~N~l~~l~~--~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~   94 (361)
T 2xot_A           21 NILSCSKQQLPNVPQS--L--PSYTALLDLSHNNLSRLRA--EWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLD   94 (361)
T ss_dssp             TEEECCSSCCSSCCSS--C--CTTCSEEECCSSCCCEECT--TSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEE
T ss_pred             CEEEeCCCCcCccCcc--C--CCCCCEEECCCCCCCccCh--hhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEE
Confidence            4566666555544421  1  2346667777776665532  1233 566677777777766666555666666777777


Q ss_pred             ccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcc-c---c-ccCcceeec
Q 040144          108 LSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRS-M---A-LCNLKSINL  182 (289)
Q Consensus       108 l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~-~---~-~~~L~~L~l  182 (289)
                      +++|.++ ...+..+..+++|++|++++|.+.+.. +..|..+++|+.|++++|. +.. +|.. +   . +++|+.|++
T Consensus        95 Ls~N~l~-~~~~~~~~~l~~L~~L~L~~N~i~~~~-~~~~~~l~~L~~L~L~~N~-l~~-l~~~~~~~~~~l~~L~~L~L  170 (361)
T 2xot_A           95 LSSNHLH-TLDEFLFSDLQALEVLLLYNNHIVVVD-RNAFEDMAQLQKLYLSQNQ-ISR-FPVELIKDGNKLPKLMLLDL  170 (361)
T ss_dssp             CCSSCCC-EECTTTTTTCTTCCEEECCSSCCCEEC-TTTTTTCTTCCEEECCSSC-CCS-CCGGGTC----CTTCCEEEC
T ss_pred             CCCCcCC-cCCHHHhCCCcCCCEEECCCCcccEEC-HHHhCCcccCCEEECCCCc-CCe-eCHHHhcCcccCCcCCEEEC
Confidence            7766665 333334556666777777666666332 5566666666677766666 442 3322 2   2 444554443


Q ss_pred             cccccccCCcccccccccccCCCC--CcEEEccCCeee
Q 040144          183 QESLDMRSSSIYGHLTDQLGQFRN--LVTFNLVNNSIV  218 (289)
Q Consensus       183 ~~~l~l~~~~~~~~~~~~l~~~~~--L~~L~l~~n~~~  218 (289)
                            ++|.+....+..+..++.  ++.|++++|.+.
T Consensus       171 ------~~N~l~~l~~~~~~~l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          171 ------SSNKLKKLPLTDLQKLPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             ------CSSCCCCCCHHHHHHSCHHHHTTEECCSSCEE
T ss_pred             ------CCCCCCccCHHHhhhccHhhcceEEecCCCcc
Confidence                  555555444444444443  244555555444

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.72  E-value=3.5e-17  Score=137.14  Aligned_cols=176  Identities=19%  Similarity=0.193  Sum_probs=123.1

Q ss_pred             cEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCccccc-CCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEE
Q 040144           54 EHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATV-NFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLD  132 (289)
Q Consensus        54 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~-~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~  132 (289)
                      +.++++++.+...+.   .+  .+.++.|++++|.++...+..+. .+++|+.|++++|.++ ...+..+..+++|++|+
T Consensus        21 ~~l~c~~~~l~~iP~---~~--~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~-~i~~~~~~~l~~L~~L~   94 (361)
T 2xot_A           21 NILSCSKQQLPNVPQ---SL--PSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLN-FISSEAFVPVPNLRYLD   94 (361)
T ss_dssp             TEEECCSSCCSSCCS---SC--CTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCC-EECTTTTTTCTTCCEEE
T ss_pred             CEEEeCCCCcCccCc---cC--CCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCC-ccChhhccCCCCCCEEE
Confidence            567777777766543   22  23578888888888877666666 7888888888888886 44445577788888888


Q ss_pred             ccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccc---cCCCCCc
Q 040144          133 LGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQL---GQFRNLV  208 (289)
Q Consensus       133 l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l---~~~~~L~  208 (289)
                      +++|.+. .+++..|..+++|++|++++|. +....+..+. +++|+.|++      ++|.++...+..+   ..+++|+
T Consensus        95 Ls~N~l~-~~~~~~~~~l~~L~~L~L~~N~-i~~~~~~~~~~l~~L~~L~L------~~N~l~~l~~~~~~~~~~l~~L~  166 (361)
T 2xot_A           95 LSSNHLH-TLDEFLFSDLQALEVLLLYNNH-IVVVDRNAFEDMAQLQKLYL------SQNQISRFPVELIKDGNKLPKLM  166 (361)
T ss_dssp             CCSSCCC-EECTTTTTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEEC------CSSCCCSCCGGGTC----CTTCC
T ss_pred             CCCCcCC-cCCHHHhCCCcCCCEEECCCCc-ccEECHHHhCCcccCCEEEC------CCCcCCeeCHHHhcCcccCCcCC
Confidence            8888877 4435677888888888888887 6655566666 777777775      7777776555545   4577778


Q ss_pred             EEEccCCeeeecCCCceEEEeecceeeeeecccccccccc--ccEEEecCCeeee
Q 040144          209 TFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIE--MSWFRVGGNQLTL  261 (289)
Q Consensus       209 ~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~--L~~l~l~~n~~~~  261 (289)
                      .|++++|.++                  .++...+..+++  ++.|++.+|++.-
T Consensus       167 ~L~L~~N~l~------------------~l~~~~~~~l~~~~l~~l~l~~N~~~C  203 (361)
T 2xot_A          167 LLDLSSNKLK------------------KLPLTDLQKLPAWVKNGLYLHNNPLEC  203 (361)
T ss_dssp             EEECCSSCCC------------------CCCHHHHHHSCHHHHTTEECCSSCEEC
T ss_pred             EEECCCCCCC------------------ccCHHHhhhccHhhcceEEecCCCccC
Confidence            8877777766                  334335556665  4778888888764

>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=99.72  E-value=1.6e-16  Score=123.71  Aligned_cols=153  Identities=18%  Similarity=0.165  Sum_probs=103.7

Q ss_pred             cEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCc-ccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEE
Q 040144           54 EHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSP-LATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLD  132 (289)
Q Consensus        54 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~-~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~  132 (289)
                      ++++++++.+...+.   .+  ...+++|++++|.++...+ ..+..+++|+.|++++|.++ ...+..+..+++|++|+
T Consensus        14 ~~l~~s~n~l~~iP~---~~--~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~-~i~~~~~~~l~~L~~L~   87 (220)
T 2v70_A           14 TTVDCSNQKLNKIPE---HI--PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKIT-DIEEGAFEGASGVNEIL   87 (220)
T ss_dssp             TEEECCSSCCSSCCS---CC--CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCC-EECTTTTTTCTTCCEEE
T ss_pred             CEeEeCCCCcccCcc---CC--CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCC-EECHHHhCCCCCCCEEE
Confidence            455666665555432   11  2245667777776666533 34566777777777777775 43344566777777777


Q ss_pred             ccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEE
Q 040144          133 LGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFN  211 (289)
Q Consensus       133 l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~  211 (289)
                      +++|.+.+ +++..|..+++|++|++++|. +....|..+. +++|+.|++      ++|.+++..|..+..+++|+.|+
T Consensus        88 Ls~N~l~~-~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L------~~N~l~~~~~~~~~~l~~L~~L~  159 (220)
T 2v70_A           88 LTSNRLEN-VQHKMFKGLESLKTLMLRSNR-ITCVGNDSFIGLSSVRLLSL------YDNQITTVAPGAFDTLHSLSTLN  159 (220)
T ss_dssp             CCSSCCCC-CCGGGGTTCSSCCEEECTTSC-CCCBCTTSSTTCTTCSEEEC------TTSCCCCBCTTTTTTCTTCCEEE
T ss_pred             CCCCccCc-cCHhHhcCCcCCCEEECCCCc-CCeECHhHcCCCccCCEEEC------CCCcCCEECHHHhcCCCCCCEEE
Confidence            77777763 335667777778888888777 6655566666 777777775      77777777788888888999999


Q ss_pred             ccCCeeeec
Q 040144          212 LVNNSIVGF  220 (289)
Q Consensus       212 l~~n~~~~~  220 (289)
                      +++|.+...
T Consensus       160 L~~N~l~c~  168 (220)
T 2v70_A          160 LLANPFNCN  168 (220)
T ss_dssp             CCSCCEECS
T ss_pred             ecCcCCcCC
Confidence            998888743

>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=99.69  E-value=4.5e-16  Score=122.02  Aligned_cols=154  Identities=20%  Similarity=0.218  Sum_probs=119.1

Q ss_pred             cccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEE
Q 040144           52 LLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFL  131 (289)
Q Consensus        52 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L  131 (289)
                      ..+.++.+++.+...+.   .+  .++|++|++++|.+....+..+..+++|+.|++++|.++ ...+..+..+++|++|
T Consensus        20 s~~~v~c~~~~l~~ip~---~~--~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~-~i~~~~~~~l~~L~~L   93 (229)
T 3e6j_A           20 SGTTVDCRSKRHASVPA---GI--PTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLG-ALPVGVFDSLTQLTVL   93 (229)
T ss_dssp             ETTEEECTTSCCSSCCS---CC--CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEE
T ss_pred             eCCEeEccCCCcCccCC---CC--CCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCC-CcChhhcccCCCcCEE
Confidence            45667777776666543   22  267888888888888877777888888888888888886 3333456778888899


Q ss_pred             EccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEE
Q 040144          132 DLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTF  210 (289)
Q Consensus       132 ~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L  210 (289)
                      ++++|.++ .+++..+..+++|++|++++|. +. .+|..+. +++|+.|++      ++|.+.+..+..+..+++|+.|
T Consensus        94 ~Ls~N~l~-~l~~~~~~~l~~L~~L~Ls~N~-l~-~lp~~~~~l~~L~~L~L------~~N~l~~~~~~~~~~l~~L~~L  164 (229)
T 3e6j_A           94 DLGTNQLT-VLPSAVFDRLVHLKELFMCCNK-LT-ELPRGIERLTHLTHLAL------DQNQLKSIPHGAFDRLSSLTHA  164 (229)
T ss_dssp             ECCSSCCC-CCCTTTTTTCTTCCEEECCSSC-CC-SCCTTGGGCTTCSEEEC------CSSCCCCCCTTTTTTCTTCCEE
T ss_pred             ECCCCcCC-ccChhHhCcchhhCeEeccCCc-cc-ccCcccccCCCCCEEEC------CCCcCCccCHHHHhCCCCCCEE
Confidence            99888887 4435667888889999998888 55 6777777 888888876      7888887777788899999999


Q ss_pred             EccCCeeeec
Q 040144          211 NLVNNSIVGF  220 (289)
Q Consensus       211 ~l~~n~~~~~  220 (289)
                      ++++|.+...
T Consensus       165 ~l~~N~~~c~  174 (229)
T 3e6j_A          165 YLFGNPWDCE  174 (229)
T ss_dssp             ECTTSCBCTT
T ss_pred             EeeCCCccCC
Confidence            9999988743

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.67  E-value=2.2e-16  Score=126.35  Aligned_cols=168  Identities=20%  Similarity=0.257  Sum_probs=107.8

Q ss_pred             CCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCc
Q 040144           25 LSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLT  104 (289)
Q Consensus        25 l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~  104 (289)
                      +.++..+++.++.+.....   +..+++|++|++++|.+...+    .+..+++|++|++++|.+....+  +..+++|+
T Consensus        18 l~~l~~l~l~~~~i~~~~~---~~~l~~L~~L~l~~n~i~~l~----~l~~l~~L~~L~L~~N~i~~~~~--l~~l~~L~   88 (263)
T 1xeu_A           18 LANAVKQNLGKQSVTDLVS---QKELSGVQNFNGDNSNIQSLA----GMQFFTNLKELHLSHNQISDLSP--LKDLTKLE   88 (263)
T ss_dssp             HHHHHHHHHTCSCTTSEEC---HHHHTTCSEEECTTSCCCCCT----TGGGCTTCCEEECCSSCCCCCGG--GTTCSSCC
T ss_pred             HHHHHHHHhcCCCcccccc---hhhcCcCcEEECcCCCcccch----HHhhCCCCCEEECCCCccCCChh--hccCCCCC
Confidence            4455556666655544431   456777777777777666543    45667777777777777776543  66777777


Q ss_pred             EEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeecc
Q 040144          105 MLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQ  183 (289)
Q Consensus       105 ~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~  183 (289)
                      .|++++|.++  .++. +.. ++|++|++++|.+.+ +  ..+..+++|+.|++++|. +.+ .+ .+. +++|+.|++ 
T Consensus        89 ~L~L~~N~l~--~l~~-~~~-~~L~~L~L~~N~l~~-~--~~l~~l~~L~~L~Ls~N~-i~~-~~-~l~~l~~L~~L~L-  157 (263)
T 1xeu_A           89 ELSVNRNRLK--NLNG-IPS-ACLSRLFLDNNELRD-T--DSLIHLKNLEILSIRNNK-LKS-IV-MLGFLSKLEVLDL-  157 (263)
T ss_dssp             EEECCSSCCS--CCTT-CCC-SSCCEEECCSSCCSB-S--GGGTTCTTCCEEECTTSC-CCB-CG-GGGGCTTCCEEEC-
T ss_pred             EEECCCCccC--CcCc-ccc-CcccEEEccCCccCC-C--hhhcCcccccEEECCCCc-CCC-Ch-HHccCCCCCEEEC-
Confidence            7777777775  2332 222 677777777777763 3  246677777777777777 543 23 444 667776665 


Q ss_pred             ccccccCCcccccccccccCCCCCcEEEccCCeeee
Q 040144          184 ESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVG  219 (289)
Q Consensus       184 ~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~  219 (289)
                           ++|.+.+.  ..+..+++|+.|++++|.+.+
T Consensus       158 -----~~N~i~~~--~~l~~l~~L~~L~l~~N~~~~  186 (263)
T 1xeu_A          158 -----HGNEITNT--GGLTRLKKVNWIDLTGQKCVN  186 (263)
T ss_dssp             -----TTSCCCBC--TTSTTCCCCCEEEEEEEEEEC
T ss_pred             -----CCCcCcch--HHhccCCCCCEEeCCCCcccC
Confidence                 66777655  456677777777777776663

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.66  E-value=1.2e-16  Score=127.98  Aligned_cols=166  Identities=20%  Similarity=0.241  Sum_probs=124.8

Q ss_pred             CcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEE
Q 040144            4 LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELR   83 (289)
Q Consensus         4 L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~   83 (289)
                      ++.+++..+.+++. + .+..+++|++|++++|.+...+.   +..+++|++|++++|.+...+.    +..+++|++|+
T Consensus        21 l~~l~l~~~~i~~~-~-~~~~l~~L~~L~l~~n~i~~l~~---l~~l~~L~~L~L~~N~i~~~~~----l~~l~~L~~L~   91 (263)
T 1xeu_A           21 AVKQNLGKQSVTDL-V-SQKELSGVQNFNGDNSNIQSLAG---MQFFTNLKELHLSHNQISDLSP----LKDLTKLEELS   91 (263)
T ss_dssp             HHHHHHTCSCTTSE-E-CHHHHTTCSEEECTTSCCCCCTT---GGGCTTCCEEECCSSCCCCCGG----GTTCSSCCEEE
T ss_pred             HHHHHhcCCCcccc-c-chhhcCcCcEEECcCCCcccchH---HhhCCCCCEEECCCCccCCChh----hccCCCCCEEE
Confidence            34456667776643 2 47788899999999887766552   6778899999999998877643    67888999999


Q ss_pred             ccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCc
Q 040144           84 LSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTG  163 (289)
Q Consensus        84 l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~  163 (289)
                      +++|.+.....  +.. ++|+.|++++|.++  ..+ .+..+++|++|++++|.++ .+ + .++.+++|+.|++++|. 
T Consensus        92 L~~N~l~~l~~--~~~-~~L~~L~L~~N~l~--~~~-~l~~l~~L~~L~Ls~N~i~-~~-~-~l~~l~~L~~L~L~~N~-  161 (263)
T 1xeu_A           92 VNRNRLKNLNG--IPS-ACLSRLFLDNNELR--DTD-SLIHLKNLEILSIRNNKLK-SI-V-MLGFLSKLEVLDLHGNE-  161 (263)
T ss_dssp             CCSSCCSCCTT--CCC-SSCCEEECCSSCCS--BSG-GGTTCTTCCEEECTTSCCC-BC-G-GGGGCTTCCEEECTTSC-
T ss_pred             CCCCccCCcCc--ccc-CcccEEEccCCccC--CCh-hhcCcccccEEECCCCcCC-CC-h-HHccCCCCCEEECCCCc-
Confidence            99998887543  223 88999999999886  233 4778889999999999887 34 3 67888899999999988 


Q ss_pred             ccCCCCcccc-ccCcceeeccccccccCCccccc
Q 040144          164 LTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGH  196 (289)
Q Consensus       164 ~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~  196 (289)
                      +.+.  ..+. +++|+.|++      ++|.+...
T Consensus       162 i~~~--~~l~~l~~L~~L~l------~~N~~~~~  187 (263)
T 1xeu_A          162 ITNT--GGLTRLKKVNWIDL------TGQKCVNE  187 (263)
T ss_dssp             CCBC--TTSTTCCCCCEEEE------EEEEEECC
T ss_pred             Ccch--HHhccCCCCCEEeC------CCCcccCC
Confidence            6544  4555 888888876      67777644

>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=99.66  E-value=7.4e-16  Score=127.46  Aligned_cols=239  Identities=14%  Similarity=0.097  Sum_probs=142.0

Q ss_pred             CCCCcEEEccCCccc--ccCCCccCCCCCCcEEeCCCccccccCCCcccCC--------CCcccEEeccCccccccchhh
Q 040144            1 MGNLRYLNFSKTRIC--GIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSG--------ISLLEHLDLRYVNLSIAFDWL   70 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~--~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~--------l~~L~~L~l~~~~~~~~~~~~   70 (289)
                      +++|++|+|++|.+.  ...+..   ++.++.+.+..+.   ++... +.+        +.+|+.+++.+ .+.....  
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~---~~~~~~~~~~~~~---I~~~a-F~~~~~~~~~g~~~L~~l~L~~-~i~~I~~--  117 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGT---YPNGKFYIYMANF---VPAYA-FSNVVNGVTKGKQTLEKVILSE-KIKNIED--  117 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSS---SGGGCCEEECTTE---ECTTT-TEEEETTEEEECTTCCC-CBCT-TCCEECT--
T ss_pred             hccCeEEecCcceeEEecCcccc---ccccccccccccc---cCHHH-hcccccccccccCCCcEEECCc-cccchhH--
Confidence            468999999999887  212111   1222333333331   12111 445        67777777766 4444422  


Q ss_pred             HhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCC-------CCC------------------cchhhHhh--
Q 040144           71 MVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQ-------FDN------------------SFILSWVF--  123 (289)
Q Consensus        71 ~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~-------~~~------------------~~~~~~~~--  123 (289)
                      ..|..+++|+++.+.++.+..+.+..|..+.++..+......       +.+                  ..++..+.  
T Consensus       118 ~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~  197 (329)
T 3sb4_A          118 AAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMKA  197 (329)
T ss_dssp             TTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEEEEECTTCCHHHHHHHT
T ss_pred             HHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccccceeEEecCCCcHHHHHhhc
Confidence            145666777777777776666555666665555555443311       000                  01111111  


Q ss_pred             --cCCCCCEEEccCceeeeeeChhhh-cCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccc
Q 040144          124 --ALSHLPFLDLGFNNFQGTIDLEAL-GNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTD  199 (289)
Q Consensus       124 --~~~~L~~L~l~~n~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~  199 (289)
                        ...+++.+.+.++-.. .. ...+ ..+++|+.+++.+|. +....+..|. +.+|+++.+      ..| +....+.
T Consensus       198 ~~~~~~~~~l~~~~~l~~-~~-~~~l~~~~~~L~~l~L~~n~-i~~I~~~aF~~~~~L~~l~l------~~n-i~~I~~~  267 (329)
T 3sb4_A          198 GLQPRDINFLTIEGKLDN-AD-FKLIRDYMPNLVSLDISKTN-ATTIPDFTFAQKKYLLKIKL------PHN-LKTIGQR  267 (329)
T ss_dssp             TCCGGGCSEEEEEECCCH-HH-HHHHHHHCTTCCEEECTTBC-CCEECTTTTTTCTTCCEEEC------CTT-CCEECTT
T ss_pred             ccCccccceEEEeeeecH-HH-HHHHHHhcCCCeEEECCCCC-cceecHhhhhCCCCCCEEEC------Ccc-cceehHH
Confidence              1223444444332111 11 1112 237889999998887 5543444566 888888886      444 6656777


Q ss_pred             cccCCCCCc-EEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEec
Q 040144          200 QLGQFRNLV-TFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGL  278 (289)
Q Consensus       200 ~l~~~~~L~-~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  278 (289)
                      +|.+|++|+ .+++.+ .++                  .++...|.+|++|+.+++.+|.+....+..|..+++|+.++.
T Consensus       268 aF~~~~~L~~~l~l~~-~l~------------------~I~~~aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          268 VFSNCGRLAGTLELPA-SVT------------------AIEFGAFMGCDNLRYVLATGDKITTLGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             TTTTCTTCCEEEEECT-TCC------------------EECTTTTTTCTTEEEEEECSSCCCEECTTTTCTTCCCCEEEC
T ss_pred             HhhCChhccEEEEEcc-cce------------------EEchhhhhCCccCCEEEeCCCccCccchhhhcCCcchhhhcc
Confidence            888999998 888875 444                  566558899999999999999999877778999999998763

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.65  E-value=5.5e-17  Score=147.37  Aligned_cols=134  Identities=23%  Similarity=0.235  Sum_probs=77.1

Q ss_pred             cccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc
Q 040144           94 PLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA  173 (289)
Q Consensus        94 ~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~  173 (289)
                      +..+..++.|+.|++++|.+.  .++..+..+++|++|++++|.++ .+ |..++.+++|++|+|++|. +. .+|..+.
T Consensus       217 ~~~~~~l~~L~~L~Ls~n~l~--~l~~~~~~l~~L~~L~Ls~N~l~-~l-p~~~~~l~~L~~L~Ls~N~-l~-~lp~~~~  290 (727)
T 4b8c_D          217 KDSKYDDQLWHALDLSNLQIF--NISANIFKYDFLTRLYLNGNSLT-EL-PAEIKNLSNLRVLDLSHNR-LT-SLPAELG  290 (727)
T ss_dssp             -----CCCCCCEEECTTSCCS--CCCGGGGGCCSCSCCBCTTSCCS-CC-CGGGGGGTTCCEEECTTSC-CS-SCCSSGG
T ss_pred             hhhhccCCCCcEEECCCCCCC--CCChhhcCCCCCCEEEeeCCcCc-cc-ChhhhCCCCCCEEeCcCCc-CC-ccChhhc
Confidence            344555666666666666664  34444445666666666666665 45 5556666666666666666 44 5566665


Q ss_pred             -ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce--------EEEeecceeeeeecc
Q 040144          174 -LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF--------ELHIYDNKLNVTLFE  240 (289)
Q Consensus       174 -~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~--------~L~l~~n~~~~~~~~  240 (289)
                       +++|+.|++      ++|.++ .+|..++.+++|+.|++++|.+++.+|..+        .+++.+|.+++.+|.
T Consensus       291 ~l~~L~~L~L------~~N~l~-~lp~~~~~l~~L~~L~L~~N~l~~~~p~~~~~~~~~~~~l~l~~N~l~~~~p~  359 (727)
T 4b8c_D          291 SCFQLKYFYF------FDNMVT-TLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNRPEIPLPH  359 (727)
T ss_dssp             GGTTCSEEEC------CSSCCC-CCCSSTTSCTTCCCEECTTSCCCSHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
T ss_pred             CCCCCCEEEC------CCCCCC-ccChhhhcCCCccEEeCCCCccCCCChHHHhhcchhhhHHhhccCcccCcCcc
Confidence             666666654      556555 445556666666666666666665554443        345666666655544

>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=99.63  E-value=5e-16  Score=115.78  Aligned_cols=136  Identities=19%  Similarity=0.132  Sum_probs=99.6

Q ss_pred             CCCCCEEEccCceee-eeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCccccccccccc
Q 040144          125 LSHLPFLDLGFNNFQ-GTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLG  202 (289)
Q Consensus       125 ~~~L~~L~l~~n~~~-~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~  202 (289)
                      ++++++|++++|.+. +.+ +..+..+++|++|++++|. +.+.  ..+. +++|+.|++      ++|.+.+.+|..+.
T Consensus        23 ~~~L~~L~l~~n~l~~~~i-~~~~~~l~~L~~L~l~~n~-l~~~--~~~~~l~~L~~L~L------s~N~l~~~~~~~~~   92 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKI-EGLTAEFVNLEFLSLINVG-LISV--SNLPKLPKLKKLEL------SENRIFGGLDMLAE   92 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBC-SSCCGGGGGCCEEEEESSC-CCCC--SSCCCCSSCCEEEE------ESCCCCSCCCHHHH
T ss_pred             cccCCEEECCCCCCChhhH-HHHHHhCCCCCEEeCcCCC-CCCh--hhhccCCCCCEEEC------cCCcCchHHHHHHh
Confidence            466888888888776 445 5556777888888888887 5543  4555 777777775      77777766777777


Q ss_pred             CCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccC---CCccccccccEEecc
Q 040144          203 QFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVK---HDWIPHFQLVALGLH  279 (289)
Q Consensus       203 ~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~---~~~~~~~~L~~l~l~  279 (289)
                      .+++|+.|++++|.+++.                ..+. .+..+++|+.|++++|++++..+   ..+..+++|+.|+++
T Consensus        93 ~l~~L~~L~Ls~N~l~~~----------------~~~~-~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  155 (168)
T 2ell_A           93 KLPNLTHLNLSGNKLKDI----------------STLE-PLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGY  155 (168)
T ss_dssp             HCTTCCEEECBSSSCCSS----------------GGGG-GGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTE
T ss_pred             hCCCCCEEeccCCccCcc----------------hhHH-HHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCC
Confidence            788888888888877721                0113 67788899999999999886433   267888899999999


Q ss_pred             cccCccCCC
Q 040144          280 SCYIGSRFP  288 (289)
Q Consensus       280 ~n~~~~~~p  288 (289)
                      +|.+. .+|
T Consensus       156 ~n~~~-~~~  163 (168)
T 2ell_A          156 DREDQ-EAP  163 (168)
T ss_dssp             ETTSC-BCC
T ss_pred             CCChh-hcc
Confidence            99885 454

>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=99.62  E-value=1.1e-17  Score=147.68  Aligned_cols=195  Identities=18%  Similarity=0.184  Sum_probs=117.2

Q ss_pred             CCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCc-------------cCCCCcccccCCCCCcEEe-ccCCCC
Q 040144           48 SGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQ-------------LQHFSPLATVNFSSLTMLD-LSHNQF  113 (289)
Q Consensus        48 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-------------l~~~~~~~l~~~~~L~~L~-l~~~~~  113 (289)
                      ..+++|+.|++++|.+...|.   .+..+++|++|++.++.             .....+..++.+++|+.|+ ++.+.+
T Consensus       346 ~~~~~L~~L~Ls~n~L~~Lp~---~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~~  422 (567)
T 1dce_A          346 ATDEQLFRCELSVEKSTVLQS---ELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYL  422 (567)
T ss_dssp             STTTTSSSCCCCHHHHHHHHH---HHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHH
T ss_pred             ccCccceeccCChhhHHhhHH---HHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhccc
Confidence            457788888888888776554   77777888888876553             2222334445556666666 443322


Q ss_pred             CCcchhh------Hhh--cCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccc
Q 040144          114 DNSFILS------WVF--ALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQE  184 (289)
Q Consensus       114 ~~~~~~~------~~~--~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~  184 (289)
                      .  .++.      .+.  ....|+.|++++|.++ .+ |. ++.+++|+.|++++|. +. .+|..+. +++|+.|++  
T Consensus       423 ~--~L~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~-~l-p~-~~~l~~L~~L~Ls~N~-l~-~lp~~~~~l~~L~~L~L--  493 (567)
T 1dce_A          423 D--DLRSKFLLENSVLKMEYADVRVLHLAHKDLT-VL-CH-LEQLLLVTHLDLSHNR-LR-ALPPALAALRCLEVLQA--  493 (567)
T ss_dssp             H--HHHHHHHHHHHHHHHHHTTCSEEECTTSCCS-SC-CC-GGGGTTCCEEECCSSC-CC-CCCGGGGGCTTCCEEEC--
T ss_pred             c--hhhhhhhhcccccccCccCceEEEecCCCCC-CC-cC-ccccccCcEeecCccc-cc-ccchhhhcCCCCCEEEC--
Confidence            1  0110      011  1124667777777666 34 43 6667777777777776 44 5666666 666766665  


Q ss_pred             cccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeee-ccccccccccccEEEecCCeeeecc
Q 040144          185 SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTL-FELHFANLIEMSWFRVGGNQLTLEV  263 (289)
Q Consensus       185 ~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~-~~~~~~~~~~L~~l~l~~n~~~~~~  263 (289)
                          ++|.+++ +| .++.+++|+.|++++|.+++.                 . |. .++++++|+.|++++|++++..
T Consensus       494 ----s~N~l~~-lp-~l~~l~~L~~L~Ls~N~l~~~-----------------~~p~-~l~~l~~L~~L~L~~N~l~~~~  549 (567)
T 1dce_A          494 ----SDNALEN-VD-GVANLPRLQELLLCNNRLQQS-----------------AAIQ-PLVSCPRLVLLNLQGNSLCQEE  549 (567)
T ss_dssp             ----CSSCCCC-CG-GGTTCSSCCEEECCSSCCCSS-----------------STTG-GGGGCTTCCEEECTTSGGGGSS
T ss_pred             ----CCCCCCC-Cc-ccCCCCCCcEEECCCCCCCCC-----------------CCcH-HHhcCCCCCEEEecCCcCCCCc
Confidence                6666664 34 566677777777766666522                 2 44 6777788888888888877643


Q ss_pred             CCC---ccccccccEEec
Q 040144          264 KHD---WIPHFQLVALGL  278 (289)
Q Consensus       264 ~~~---~~~~~~L~~l~l  278 (289)
                      +..   +..+++|+.|++
T Consensus       550 ~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          550 GIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             SCTTHHHHHCTTCSEEEC
T ss_pred             cHHHHHHHHCcccCccCC
Confidence            321   123566776653

>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=99.61  E-value=1.1e-17  Score=147.66  Aligned_cols=96  Identities=25%  Similarity=0.249  Sum_probs=46.2

Q ss_pred             ccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeC
Q 040144           79 LVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL  158 (289)
Q Consensus        79 L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l  158 (289)
                      |+.|++++|.++.+ +. ++.+++|+.|++++|.++  .+|..++.+++|+.|++++|.+++ + | .++.+++|+.|++
T Consensus       443 L~~L~Ls~n~l~~l-p~-~~~l~~L~~L~Ls~N~l~--~lp~~~~~l~~L~~L~Ls~N~l~~-l-p-~l~~l~~L~~L~L  515 (567)
T 1dce_A          443 VRVLHLAHKDLTVL-CH-LEQLLLVTHLDLSHNRLR--ALPPALAALRCLEVLQASDNALEN-V-D-GVANLPRLQELLL  515 (567)
T ss_dssp             CSEEECTTSCCSSC-CC-GGGGTTCCEEECCSSCCC--CCCGGGGGCTTCCEEECCSSCCCC-C-G-GGTTCSSCCEEEC
T ss_pred             ceEEEecCCCCCCC-cC-ccccccCcEeecCccccc--ccchhhhcCCCCCEEECCCCCCCC-C-c-ccCCCCCCcEEEC
Confidence            45555555555443 22 444555555555555553  334444455555555555555542 3 3 4445555555555


Q ss_pred             CCCCcccCCC-Ccccc-ccCcceeec
Q 040144          159 SLNTGLTGRI-PRSMA-LCNLKSINL  182 (289)
Q Consensus       159 ~~n~~~~~~~-~~~~~-~~~L~~L~l  182 (289)
                      ++|. +.+.. |..+. +++|+.|++
T Consensus       516 s~N~-l~~~~~p~~l~~l~~L~~L~L  540 (567)
T 1dce_A          516 CNNR-LQQSAAIQPLVSCPRLVLLNL  540 (567)
T ss_dssp             CSSC-CCSSSTTGGGGGCTTCCEEEC
T ss_pred             CCCC-CCCCCCcHHHhcCCCCCEEEe
Confidence            5554 43332 44444 455554443

>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=99.61  E-value=2.4e-15  Score=112.12  Aligned_cols=131  Identities=22%  Similarity=0.131  Sum_probs=91.3

Q ss_pred             CCCCcEEeCCCcccc--ccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCC
Q 040144           25 LSNLQFLDLSSKYLL--YVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSS  102 (289)
Q Consensus        25 l~~L~~L~l~~~~~~--~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~  102 (289)
                      .++|++|++++|.+.  .++.  .+..+++|++|++++|.+... .   .+..+++|++|++++|.+....+..+..+++
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~--~~~~l~~L~~L~l~~n~l~~~-~---~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~   96 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEG--LTAEFVNLEFLSLINVGLISV-S---NLPKLPKLKKLELSENRIFGGLDMLAEKLPN   96 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSS--CCGGGGGCCEEEEESSCCCCC-S---SCCCCSSCCEEEEESCCCCSCCCHHHHHCTT
T ss_pred             cccCCEEECCCCCCChhhHHH--HHHhCCCCCEEeCcCCCCCCh-h---hhccCCCCCEEECcCCcCchHHHHHHhhCCC
Confidence            467777888777765  3332  256677788888887776655 2   5667778888888888877755555566788


Q ss_pred             CcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeCh---hhhcCCCCccEEeCCCCC
Q 040144          103 LTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDL---EALGNLTSINRLDLSLNT  162 (289)
Q Consensus       103 L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~---~~~~~~~~L~~L~l~~n~  162 (289)
                      |+.|++++|.+++...+..+..+++|++|++++|.+.+ .++   ..+..+++|++|++++|.
T Consensus        97 L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~-~~~~~~~~~~~l~~L~~L~l~~n~  158 (168)
T 2ell_A           97 LTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTN-LNDYRESVFKLLPQLTYLDGYDRE  158 (168)
T ss_dssp             CCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGT-STTHHHHHHTTCSSCCEETTEETT
T ss_pred             CCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcc-hHHHHHHHHHhCccCcEecCCCCC
Confidence            88888888877622222556677888888888887763 313   367778888888888876

>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=99.60  E-value=6.9e-15  Score=112.03  Aligned_cols=129  Identities=21%  Similarity=0.256  Sum_probs=90.9

Q ss_pred             cEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChh-hhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceee
Q 040144          104 TMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLE-ALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSIN  181 (289)
Q Consensus       104 ~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~-~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~  181 (289)
                      +.++++++.++  .+|..+  ..++++|++++|.+.+.. +. .++.+++|++|++++|. +.+..|..+. +++|+.|+
T Consensus        11 ~~l~~s~~~l~--~ip~~~--~~~l~~L~l~~n~i~~~~-~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~   84 (192)
T 1w8a_A           11 TTVDCTGRGLK--EIPRDI--PLHTTELLLNDNELGRIS-SDGLFGRLPHLVKLELKRNQ-LTGIEPNAFEGASHIQELQ   84 (192)
T ss_dssp             TEEECTTSCCS--SCCSCC--CTTCSEEECCSCCCCSBC-CSCSGGGCTTCCEEECCSSC-CCCBCTTTTTTCTTCCEEE
T ss_pred             CEEEcCCCCcC--cCccCC--CCCCCEEECCCCcCCccC-CccccccCCCCCEEECCCCC-CCCcCHhHcCCcccCCEEE
Confidence            67788887774  455433  237888888888876332 32 47788888888888887 6666666676 77777777


Q ss_pred             ccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeee
Q 040144          182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       182 l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                      +      ++|.+++..+..+..+++|+.|++++|.+++                 ..+. .+..+++|++|++++|++..
T Consensus        85 L------s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~-----------------~~~~-~~~~l~~L~~L~L~~N~l~c  140 (192)
T 1w8a_A           85 L------GENKIKEISNKMFLGLHQLKTLNLYDNQISC-----------------VMPG-SFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             C------CSCCCCEECSSSSTTCTTCCEEECCSSCCCE-----------------ECTT-SSTTCTTCCEEECTTCCBCC
T ss_pred             C------CCCcCCccCHHHhcCCCCCCEEECCCCcCCe-----------------eCHH-HhhcCCCCCEEEeCCCCccC
Confidence            5      7777777777777777777777777776662                 2333 66777888888888887775


Q ss_pred             c
Q 040144          262 E  262 (289)
Q Consensus       262 ~  262 (289)
                      .
T Consensus       141 ~  141 (192)
T 1w8a_A          141 N  141 (192)
T ss_dssp             S
T ss_pred             c
Confidence            4

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.60  E-value=5.2e-15  Score=107.97  Aligned_cols=107  Identities=23%  Similarity=0.172  Sum_probs=49.8

Q ss_pred             CCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCC
Q 040144           48 SGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSH  127 (289)
Q Consensus        48 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~  127 (289)
                      ..+++|++|++++|.+... .   .+..+++|++|++++|.+....+..+..+++|+.|++++|.+++...+..++.+++
T Consensus        39 ~~l~~L~~L~l~~n~l~~~-~---~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~  114 (149)
T 2je0_A           39 DEFEELEFLSTINVGLTSI-A---NLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLEN  114 (149)
T ss_dssp             TTCTTCCEEECTTSCCCCC-T---TCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTT
T ss_pred             hhcCCCcEEECcCCCCCCc-h---hhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCC
Confidence            3444444444444444333 1   33444455555555555444333333445555555555555541112234455555


Q ss_pred             CCEEEccCceeeeeeCh---hhhcCCCCccEEeCC
Q 040144          128 LPFLDLGFNNFQGTIDL---EALGNLTSINRLDLS  159 (289)
Q Consensus       128 L~~L~l~~n~~~~~~~~---~~~~~~~~L~~L~l~  159 (289)
                      |++|++++|.+++ .++   ..+..+++|+.|+++
T Consensus       115 L~~L~l~~N~l~~-~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A          115 LKSLDLFNCEVTN-LNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             CCEEECTTCGGGG-STTHHHHHHHHCTTCCEETTB
T ss_pred             CCEEeCcCCcccc-hHHHHHHHHHHCCCcccccCC
Confidence            5555555555542 212   245555555555553

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.57  E-value=6.5e-16  Score=140.37  Aligned_cols=140  Identities=23%  Similarity=0.252  Sum_probs=94.1

Q ss_pred             hhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccc
Q 040144          119 LSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHL  197 (289)
Q Consensus       119 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~  197 (289)
                      +..+..+..|+.|++++|.+. .+ +..+..+++|++|+|++|. +. .+|..+. +++|+.|++      ++|.++ .+
T Consensus       217 ~~~~~~l~~L~~L~Ls~n~l~-~l-~~~~~~l~~L~~L~Ls~N~-l~-~lp~~~~~l~~L~~L~L------s~N~l~-~l  285 (727)
T 4b8c_D          217 KDSKYDDQLWHALDLSNLQIF-NI-SANIFKYDFLTRLYLNGNS-LT-ELPAEIKNLSNLRVLDL------SHNRLT-SL  285 (727)
T ss_dssp             -----CCCCCCEEECTTSCCS-CC-CGGGGGCCSCSCCBCTTSC-CS-CCCGGGGGGTTCCEEEC------TTSCCS-SC
T ss_pred             hhhhccCCCCcEEECCCCCCC-CC-ChhhcCCCCCCEEEeeCCc-Cc-ccChhhhCCCCCCEEeC------cCCcCC-cc
Confidence            445667778888888888876 56 5556678888888888887 55 6777777 888887776      778877 56


Q ss_pred             cccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCcccccc-ccEE
Q 040144          198 TDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQ-LVAL  276 (289)
Q Consensus       198 ~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~-L~~l  276 (289)
                      |..+..+++|+.|++++|.++                  .+|. .++++++|+.|+|++|++++.+|..+..... ...+
T Consensus       286 p~~~~~l~~L~~L~L~~N~l~------------------~lp~-~~~~l~~L~~L~L~~N~l~~~~p~~~~~~~~~~~~l  346 (727)
T 4b8c_D          286 PAELGSCFQLKYFYFFDNMVT------------------TLPW-EFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIF  346 (727)
T ss_dssp             CSSGGGGTTCSEEECCSSCCC------------------CCCS-STTSCTTCCCEECTTSCCCSHHHHHHHHHHHHHHHH
T ss_pred             ChhhcCCCCCCEEECCCCCCC------------------ccCh-hhhcCCCccEEeCCCCccCCCChHHHhhcchhhhHH
Confidence            777888888888888887776                  4555 5666777777777777776655555443321 2235


Q ss_pred             ecccccCccCCC
Q 040144          277 GLHSCYIGSRFP  288 (289)
Q Consensus       277 ~l~~n~~~~~~p  288 (289)
                      ++++|.+++.+|
T Consensus       347 ~l~~N~l~~~~p  358 (727)
T 4b8c_D          347 YLRDNRPEIPLP  358 (727)
T ss_dssp             HHHHCCCCCCCC
T ss_pred             hhccCcccCcCc
Confidence            566666665555

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.56  E-value=3.6e-13  Score=113.97  Aligned_cols=254  Identities=14%  Similarity=0.128  Sum_probs=131.9

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      .++.+.+.. .++.....+|.++ +|+.+.+..+ +..++... +.++ .|+.+.+.. .+.....  ..+..+++|+.+
T Consensus       114 ~l~~i~ip~-~i~~I~~~aF~~~-~L~~i~l~~~-i~~I~~~a-F~~~-~L~~i~lp~-~l~~I~~--~aF~~c~~L~~l  185 (401)
T 4fdw_A          114 GYNEIILPN-SVKSIPKDAFRNS-QIAKVVLNEG-LKSIGDMA-FFNS-TVQEIVFPS-TLEQLKE--DIFYYCYNLKKA  185 (401)
T ss_dssp             SCSEEECCT-TCCEECTTTTTTC-CCSEEECCTT-CCEECTTT-TTTC-CCCEEECCT-TCCEECS--STTTTCTTCCEE
T ss_pred             CccEEEECC-ccCEehHhhcccC-CccEEEeCCC-ccEECHHh-cCCC-CceEEEeCC-CccEehH--HHhhCcccCCee
Confidence            344455543 2333444556664 5777777653 33343333 4443 577777654 3333321  145666777777


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ++.++.++.+....|. +.+|+.+.+..+ ++ ......+..+.+|+.+++..+ +. .+...+|.+ .+|+.+.+..+ 
T Consensus       186 ~l~~n~l~~I~~~aF~-~~~L~~l~lp~~-l~-~I~~~aF~~~~~L~~l~l~~~-l~-~I~~~aF~~-~~L~~i~lp~~-  258 (401)
T 4fdw_A          186 DLSKTKITKLPASTFV-YAGIEEVLLPVT-LK-EIGSQAFLKTSQLKTIEIPEN-VS-TIGQEAFRE-SGITTVKLPNG-  258 (401)
T ss_dssp             ECTTSCCSEECTTTTT-TCCCSEEECCTT-CC-EECTTTTTTCTTCCCEECCTT-CC-EECTTTTTT-CCCSEEEEETT-
T ss_pred             ecCCCcceEechhhEe-ecccCEEEeCCc-hh-eehhhHhhCCCCCCEEecCCC-cc-Ccccccccc-CCccEEEeCCC-
Confidence            7777666665555555 466777776643 33 233344556666777776654 33 333455555 56666666332 


Q ss_pred             cccCCCCcccc-ccCcceeeccccccccCCccc-----ccccccccCCCCCcEEEccCCeeeecCCCce-------EEEe
Q 040144          163 GLTGRIPRSMA-LCNLKSINLQESLDMRSSSIY-----GHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHI  229 (289)
Q Consensus       163 ~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~-----~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l  229 (289)
                       +.......|. +++|+.+.+      .++.+.     .....+|.+|++|+.+.+.+ .+.......+       .+.+
T Consensus       259 -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          259 -VTNIASRAFYYCPELAEVTT------YGSTFNDDPEAMIHPYCLEGCPKLARFEIPE-SIRILGQGLLGGNRKVTQLTI  330 (401)
T ss_dssp             -CCEECTTTTTTCTTCCEEEE------ESSCCCCCTTCEECTTTTTTCTTCCEECCCT-TCCEECTTTTTTCCSCCEEEE
T ss_pred             -ccEEChhHhhCCCCCCEEEe------CCccccCCcccEECHHHhhCCccCCeEEeCC-ceEEEhhhhhcCCCCccEEEE
Confidence             2322334444 666666665      222221     23445566666777776653 2331111111       3333


Q ss_pred             ecceeeeeeccccccccccccEEEecCCeeeeccCCCccccc-cccEEeccccc
Q 040144          230 YDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHF-QLVALGLHSCY  282 (289)
Q Consensus       230 ~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~-~L~~l~l~~n~  282 (289)
                      ..+ ++ .+...+|.++ +|+.+.+.+|.+.......|..++ .+..+.+..+.
T Consensus       331 p~~-l~-~I~~~aF~~~-~L~~l~l~~n~~~~l~~~~F~~~~~~l~~l~vp~~~  381 (401)
T 4fdw_A          331 PAN-VT-QINFSAFNNT-GIKEVKVEGTTPPQVFEKVWYGFPDDITVIRVPAES  381 (401)
T ss_dssp             CTT-CC-EECTTSSSSS-CCCEEEECCSSCCBCCCSSCCCSCTTCCEEEECGGG
T ss_pred             Ccc-cc-EEcHHhCCCC-CCCEEEEcCCCCcccccccccCCCCCccEEEeCHHH
Confidence            222 22 3444466666 777777777766554444555553 45666655543

>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=99.55  E-value=4e-14  Score=107.78  Aligned_cols=130  Identities=22%  Similarity=0.182  Sum_probs=73.0

Q ss_pred             cEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEec
Q 040144           29 QFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDL  108 (289)
Q Consensus        29 ~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l  108 (289)
                      ++++++++.+..++..  +  ...+++|++++|.+...+. ...+..+++|++|++++|.++...+..+..+++|+.|++
T Consensus        11 ~~l~~s~~~l~~ip~~--~--~~~l~~L~l~~n~i~~~~~-~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L   85 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRD--I--PLHTTELLLNDNELGRISS-DGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             TEEECTTSCCSSCCSC--C--CTTCSEEECCSCCCCSBCC-SCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CEEEcCCCCcCcCccC--C--CCCCCEEECCCCcCCccCC-ccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEEC
Confidence            4555555544433321  1  1255566666665554422 002455666666666666666655556666666666666


Q ss_pred             cCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccC
Q 040144          109 SHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTG  166 (289)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~  166 (289)
                      ++|.++ ...+..+..+++|++|++++|.+++.. +..+..+++|+++++++|. +..
T Consensus        86 s~N~l~-~~~~~~~~~l~~L~~L~L~~N~l~~~~-~~~~~~l~~L~~L~L~~N~-l~c  140 (192)
T 1w8a_A           86 GENKIK-EISNKMFLGLHQLKTLNLYDNQISCVM-PGSFEHLNSLTSLNLASNP-FNC  140 (192)
T ss_dssp             CSCCCC-EECSSSSTTCTTCCEEECCSSCCCEEC-TTSSTTCTTCCEEECTTCC-BCC
T ss_pred             CCCcCC-ccCHHHhcCCCCCCEEECCCCcCCeeC-HHHhhcCCCCCEEEeCCCC-ccC
Confidence            666665 333344555666666666666666443 5566666666666666666 443

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.55  E-value=3.1e-14  Score=103.78  Aligned_cols=126  Identities=20%  Similarity=0.152  Sum_probs=81.7

Q ss_pred             CCcccEEeccCcccc--ccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCC
Q 040144           50 ISLLEHLDLRYVNLS--IAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSH  127 (289)
Q Consensus        50 l~~L~~L~l~~~~~~--~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~  127 (289)
                      .+++++|++++|.+.  ..+.   .+..+++|++|++++|.+...  ..+..+++|+.|++++|.++ ...+..+..+++
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~---~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~-~~~~~~~~~l~~   89 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEG---LTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVS-GGLEVLAEKCPN   89 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCS---CCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCC-SCTHHHHHHCTT
T ss_pred             CccCeEEEccCCcCChhHHHH---HHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCccc-chHHHHhhhCCC
Confidence            456777777777766  2333   456677777888877777665  55667777777777777776 335666666777


Q ss_pred             CCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCC---cccc-ccCcceeec
Q 040144          128 LPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIP---RSMA-LCNLKSINL  182 (289)
Q Consensus       128 L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~---~~~~-~~~L~~L~l  182 (289)
                      |++|++++|.+.+...+..++.+++|++|++++|. +.+..+   ..+. +++|+.|++
T Consensus        90 L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           90 LTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCE-VTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             CCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCG-GGGSTTHHHHHHHHCTTCCEETT
T ss_pred             CCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCc-ccchHHHHHHHHHHCCCcccccC
Confidence            77777777777632113567777777777777776 543322   2344 556665554

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.54  E-value=1e-12  Score=111.19  Aligned_cols=235  Identities=11%  Similarity=0.099  Sum_probs=169.0

Q ss_pred             CCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCC
Q 040144           24 NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSL  103 (289)
Q Consensus        24 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L  103 (289)
                      .+..++.+.+.+ .+..++... +.++ +|+.+.+..+ +.....  ..+.+ ..|+.+.+.. .+..+....|.++.+|
T Consensus       111 ~~~~l~~i~ip~-~i~~I~~~a-F~~~-~L~~i~l~~~-i~~I~~--~aF~~-~~L~~i~lp~-~l~~I~~~aF~~c~~L  182 (401)
T 4fdw_A          111 ILKGYNEIILPN-SVKSIPKDA-FRNS-QIAKVVLNEG-LKSIGD--MAFFN-STVQEIVFPS-TLEQLKEDIFYYCYNL  182 (401)
T ss_dssp             ECSSCSEEECCT-TCCEECTTT-TTTC-CCSEEECCTT-CCEECT--TTTTT-CCCCEEECCT-TCCEECSSTTTTCTTC
T ss_pred             ecCCccEEEECC-ccCEehHhh-cccC-CccEEEeCCC-ccEECH--HhcCC-CCceEEEeCC-CccEehHHHhhCcccC
Confidence            357788888865 344444443 5565 7999999766 444322  14444 4699999986 6677777889999999


Q ss_pred             cEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCc-cccccCcceeec
Q 040144          104 TMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPR-SMALCNLKSINL  182 (289)
Q Consensus       104 ~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~-~~~~~~L~~L~l  182 (289)
                      +.+++..|.++  .++.......+|+.+.+..+ +. .+...+|.++++|+.+.+..+  +. .++. +|.-++|+.+.+
T Consensus       183 ~~l~l~~n~l~--~I~~~aF~~~~L~~l~lp~~-l~-~I~~~aF~~~~~L~~l~l~~~--l~-~I~~~aF~~~~L~~i~l  255 (401)
T 4fdw_A          183 KKADLSKTKIT--KLPASTFVYAGIEEVLLPVT-LK-EIGSQAFLKTSQLKTIEIPEN--VS-TIGQEAFRESGITTVKL  255 (401)
T ss_dssp             CEEECTTSCCS--EECTTTTTTCCCSEEECCTT-CC-EECTTTTTTCTTCCCEECCTT--CC-EECTTTTTTCCCSEEEE
T ss_pred             CeeecCCCcce--EechhhEeecccCEEEeCCc-hh-eehhhHhhCCCCCCEEecCCC--cc-CccccccccCCccEEEe
Confidence            99999998886  34433333689999999865 55 455778999999999999875  33 2333 333567888875


Q ss_pred             cccccccCCcccccccccccCCCCCcEEEccCCeee-----ecCCCce-------EEEeecceeeeeecccccccccccc
Q 040144          183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV-----GFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMS  250 (289)
Q Consensus       183 ~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~-----~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~  250 (289)
                             .+.+......+|.+|++|+.+.+.+|.+.     ...+..+       .+.+.+ .+. .++...|.+|++|+
T Consensus       256 -------p~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~-~i~-~I~~~aF~~c~~L~  326 (401)
T 4fdw_A          256 -------PNGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE-SIR-ILGQGLLGGNRKVT  326 (401)
T ss_dssp             -------ETTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT-TCC-EECTTTTTTCCSCC
T ss_pred             -------CCCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC-ceE-EEhhhhhcCCCCcc
Confidence                   23455566778999999999999988664     1111121       677774 355 67776899999999


Q ss_pred             EEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          251 WFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       251 ~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      .+.+..+ ++......|..+ +|+.+++++|...
T Consensus       327 ~l~lp~~-l~~I~~~aF~~~-~L~~l~l~~n~~~  358 (401)
T 4fdw_A          327 QLTIPAN-VTQINFSAFNNT-GIKEVKVEGTTPP  358 (401)
T ss_dssp             EEEECTT-CCEECTTSSSSS-CCCEEEECCSSCC
T ss_pred             EEEECcc-ccEEcHHhCCCC-CCCEEEEcCCCCc
Confidence            9999765 666666789999 9999999998765

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.53  E-value=5.5e-14  Score=105.56  Aligned_cols=131  Identities=16%  Similarity=0.169  Sum_probs=96.0

Q ss_pred             CcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceee
Q 040144          103 LTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSIN  181 (289)
Q Consensus       103 L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~  181 (289)
                      .+.++++++.++  .++..  ..+++++|++++|.+. .+++..+..+++|++|++++|. +....+..+. +++|+.|+
T Consensus         9 ~~~l~~~~~~l~--~~p~~--~~~~l~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~   82 (177)
T 2o6r_A            9 GTEIRCNSKGLT--SVPTG--IPSSATRLELESNKLQ-SLPHGVFDKLTQLTKLSLSQNQ-IQSLPDGVFDKLTKLTILY   82 (177)
T ss_dssp             TTEEECCSSCCS--SCCTT--CCTTCSEEECCSSCCC-CCCTTTTTTCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEE
T ss_pred             CCEEEecCCCCc--cCCCC--CCCCCcEEEeCCCccc-EeCHHHhcCcccccEEECCCCc-ceEeChhHccCCCccCEEE
Confidence            467888888775  34432  2468899999998887 4435667888889999999888 6644444556 78888877


Q ss_pred             ccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeee
Q 040144          182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       182 l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                      +      ++|.+++..+..+..+++|+.|++++|.++                  .++...+..+++|+.|++++|++.+
T Consensus        83 l------~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~------------------~~~~~~~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A           83 L------HENKLQSLPNGVFDKLTQLKELALDTNQLK------------------SVPDGIFDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             C------CSSCCCCCCTTTTTTCTTCCEEECCSSCCS------------------CCCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             C------CCCCccccCHHHhhCCcccCEEECcCCcce------------------EeCHHHhcCCcccCEEEecCCCeec
Confidence            6      778888777777788888888888887776                  3343356778888888888888876


Q ss_pred             cc
Q 040144          262 EV  263 (289)
Q Consensus       262 ~~  263 (289)
                      ..
T Consensus       139 ~~  140 (177)
T 2o6r_A          139 SC  140 (177)
T ss_dssp             CH
T ss_pred             cC
Confidence            43

>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=99.52  E-value=3.1e-14  Score=117.70  Aligned_cols=246  Identities=14%  Similarity=0.074  Sum_probs=137.2

Q ss_pred             CCCCcEEeCCCccccccCCCcccCC-CCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccC----
Q 040144           25 LSNLQFLDLSSKYLLYVDNFLWLSG-ISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVN----   99 (289)
Q Consensus        25 l~~L~~L~l~~~~~~~~~~~~~~~~-l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~----   99 (289)
                      ++++++|.++++- .... ...+.. +++|+.|+|++|.+.....   ....++.++.+.+..+.+   ....|.+    
T Consensus        24 ~~~l~~L~l~g~i-~~~~-~~~l~~~l~~L~~LdLs~n~i~~~~~---~~~~~~~~~~~~~~~~~I---~~~aF~~~~~~   95 (329)
T 3sb4_A           24 ANSITHLTLTGKL-NAED-FRHLRDEFPSLKVLDISNAEIKMYSG---KAGTYPNGKFYIYMANFV---PAYAFSNVVNG   95 (329)
T ss_dssp             HHHCSEEEEEEEE-CHHH-HHHHHHSCTTCCEEEEEEEEECCEEE---SSSSSGGGCCEEECTTEE---CTTTTEEEETT
T ss_pred             hCceeEEEEeccc-cHHH-HHHHHHhhccCeEEecCcceeEEecC---cccccccccccccccccc---CHHHhcccccc
Confidence            5678888887632 1111 111233 6788889998888773211   011122233444444432   2345556    


Q ss_pred             ----CCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCc---ccCCCCccc
Q 040144          100 ----FSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTG---LTGRIPRSM  172 (289)
Q Consensus       100 ----~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~---~~~~~~~~~  172 (289)
                          +++|+.+++.. .++ ......|..+++|+++++..|.+. .+.+.+|..+.++..+.......   ........+
T Consensus        96 ~~~g~~~L~~l~L~~-~i~-~I~~~aF~~~~~L~~l~l~~n~i~-~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f  172 (329)
T 3sb4_A           96 VTKGKQTLEKVILSE-KIK-NIEDAAFKGCDNLKICQIRKKTAP-NLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAF  172 (329)
T ss_dssp             EEEECTTCCC-CBCT-TCC-EECTTTTTTCTTCCEEEBCCSSCC-EECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCE
T ss_pred             cccccCCCcEEECCc-ccc-chhHHHhhcCcccceEEcCCCCcc-ccchhhhcCCCceEEecCcchhhhhcccccccccc
Confidence                78888888877 565 334455677888888888888766 44466777777677666655220   000011122


Q ss_pred             c-ccCcc-eeeccc-------------------cccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce------
Q 040144          173 A-LCNLK-SINLQE-------------------SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF------  225 (289)
Q Consensus       173 ~-~~~L~-~L~l~~-------------------~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~------  225 (289)
                      . +..|+ .+.+..                   .+.+.+.-...........|++|+.+++.+|.++...+..+      
T Consensus       173 ~~~~~L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L  252 (329)
T 3sb4_A          173 IEGEPLETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYL  252 (329)
T ss_dssp             EESCCCEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTC
T ss_pred             ccccccceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCC
Confidence            2 33333 111100                   00000000000000000125666666666665553332222      


Q ss_pred             -EEEeecceeeeeecccccccccccc-EEEecCCeeeeccCCCccccccccEEecccccCc
Q 040144          226 -ELHIYDNKLNVTLFELHFANLIEMS-WFRVGGNQLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       226 -~L~l~~n~~~~~~~~~~~~~~~~L~-~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                       .+++.+| +. .++...|.++++|+ .+++.+ .++...+..|..|++|+.+++++|+++
T Consensus       253 ~~l~l~~n-i~-~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l~l~~n~i~  310 (329)
T 3sb4_A          253 LKIKLPHN-LK-TIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYVLATGDKIT  310 (329)
T ss_dssp             CEEECCTT-CC-EECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEEEECSSCCC
T ss_pred             CEEECCcc-cc-eehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEEEeCCCccC
Confidence             5666665 44 67777899999999 999998 787777789999999999999999886

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.49  E-value=5.5e-13  Score=101.46  Aligned_cols=126  Identities=24%  Similarity=0.296  Sum_probs=89.8

Q ss_pred             cEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCC
Q 040144           80 VELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLS  159 (289)
Q Consensus        80 ~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~  159 (289)
                      ++++++++.++.++. .+  .++++.|++++|.++  .++..+..+++|++|++++|.+++ +++..|..+++|++|+++
T Consensus        13 ~~l~~~~~~l~~ip~-~~--~~~l~~L~L~~n~i~--~ip~~~~~l~~L~~L~Ls~N~i~~-i~~~~f~~l~~L~~L~Ls   86 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPK-GI--PRDVTELYLDGNQFT--LVPKELSNYKHLTLIDLSNNRIST-LSNQSFSNMTQLLTLILS   86 (193)
T ss_dssp             TEEECTTSCCSSCCS-CC--CTTCCEEECCSSCCC--SCCGGGGGCTTCCEEECCSSCCCC-CCTTTTTTCTTCCEEECC
T ss_pred             CEEEcCCCCCCcCCC-CC--CCCCCEEECCCCcCc--hhHHHhhcccCCCEEECCCCcCCE-eCHhHccCCCCCCEEECC
Confidence            456666666665432 22  256777777777775  455667777788888888887773 435667778888888888


Q ss_pred             CCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeee
Q 040144          160 LNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       160 ~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                      +|. +....+..+. +++|+.|++      ++|.++...+..+..+++|+.|++++|.+.
T Consensus        87 ~N~-l~~i~~~~f~~l~~L~~L~L------~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           87 YNR-LRCIPPRTFDGLKSLRLLSL------HGNDISVVPEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             SSC-CCBCCTTTTTTCTTCCEEEC------CSSCCCBCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CCc-cCEeCHHHhCCCCCCCEEEC------CCCCCCeeChhhhhcCccccEEEeCCCCee
Confidence            887 6655555666 777777775      777777666667888889999999988876

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.49  E-value=4e-13  Score=100.86  Aligned_cols=130  Identities=22%  Similarity=0.175  Sum_probs=77.7

Q ss_pred             ccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeC
Q 040144           79 LVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDL  158 (289)
Q Consensus        79 L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l  158 (289)
                      .+.+++.++.++....   ...++++.|++++|.++ ...+..+..+++|++|++++|.+. .+++..+..+++|++|++
T Consensus         9 ~~~l~~~~~~l~~~p~---~~~~~l~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~~~~l~~L~~L~l   83 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPT---GIPSSATRLELESNKLQ-SLPHGVFDKLTQLTKLSLSQNQIQ-SLPDGVFDKLTKLTILYL   83 (177)
T ss_dssp             TTEEECCSSCCSSCCT---TCCTTCSEEECCSSCCC-CCCTTTTTTCTTCSEEECCSSCCC-CCCTTTTTTCTTCCEEEC
T ss_pred             CCEEEecCCCCccCCC---CCCCCCcEEEeCCCccc-EeCHHHhcCcccccEEECCCCcce-EeChhHccCCCccCEEEC
Confidence            3455555555554421   11245666666666664 333333455666666666666665 332445566666777777


Q ss_pred             CCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeec
Q 040144          159 SLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF  220 (289)
Q Consensus       159 ~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~  220 (289)
                      ++|. +.+..+..+. +++|+.|++      ++|.+++..+..+..+++|+.|++++|.+.+.
T Consensus        84 ~~N~-l~~~~~~~~~~l~~L~~L~l------~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~  139 (177)
T 2o6r_A           84 HENK-LQSLPNGVFDKLTQLKELAL------DTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCS  139 (177)
T ss_dssp             CSSC-CCCCCTTTTTTCTTCCEEEC------CSSCCSCCCTTTTTTCTTCCEEECCSSCBCCC
T ss_pred             CCCC-ccccCHHHhhCCcccCEEEC------cCCcceEeCHHHhcCCcccCEEEecCCCeecc
Confidence            7666 5543344445 666666665      66666655555667788888888888877744

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.48  E-value=5.8e-13  Score=101.34  Aligned_cols=125  Identities=20%  Similarity=0.178  Sum_probs=79.5

Q ss_pred             cEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEec
Q 040144           29 QFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDL  108 (289)
Q Consensus        29 ~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l  108 (289)
                      +.++++++.+..++..  +  .+.|++|++++|.+...+.   .+..+++|++|++++|.++...+..|..+++|+.|++
T Consensus        13 ~~l~~~~~~l~~ip~~--~--~~~l~~L~L~~n~i~~ip~---~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~L   85 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKG--I--PRDVTELYLDGNQFTLVPK---ELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLIL   85 (193)
T ss_dssp             TEEECTTSCCSSCCSC--C--CTTCCEEECCSSCCCSCCG---GGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CEEEcCCCCCCcCCCC--C--CCCCCEEECCCCcCchhHH---HhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEEC
Confidence            4566666555544421  1  2466677777776665443   5666677777777777777666666677777777777


Q ss_pred             cCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144          109 SHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ++|.++ ...+..+..+++|++|++++|.+. .+++..|..+++|+.+++++|.
T Consensus        86 s~N~l~-~i~~~~f~~l~~L~~L~L~~N~l~-~~~~~~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           86 SYNRLR-CIPPRTFDGLKSLRLLSLHGNDIS-VVPEGAFNDLSALSHLAIGANP  137 (193)
T ss_dssp             CSSCCC-BCCTTTTTTCTTCCEEECCSSCCC-BCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCCccC-EeCHHHhCCCCCCCEEECCCCCCC-eeChhhhhcCccccEEEeCCCC
Confidence            777765 444445666677777777777766 3434456667777777777776

>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=99.48  E-value=8.4e-14  Score=104.48  Aligned_cols=130  Identities=18%  Similarity=0.131  Sum_probs=75.2

Q ss_pred             cCCCCCCcEEeCCCccccccCCCcccCCCC-cccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCC
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFLWLSGIS-LLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNF  100 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~-~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~  100 (289)
                      +.++++|++|++++|.+..++.   +..+. +|++|++++|.+... .   .+..+++|++|++++|.+....+..+..+
T Consensus        15 ~~~~~~L~~L~l~~n~l~~i~~---~~~~~~~L~~L~Ls~N~l~~~-~---~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l   87 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYKIPVIEN---LGATLDQFDAIDFSDNEIRKL-D---GFPLLRRLKTLLVNNNRICRIGEGLDQAL   87 (176)
T ss_dssp             EECTTSCEEEECTTSCCCSCCC---GGGGTTCCSEEECCSSCCCEE-C---CCCCCSSCCEEECCSSCCCEECSCHHHHC
T ss_pred             cCCcCCceEEEeeCCCCchhHH---hhhcCCCCCEEECCCCCCCcc-c---ccccCCCCCEEECCCCcccccCcchhhcC
Confidence            5556667777777666554422   23333 666666666666554 2   45566666666666666665543334566


Q ss_pred             CCCcEEeccCCCCCCcchhh--HhhcCCCCCEEEccCceeeeeeChh----hhcCCCCccEEeCCCCC
Q 040144          101 SSLTMLDLSHNQFDNSFILS--WVFALSHLPFLDLGFNNFQGTIDLE----ALGNLTSINRLDLSLNT  162 (289)
Q Consensus       101 ~~L~~L~l~~~~~~~~~~~~--~~~~~~~L~~L~l~~n~~~~~~~~~----~~~~~~~L~~L~l~~n~  162 (289)
                      ++|+.|++++|.++  .++.  .+..+++|+.|++++|.+. .. +.    .+..+++|+.++++.|.
T Consensus        88 ~~L~~L~L~~N~i~--~~~~~~~l~~l~~L~~L~l~~N~i~-~~-~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           88 PDLTELILTNNSLV--ELGDLDPLASLKSLTYLCILRNPVT-NK-KHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             TTCCEEECCSCCCC--CGGGGGGGGGCTTCCEEECCSSGGG-GS-TTHHHHHHHHCTTCSEETTEECC
T ss_pred             CCCCEEECCCCcCC--cchhhHhhhcCCCCCEEEecCCCCC-Cc-HhHHHHHHHHCCccceeCCCcCC
Confidence            66666666666664  2332  4555666666666666665 33 22    35566666666666654

>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=99.44  E-value=5.1e-13  Score=100.17  Aligned_cols=130  Identities=19%  Similarity=0.175  Sum_probs=106.3

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCC-CCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLS-NLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSL   79 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~-~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L   79 (289)
                      +++|++|++++|.++. ++. +..+. +|++|++++|.+....   .+..+++|++|++++|.+...++  ..+..+++|
T Consensus        18 ~~~L~~L~l~~n~l~~-i~~-~~~~~~~L~~L~Ls~N~l~~~~---~l~~l~~L~~L~Ls~N~l~~~~~--~~~~~l~~L   90 (176)
T 1a9n_A           18 AVRDRELDLRGYKIPV-IEN-LGATLDQFDAIDFSDNEIRKLD---GFPLLRRLKTLLVNNNRICRIGE--GLDQALPDL   90 (176)
T ss_dssp             TTSCEEEECTTSCCCS-CCC-GGGGTTCCSEEECCSSCCCEEC---CCCCCSSCCEEECCSSCCCEECS--CHHHHCTTC
T ss_pred             cCCceEEEeeCCCCch-hHH-hhhcCCCCCEEECCCCCCCccc---ccccCCCCCEEECCCCcccccCc--chhhcCCCC
Confidence            3679999999999984 454 55554 9999999999877662   37889999999999999987653  135789999


Q ss_pred             cEEEccCCccCCCCc-ccccCCCCCcEEeccCCCCCCcchhh----HhhcCCCCCEEEccCceee
Q 040144           80 VELRLSNCQLQHFSP-LATVNFSSLTMLDLSHNQFDNSFILS----WVFALSHLPFLDLGFNNFQ  139 (289)
Q Consensus        80 ~~L~l~~~~l~~~~~-~~l~~~~~L~~L~l~~~~~~~~~~~~----~~~~~~~L~~L~l~~n~~~  139 (289)
                      ++|++++|.+..... ..+..+++|+.|++++|.++  ..+.    .+..+++|+.|++++|...
T Consensus        91 ~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~--~~~~~~~~~~~~l~~L~~Ld~~~n~~~  153 (176)
T 1a9n_A           91 TELILTNNSLVELGDLDPLASLKSLTYLCILRNPVT--NKKHYRLYVIYKVPQVRVLDFQKVKLK  153 (176)
T ss_dssp             CEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGG--GSTTHHHHHHHHCTTCSEETTEECCHH
T ss_pred             CEEECCCCcCCcchhhHhhhcCCCCCEEEecCCCCC--CcHhHHHHHHHHCCccceeCCCcCCHH
Confidence            999999999977543 36788999999999999985  3444    3788999999999999765

>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=99.43  E-value=2.3e-15  Score=115.32  Aligned_cols=133  Identities=22%  Similarity=0.207  Sum_probs=81.8

Q ss_pred             hhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccc
Q 040144          119 LSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHL  197 (289)
Q Consensus       119 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~  197 (289)
                      +..+..+++|++|++++|.+.+ + + .+..+++|++|++++|. +. .+|..+. +++|+.|++      ++|.+++ +
T Consensus        41 ~~~~~~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           41 DATLSTLKACKHLALSTNNIEK-I-S-SLSGMENLRILSLGRNL-IK-KIENLDAVADTLEELWI------SYNQIAS-L  108 (198)
T ss_dssp             HHHHHHTTTCSEEECSEEEESC-C-C-CHHHHTTCCEEEEEEEE-EC-SCSSHHHHHHHCSEEEE------EEEECCC-H
T ss_pred             hHHHhcCCCCCEEECCCCCCcc-c-c-ccccCCCCCEEECCCCC-cc-cccchhhcCCcCCEEEC------cCCcCCc-C
Confidence            3356666677777777766653 4 3 56666677777777666 44 4555555 566666665      5566654 2


Q ss_pred             cccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeecc-ccccccccccEEEecCCeeeeccCCC----------
Q 040144          198 TDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFE-LHFANLIEMSWFRVGGNQLTLEVKHD----------  266 (289)
Q Consensus       198 ~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~-~~~~~~~~L~~l~l~~n~~~~~~~~~----------  266 (289)
                      | .+..+++|+.|++++|.++                  .++. ..+..+++|+.|++++|++.+..|..          
T Consensus       109 ~-~~~~l~~L~~L~l~~N~i~------------------~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~  169 (198)
T 1ds9_A          109 S-GIEKLVNLRVLYMSNNKIT------------------NWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEV  169 (198)
T ss_dssp             H-HHHHHHHSSEEEESEEECC------------------CHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHH
T ss_pred             C-ccccCCCCCEEECCCCcCC------------------chhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHH
Confidence            3 4566667777777766655                  2221 24667777777777777776654442          


Q ss_pred             ccccccccEEecccccCc
Q 040144          267 WIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       267 ~~~~~~L~~l~l~~n~~~  284 (289)
                      +..+++|+.||  ++.++
T Consensus       170 ~~~l~~L~~Ld--~~~i~  185 (198)
T 1ds9_A          170 VKRLPNLKKLD--GMPVD  185 (198)
T ss_dssp             HHHCSSCSEEC--CGGGT
T ss_pred             HHhCCCcEEEC--CcccC
Confidence            56677777776  55554

>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=99.42  E-value=1.7e-15  Score=115.97  Aligned_cols=128  Identities=24%  Similarity=0.225  Sum_probs=68.0

Q ss_pred             CcEEEccCCcccccCCC------ccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCC
Q 040144            4 LRYLNFSKTRICGIIPQ------QLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLL   77 (289)
Q Consensus         4 L~~L~l~~~~~~~~~~~------~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~   77 (289)
                      ++.+++..+.+++..|.      .+..+++|++|++++|.+..++   .+..+++|++|++++|.+...+.   .+..++
T Consensus        20 l~~l~l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n~l~~l~---~~~~l~~L~~L~l~~n~l~~l~~---~~~~~~   93 (198)
T 1ds9_A           20 VVATEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKIS---SLSGMENLRILSLGRNLIKKIEN---LDAVAD   93 (198)
T ss_dssp             CCCTTCSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEEEESCCC---CHHHHTTCCEEEEEEEEECSCSS---HHHHHH
T ss_pred             ccCcchheeEeccccCcHhhhhHHHhcCCCCCEEECCCCCCcccc---ccccCCCCCEEECCCCCcccccc---hhhcCC
Confidence            34444444555444444      5566666666666666554433   24556666666666666554433   334445


Q ss_pred             CccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceee
Q 040144           78 SLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQ  139 (289)
Q Consensus        78 ~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  139 (289)
                      +|++|++++|.+... + .+..+++|+.|++++|.++.......+..+++|++|++++|.+.
T Consensus        94 ~L~~L~L~~N~l~~l-~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~  153 (198)
T 1ds9_A           94 TLEELWISYNQIASL-S-GIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             HCSEEEEEEEECCCH-H-HHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHH
T ss_pred             cCCEEECcCCcCCcC-C-ccccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCccc
Confidence            666666666655543 1 34555566666666665541111123455556666666666554

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.33  E-value=1.8e-14  Score=120.82  Aligned_cols=186  Identities=18%  Similarity=0.152  Sum_probs=105.7

Q ss_pred             CCCccEEEccCCccCCCCccccc-----CCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhh---
Q 040144           76 LLSLVELRLSNCQLQHFSPLATV-----NFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEAL---  147 (289)
Q Consensus        76 ~~~L~~L~l~~~~l~~~~~~~l~-----~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~---  147 (289)
                      ++.|++|++++|.++......+.     ..++|+.|++++|.+++.........+.+|++|++++|.+.... ...+   
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~-~~~L~~~  149 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEA-CKDLRDL  149 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHH-HHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHH-HHHHHHH
Confidence            35677888888777653222222     22577788888887763223333334567788888888775322 2222   


Q ss_pred             --cCCCCccEEeCCCCCcccCC----CCcccc-ccCcceeeccccccccCCccccc----ccccccCCCCCcEEEccCCe
Q 040144          148 --GNLTSINRLDLSLNTGLTGR----IPRSMA-LCNLKSINLQESLDMRSSSIYGH----LTDQLGQFRNLVTFNLVNNS  216 (289)
Q Consensus       148 --~~~~~L~~L~l~~n~~~~~~----~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~----~~~~l~~~~~L~~L~l~~n~  216 (289)
                        ...++|++|++++|. +.+.    ++..+. .++|++|++      ++|.++..    ++..+..+++|+.|++++|.
T Consensus       150 L~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~L~~~~~L~~L~L------s~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~  222 (372)
T 3un9_A          150 LLHDQCQITTLRLSNNP-LTAAGVAVLMEGLAGNTSVTHLSL------LHTGLGDEGLELLAAQLDRNRQLQELNVAYNG  222 (372)
T ss_dssp             HHSTTCCCCEEECCSSC-CHHHHHHHHHHHHHTCSSCCEEEC------TTSSCHHHHHHHHHHHGGGCSCCCEEECCSSC
T ss_pred             HHhcCCccceeeCCCCC-CChHHHHHHHHHHhcCCCcCEEeC------CCCCCCcHHHHHHHHHHhcCCCcCeEECCCCC
Confidence              235678888888777 5432    222233 556666665      66666543    24456667788888888887


Q ss_pred             eeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCcccc---c--cccEEe--cccccC
Q 040144          217 IVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPH---F--QLVALG--LHSCYI  283 (289)
Q Consensus       217 ~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~---~--~L~~l~--l~~n~~  283 (289)
                      +++...             ..++. .+..+++|++|++++|.+++.....+...   .  .++.+.  +.++.+
T Consensus       223 i~~~g~-------------~~l~~-~L~~~~~L~~L~Ls~N~i~~~g~~~L~~~~~~~~~~L~~l~~ll~~~~~  282 (372)
T 3un9_A          223 AGDTAA-------------LALAR-AAREHPSLELLHLYFNELSSEGRQVLRDLGGAAEGGARVVVSLTEGTAV  282 (372)
T ss_dssp             CCHHHH-------------HHHHH-HHHHCSSCCEEECTTSSCCHHHHHHHHHCC------CEEECCCC----C
T ss_pred             CCHHHH-------------HHHHH-HHHhCCCCCEEeccCCCCCHHHHHHHHHHhcCCCccchhhHhhhcCCcc
Confidence            763311             12333 45566788888888888876544433222   1  155555  555544

>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=99.32  E-value=9.9e-12  Score=92.50  Aligned_cols=105  Identities=16%  Similarity=0.179  Sum_probs=63.0

Q ss_pred             CCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCC
Q 040144          128 LPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRN  206 (289)
Q Consensus       128 L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~  206 (289)
                      .+.++++++.+. .+ |..+  .+++++|++++|. +.+..|..+. +++|+.|++      ++|.+++..+..+..+++
T Consensus        11 ~~~l~~s~n~l~-~i-p~~~--~~~l~~L~L~~N~-i~~~~~~~~~~l~~L~~L~L------s~N~l~~l~~~~f~~l~~   79 (170)
T 3g39_A           11 GTTVDCSGKSLA-SV-PTGI--PTTTQVLYLYDNQ-ITKLEPGVFDRLTQLTRLDL------DNNQLTVLPAGVFDKLTQ   79 (170)
T ss_dssp             TTEEECTTSCCS-SC-CSCC--CTTCSEEECCSSC-CCCCCTTTTTTCTTCSEEEC------CSSCCCCCCTTTTTTCTT
T ss_pred             CCEEEeCCCCcC-cc-CccC--CCCCcEEEcCCCc-CCccChhhhcCcccCCEEEC------CCCCcCccChhhccCCCC
Confidence            456666666665 34 3333  2566677777666 5544455555 666666664      666666555555666666


Q ss_pred             CcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeee
Q 040144          207 LVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       207 L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                      |+.|++++|.++                  .++...+.++++|+.|++++|++..
T Consensus        80 L~~L~L~~N~l~------------------~~~~~~~~~l~~L~~L~L~~N~~~c  116 (170)
T 3g39_A           80 LTQLSLNDNQLK------------------SIPRGAFDNLKSLTHIWLLNNPWDC  116 (170)
T ss_dssp             CCEEECCSSCCC------------------CCCTTTTTTCTTCCEEECCSSCBCT
T ss_pred             CCEEECCCCccC------------------EeCHHHhcCCCCCCEEEeCCCCCCC
Confidence            666666666655                  2333246666777777777776654

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.31  E-value=1.1e-13  Score=115.97  Aligned_cols=110  Identities=16%  Similarity=0.130  Sum_probs=50.9

Q ss_pred             CcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccc-----cCCCCCcEEeccCCCCCCcc---hhhHh
Q 040144           51 SLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLAT-----VNFSSLTMLDLSHNQFDNSF---ILSWV  122 (289)
Q Consensus        51 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l-----~~~~~L~~L~l~~~~~~~~~---~~~~~  122 (289)
                      ..|++|++++|.+..... ......+++|++|++++|.++......+     ...++|+.|++++|.+++..   +...+
T Consensus       101 ~~L~~L~Ls~n~l~~~~~-~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L  179 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGL-RTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGL  179 (372)
T ss_dssp             SCEEEEECTTCCCCHHHH-HHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHH
T ss_pred             CCceEEEecCCCCCHHHH-HHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHH
Confidence            455566665555443210 0111223355566666665544322222     12455666666666554111   12223


Q ss_pred             hcCCCCCEEEccCceeeee----eChhhhcCCCCccEEeCCCCC
Q 040144          123 FALSHLPFLDLGFNNFQGT----IDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       123 ~~~~~L~~L~l~~n~~~~~----~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ...++|++|++++|.+.+.    + ...+...++|++|++++|.
T Consensus       180 ~~~~~L~~L~Ls~N~l~~~g~~~L-~~~L~~~~~L~~L~Ls~N~  222 (372)
T 3un9_A          180 AGNTSVTHLSLLHTGLGDEGLELL-AAQLDRNRQLQELNVAYNG  222 (372)
T ss_dssp             HTCSSCCEEECTTSSCHHHHHHHH-HHHGGGCSCCCEEECCSSC
T ss_pred             hcCCCcCEEeCCCCCCCcHHHHHH-HHHHhcCCCcCeEECCCCC
Confidence            4455566666666655421    1 2334445556666666665

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.30  E-value=1.5e-11  Score=91.87  Aligned_cols=105  Identities=18%  Similarity=0.228  Sum_probs=66.9

Q ss_pred             CCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCC
Q 040144          128 LPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRN  206 (289)
Q Consensus       128 L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~  206 (289)
                      -+.++++++.+. .+ |..+.  ++|++|++++|. +.+..|..+. +++|+.|++      ++|.+++..+..+..+++
T Consensus        14 ~~~l~~~~n~l~-~i-P~~~~--~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L------s~N~l~~i~~~~~~~l~~   82 (174)
T 2r9u_A           14 QTLVNCQNIRLA-SV-PAGIP--TDKQRLWLNNNQ-ITKLEPGVFDHLVNLQQLYF------NSNKLTAIPTGVFDKLTQ   82 (174)
T ss_dssp             SSEEECCSSCCS-SC-CSCCC--TTCSEEECCSSC-CCCCCTTTTTTCTTCCEEEC------CSSCCCCCCTTTTTTCTT
T ss_pred             CcEEEeCCCCCC-cc-CCCcC--CCCcEEEeCCCC-ccccCHHHhcCCcCCCEEEC------CCCCCCccChhHhCCcch
Confidence            356677777665 45 44332  567777777777 5555555566 666776665      666676655555666777


Q ss_pred             CcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeee
Q 040144          207 LVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       207 L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                      |+.|++++|.++                  .++...+.++++|+.|++++|++..
T Consensus        83 L~~L~L~~N~l~------------------~l~~~~~~~l~~L~~L~L~~N~~~c  119 (174)
T 2r9u_A           83 LTQLDLNDNHLK------------------SIPRGAFDNLKSLTHIYLYNNPWDC  119 (174)
T ss_dssp             CCEEECCSSCCC------------------CCCTTTTTTCTTCSEEECCSSCBCT
T ss_pred             hhEEECCCCccc------------------eeCHHHhccccCCCEEEeCCCCccc
Confidence            777777766665                  3333246677777777777777764

>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=99.23  E-value=4.8e-11  Score=88.75  Aligned_cols=103  Identities=24%  Similarity=0.191  Sum_probs=57.3

Q ss_pred             ccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEE
Q 040144           53 LEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLD  132 (289)
Q Consensus        53 L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~  132 (289)
                      .+.++++++.+...+.   .+  .+.+++|++++|.++...+..+..+++|+.|++++|.++ ...+..+..+++|++|+
T Consensus        11 ~~~l~~s~n~l~~ip~---~~--~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~-~l~~~~f~~l~~L~~L~   84 (170)
T 3g39_A           11 GTTVDCSGKSLASVPT---GI--PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLT-VLPAGVFDKLTQLTQLS   84 (170)
T ss_dssp             TTEEECTTSCCSSCCS---CC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCC-CCCTTTTTTCTTCCEEE
T ss_pred             CCEEEeCCCCcCccCc---cC--CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcC-ccChhhccCCCCCCEEE
Confidence            3455555555544432   11  245666666666666555555566666666666666665 33333345566666666


Q ss_pred             ccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144          133 LGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       133 l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      +++|.+. .+++..+..+++|++|++++|.
T Consensus        85 L~~N~l~-~~~~~~~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           85 LNDNQLK-SIPRGAFDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             CCSSCCC-CCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCCCccC-EeCHHHhcCCCCCCEEEeCCCC
Confidence            6666665 3324456666666666666665

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.20  E-value=9.1e-11  Score=87.56  Aligned_cols=102  Identities=22%  Similarity=0.217  Sum_probs=55.7

Q ss_pred             cEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEc
Q 040144           54 EHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDL  133 (289)
Q Consensus        54 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l  133 (289)
                      +.++++++.+...+.   .+  .++|++|++++|.+....+..+..+++|+.|++++|.++ ...+..+..+++|++|++
T Consensus        15 ~~l~~~~n~l~~iP~---~~--~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~~l~~L~~L~L   88 (174)
T 2r9u_A           15 TLVNCQNIRLASVPA---GI--PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLT-AIPTGVFDKLTQLTQLDL   88 (174)
T ss_dssp             SEEECCSSCCSSCCS---CC--CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEEC
T ss_pred             cEEEeCCCCCCccCC---Cc--CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCC-ccChhHhCCcchhhEEEC
Confidence            345555555444332   11  145666666666666555555566666666666666664 222223445666666666


Q ss_pred             cCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144          134 GFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       134 ~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ++|.+. .+++..+..+++|+.|++++|.
T Consensus        89 ~~N~l~-~l~~~~~~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A           89 NDNHLK-SIPRGAFDNLKSLTHIYLYNNP  116 (174)
T ss_dssp             CSSCCC-CCCTTTTTTCTTCSEEECCSSC
T ss_pred             CCCccc-eeCHHHhccccCCCEEEeCCCC
Confidence            666665 3323446666666666666665

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=99.17  E-value=6.8e-10  Score=93.92  Aligned_cols=260  Identities=11%  Similarity=0.037  Sum_probs=134.4

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCc------------ccccc--
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV------------NLSIA--   66 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~------------~~~~~--   66 (289)
                      |.+|+++.|.. .++.....+|.++++|+.+++.++ ...++... +.++..|+.+.+..+            .....  
T Consensus        70 c~~L~~i~lp~-~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~a-F~~c~~L~~i~~p~~l~~i~~~aF~~~~~~~~~~  146 (394)
T 4fs7_A           70 CRKVTEIKIPS-TVREIGEFAFENCSKLEIINIPDS-VKMIGRCT-FSGCYALKSILLPLMLKSIGVEAFKGCDFKEITI  146 (394)
T ss_dssp             CTTEEEEECCT-TCCEECTTTTTTCTTCCEECCCTT-CCEECTTT-TTTCTTCCCCCCCTTCCEECTTTTTTCCCSEEEC
T ss_pred             CCCceEEEeCC-CccCcchhHhhCCCCCcEEEeCCC-ceEccchh-hcccccchhhcccCceeeecceeeeccccccccc
Confidence            46788888874 366566788999999999999753 33333222 556666655543322            11000  


Q ss_pred             ch-----hhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeee-
Q 040144           67 FD-----WLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQG-  140 (289)
Q Consensus        67 ~~-----~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~-  140 (289)
                      +.     -...+..+.+|+.+.+..+. ..+....|.++.+|+.+.+..+ ++ ......+..+..|+.+.+..+.... 
T Consensus       147 ~~~~~~i~~~aF~~c~~L~~i~l~~~~-~~I~~~~F~~c~~L~~i~l~~~-~~-~I~~~~F~~~~~L~~i~~~~~~~~i~  223 (394)
T 4fs7_A          147 PEGVTVIGDEAFATCESLEYVSLPDSM-ETLHNGLFSGCGKLKSIKLPRN-LK-IIRDYCFAECILLENMEFPNSLYYLG  223 (394)
T ss_dssp             CTTCCEECTTTTTTCTTCCEEECCTTC-CEECTTTTTTCTTCCBCCCCTT-CC-EECTTTTTTCTTCCBCCCCTTCCEEC
T ss_pred             CccccccchhhhcccCCCcEEecCCcc-ceeccccccCCCCceEEEcCCC-ce-EeCchhhccccccceeecCCCceEee
Confidence            00     01245677888888887543 3344556777777877777654 22 1222233444445444443332110 


Q ss_pred             -------------------eeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCccccccccc
Q 040144          141 -------------------TIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQ  200 (289)
Q Consensus       141 -------------------~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~  200 (289)
                                         .+...++..+..++.+.+..+.  .......+. +..++...+.      ...   .....
T Consensus       224 ~~~~~~~~l~~i~ip~~~~~i~~~~f~~~~~l~~~~~~~~~--~~i~~~~F~~~~~l~~~~~~------~~~---i~~~~  292 (394)
T 4fs7_A          224 DFALSKTGVKNIIIPDSFTELGKSVFYGCTDLESISIQNNK--LRIGGSLFYNCSGLKKVIYG------SVI---VPEKT  292 (394)
T ss_dssp             TTTTTTCCCCEEEECTTCCEECSSTTTTCSSCCEEEECCTT--CEECSCTTTTCTTCCEEEEC------SSE---ECTTT
T ss_pred             hhhcccCCCceEEECCCceecccccccccccceeEEcCCCc--ceeeccccccccccceeccC------cee---ecccc
Confidence                               1112334444555555554332  111111222 3333333221      100   11223


Q ss_pred             ccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccc
Q 040144          201 LGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQL  273 (289)
Q Consensus       201 l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L  273 (289)
                      +..+.+|+.+.+..+ +.......+       .+++.++ ++ .+...+|.+|++|+.+.+..+ ++.....+|..|++|
T Consensus       293 F~~~~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i~lp~~-v~-~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L  368 (394)
T 4fs7_A          293 FYGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSIDLPYL-VE-EIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINL  368 (394)
T ss_dssp             TTTCTTCCEEEECTT-CCEECTTTTTTCTTCCEECCCTT-CC-EECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTC
T ss_pred             ccccccccccccccc-cceechhhhcCCCCCCEEEeCCc-cc-EEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCC
Confidence            445555555555433 211111111       3444322 33 566667888888998888766 665566778888888


Q ss_pred             cEEecccc
Q 040144          274 VALGLHSC  281 (289)
Q Consensus       274 ~~l~l~~n  281 (289)
                      +.+++..+
T Consensus       369 ~~i~lp~~  376 (394)
T 4fs7_A          369 KKVELPKR  376 (394)
T ss_dssp             CEEEEEGG
T ss_pred             CEEEECCC
Confidence            88888654

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=99.15  E-value=4.3e-09  Score=88.97  Aligned_cols=101  Identities=11%  Similarity=0.035  Sum_probs=50.1

Q ss_pred             CcEEEccCCcccccCCCccCCCCCCcEEeCCCcc---ccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            4 LRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKY---LLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         4 L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~---~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      |+++.+... ++.....+|.++.+|+.+.+..+.   +..++... +.++..|+.+.+..+ +.....  ..+..+..|+
T Consensus        66 L~sI~iP~s-vt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~a-F~~c~~L~~i~~~~~-~~~I~~--~aF~~c~~L~  140 (394)
T 4gt6_A           66 LTSVQIPDT-VTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQA-FMFCSELTDIPILDS-VTEIDS--EAFHHCEELD  140 (394)
T ss_dssp             CCEEEECTT-CCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTT-TTTCTTCCBCGGGTT-CSEECT--TTTTTCTTCC
T ss_pred             CEEEEECCC-eeEEhHHHhhCCccCceEeecCCCCCeeeEechhh-chhcccceeeccCCc-cceehh--hhhhhhcccc
Confidence            566666532 444455667777777777765432   22233222 455666665555433 111111  1345566666


Q ss_pred             EEEccCCccCCCCcccccCCCCCcEEeccC
Q 040144           81 ELRLSNCQLQHFSPLATVNFSSLTMLDLSH  110 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~  110 (289)
                      .+.+... +..+....+..+..|+.+.+..
T Consensus       141 ~i~lp~~-~~~I~~~~F~~c~~L~~i~~~~  169 (394)
T 4gt6_A          141 TVTIPEG-VTSVADGMFSYCYSLHTVTLPD  169 (394)
T ss_dssp             EEECCTT-CCEECTTTTTTCTTCCEEECCT
T ss_pred             cccccce-eeeecccceecccccccccccc
Confidence            6666532 2223334445555555555543

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=99.12  E-value=4.5e-09  Score=88.87  Aligned_cols=251  Identities=11%  Similarity=0.049  Sum_probs=133.6

Q ss_pred             ccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCC--
Q 040144           14 ICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQH--   91 (289)
Q Consensus        14 ~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~--   91 (289)
                      ++.....+|.++.+|+++.+.. .+..++... +.+|.+|+.+++..+ +.....  ..+..+..|+.+.+..+ +..  
T Consensus        59 VtsIg~~AF~~c~~L~~i~lp~-~i~~I~~~a-F~~c~~L~~i~lp~~-l~~I~~--~aF~~c~~L~~i~~p~~-l~~i~  132 (394)
T 4fs7_A           59 VVSIGYAAFQGCRKVTEIKIPS-TVREIGEFA-FENCSKLEIINIPDS-VKMIGR--CTFSGCYALKSILLPLM-LKSIG  132 (394)
T ss_dssp             EEEECTTTTTTCTTEEEEECCT-TCCEECTTT-TTTCTTCCEECCCTT-CCEECT--TTTTTCTTCCCCCCCTT-CCEEC
T ss_pred             EeEhHHHHhhCCCCceEEEeCC-CccCcchhH-hhCCCCCcEEEeCCC-ceEccc--hhhcccccchhhcccCc-eeeec
Confidence            5566778899999999999975 345555444 789999999999755 333221  14566666666555432 111  


Q ss_pred             --------------------CCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCC
Q 040144           92 --------------------FSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLT  151 (289)
Q Consensus        92 --------------------~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~  151 (289)
                                          .....|..+.+|+.+.+..+..  ......+..+.+|+.+.+..+ +. .+...+|..+.
T Consensus       133 ~~aF~~~~~~~~~~~~~~~~i~~~aF~~c~~L~~i~l~~~~~--~I~~~~F~~c~~L~~i~l~~~-~~-~I~~~~F~~~~  208 (394)
T 4fs7_A          133 VEAFKGCDFKEITIPEGVTVIGDEAFATCESLEYVSLPDSME--TLHNGLFSGCGKLKSIKLPRN-LK-IIRDYCFAECI  208 (394)
T ss_dssp             TTTTTTCCCSEEECCTTCCEECTTTTTTCTTCCEEECCTTCC--EECTTTTTTCTTCCBCCCCTT-CC-EECTTTTTTCT
T ss_pred             ceeeecccccccccCccccccchhhhcccCCCcEEecCCccc--eeccccccCCCCceEEEcCCC-ce-EeCchhhcccc
Confidence                                1223345556666666654322  122233445566666666544 22 23244555555


Q ss_pred             CccEEeCCCCCcccCCCCcccc-ccCcceeeccccc-----------------cccCCcccccccccccCCCCCcEEEcc
Q 040144          152 SINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESL-----------------DMRSSSIYGHLTDQLGQFRNLVTFNLV  213 (289)
Q Consensus       152 ~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l-----------------~l~~~~~~~~~~~~l~~~~~L~~L~l~  213 (289)
                      .|+.+.+..+. .  ....... ...|+.+.+...+                 .+..+ ........+..+..++.+...
T Consensus       209 ~L~~i~~~~~~-~--~i~~~~~~~~~l~~i~ip~~~~~i~~~~f~~~~~l~~~~~~~~-~~~i~~~~F~~~~~l~~~~~~  284 (394)
T 4fs7_A          209 LLENMEFPNSL-Y--YLGDFALSKTGVKNIIIPDSFTELGKSVFYGCTDLESISIQNN-KLRIGGSLFYNCSGLKKVIYG  284 (394)
T ss_dssp             TCCBCCCCTTC-C--EECTTTTTTCCCCEEEECTTCCEECSSTTTTCSSCCEEEECCT-TCEECSCTTTTCTTCCEEEEC
T ss_pred             ccceeecCCCc-e--EeehhhcccCCCceEEECCCceecccccccccccceeEEcCCC-cceeeccccccccccceeccC
Confidence            55555554432 1  1111111 3344444332100                 00000 111122233444444444444


Q ss_pred             CCeeeecC----CCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccc
Q 040144          214 NNSIVGFI----PWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSC  281 (289)
Q Consensus       214 ~n~~~~~~----~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n  281 (289)
                      ...+....    .....+.+.++ +. .++...|.+|++|+.+++.++ ++.....+|..|++|+.+++..+
T Consensus       285 ~~~i~~~~F~~~~~L~~i~l~~~-i~-~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~c~~L~~i~lp~~  353 (394)
T 4fs7_A          285 SVIVPEKTFYGCSSLTEVKLLDS-VK-FIGEEAFESCTSLVSIDLPYL-VEEIGKRSFRGCTSLSNINFPLS  353 (394)
T ss_dssp             SSEECTTTTTTCTTCCEEEECTT-CC-EECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCEECCCTT
T ss_pred             ceeeccccccccccccccccccc-cc-eechhhhcCCCCCCEEEeCCc-ccEEhHHhccCCCCCCEEEECcc
Confidence            33322110    00014555443 43 566667888999999999754 66555678889999999988765

>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=99.00  E-value=1.5e-09  Score=90.24  Aligned_cols=103  Identities=17%  Similarity=0.153  Sum_probs=60.2

Q ss_pred             EEEccCc-eeeeeeChhhhcCCCCccEEeCCC-CCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCC
Q 040144          130 FLDLGFN-NFQGTIDLEALGNLTSINRLDLSL-NTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRN  206 (289)
Q Consensus       130 ~L~l~~n-~~~~~~~~~~~~~~~~L~~L~l~~-n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~  206 (289)
                      .++.+++ .++ .+ |. +..+++|+.|+|++ |. +....+..+. +++|+.|++      ++|.+++..+..|..+++
T Consensus        12 ~v~~~~~n~l~-~i-p~-l~~~~~L~~L~l~~~n~-l~~~~~~~~~~l~~L~~L~l------~~N~l~~~~~~~~~~l~~   81 (347)
T 2ifg_A           12 GLRCTRDGALD-SL-HH-LPGAENLTELYIENQQH-LQHLELRDLRGLGELRNLTI------VKSGLRFVAPDAFHFTPR   81 (347)
T ss_dssp             CEECCSSCCCT-TT-TT-SCSCSCCSEEECCSCSS-CCEECGGGSCSCCCCSEEEC------CSSCCCEECTTGGGSCSC
T ss_pred             EEEcCCCCCCC-cc-CC-CCCCCCeeEEEccCCCC-CCCcChhHhccccCCCEEEC------CCCccceeCHHHhcCCcC
Confidence            3455555 555 45 44 66666777777764 65 5443344555 666666664      666666666666666666


Q ss_pred             CcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeee
Q 040144          207 LVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTL  261 (289)
Q Consensus       207 L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  261 (289)
                      |+.|+|++|.++                  .+|...+..++ |+.|++.+|++..
T Consensus        82 L~~L~l~~N~l~------------------~~~~~~~~~~~-L~~l~l~~N~~~c  117 (347)
T 2ifg_A           82 LSRLNLSFNALE------------------SLSWKTVQGLS-LQELVLSGNPLHC  117 (347)
T ss_dssp             CCEEECCSSCCS------------------CCCSTTTCSCC-CCEEECCSSCCCC
T ss_pred             CCEEeCCCCccc------------------eeCHHHcccCC-ceEEEeeCCCccC
Confidence            666666666665                  23321333333 7777777776653

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.98  E-value=1.9e-08  Score=84.97  Aligned_cols=255  Identities=13%  Similarity=0.101  Sum_probs=117.3

Q ss_pred             CCCCcEEEccCCc---ccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCC
Q 040144            1 MGNLRYLNFSKTR---ICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLL   77 (289)
Q Consensus         1 ~~~L~~L~l~~~~---~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~   77 (289)
                      |.+|+++.+..+.   ++.....+|..+..|+.+.+..+ ...++... +..+..|+.+.+..........   .+..+.
T Consensus        86 C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~a-F~~c~~L~~i~lp~~~~~I~~~---~F~~c~  160 (394)
T 4gt6_A           86 CTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEA-FHHCEELDTVTIPEGVTSVADG---MFSYCY  160 (394)
T ss_dssp             CTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTT-TTTCTTCCEEECCTTCCEECTT---TTTTCT
T ss_pred             CccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehhhh-hhhhcccccccccceeeeeccc---ceeccc
Confidence            4678888887652   55555677888888887776542 23333222 5667777777775432111111   445556


Q ss_pred             CccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCC-------------------------------
Q 040144           78 SLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALS-------------------------------  126 (289)
Q Consensus        78 ~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~-------------------------------  126 (289)
                      .|+.+.+..+ +..+....|.. ..|+.+.+..+...  .....+..+.                               
T Consensus       161 ~L~~i~~~~~-~~~I~~~aF~~-~~l~~i~ip~~~~~--i~~~af~~c~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  236 (394)
T 4gt6_A          161 SLHTVTLPDS-VTAIEERAFTG-TALTQIHIPAKVTR--IGTNAFSECFALSTITSDSESYPAIDNVLYEKSANGDYALI  236 (394)
T ss_dssp             TCCEEECCTT-CCEECTTTTTT-CCCSEEEECTTCCE--ECTTTTTTCTTCCEEEECCSSSCBSSSCEEEECTTSCEEEE
T ss_pred             ccccccccce-eeEeccccccc-cceeEEEECCcccc--cccchhhhccccceecccccccccccceeeccccccccccc
Confidence            6666666543 22222222221 23444443322110  0011111111                               


Q ss_pred             ------CCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccc
Q 040144          127 ------HLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTD  199 (289)
Q Consensus       127 ------~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~  199 (289)
                            .+..+.+... +. .+...+|..+..|+.+.+..+.  .......+. +..|+.+.+       .+.+......
T Consensus       237 ~~~~~~~~~~~~ip~~-v~-~i~~~aF~~c~~L~~i~lp~~~--~~I~~~aF~~c~~L~~i~l-------~~~i~~I~~~  305 (394)
T 4gt6_A          237 RYPSQREDPAFKIPNG-VA-RIETHAFDSCAYLASVKMPDSV--VSIGTGAFMNCPALQDIEF-------SSRITELPES  305 (394)
T ss_dssp             ECCTTCCCSEEECCTT-EE-EECTTTTTTCSSCCEEECCTTC--CEECTTTTTTCTTCCEEEC-------CTTCCEECTT
T ss_pred             ccccccccceEEcCCc-ce-EcccceeeecccccEEeccccc--ceecCcccccccccccccC-------CCcccccCce
Confidence                  2222332221 22 2224567777777777775543  222233444 677777765       2334444455


Q ss_pred             cccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCcccccc
Q 040144          200 QLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQ  272 (289)
Q Consensus       200 ~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~  272 (289)
                      +|.+|.+|+.+.+..+ ++......+       .+.+-.+ ++ .+...+|.+|++|+.+++.++....   ..+..+.+
T Consensus       306 aF~~c~~L~~i~lp~~-v~~I~~~aF~~C~~L~~i~ip~s-v~-~I~~~aF~~C~~L~~i~~~~~~~~~---~~~~~~~~  379 (394)
T 4gt6_A          306 VFAGCISLKSIDIPEG-ITQILDDAFAGCEQLERIAIPSS-VT-KIPESAFSNCTALNNIEYSGSRSQW---NAISTDSG  379 (394)
T ss_dssp             TTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEECTT-CC-BCCGGGGTTCTTCCEEEESSCHHHH---HTCBCCCC
T ss_pred             eecCCCCcCEEEeCCc-ccEehHhHhhCCCCCCEEEECcc-cC-EEhHhHhhCCCCCCEEEECCceeeh---hhhhccCC
Confidence            6777777777777543 221111111       2222221 22 3444455566666666666554321   23444555


Q ss_pred             ccEEecccc
Q 040144          273 LVALGLHSC  281 (289)
Q Consensus       273 L~~l~l~~n  281 (289)
                      |+.+.+..+
T Consensus       380 L~~i~i~~~  388 (394)
T 4gt6_A          380 LQNLPVAPG  388 (394)
T ss_dssp             C--------
T ss_pred             CCEEEeCCC
Confidence            555555544

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.92  E-value=2.9e-10  Score=94.61  Aligned_cols=39  Identities=10%  Similarity=0.192  Sum_probs=19.3

Q ss_pred             ccccccccEEEecCCeeeeccCCCccccccccEEeccccc
Q 040144          243 FANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCY  282 (289)
Q Consensus       243 ~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~  282 (289)
                      +.++++|+.|++++|.+++.....+...- -..++++.++
T Consensus       303 L~~l~~L~~L~L~~n~i~d~~~~~l~~al-g~~~~~~~~~  341 (362)
T 2ra8_A          303 VDKIKHLKFINMKYNYLSDEMKKELQKSL-PMKIDVSDSQ  341 (362)
T ss_dssp             HHHHTTCSEEECCSBBCCHHHHHHHHHHC-CSEEECCSBC
T ss_pred             cccCCcceEEECCCCcCCHHHHHHHHHHc-CCEEEecCCc
Confidence            34566666666666666654333332210 2345555543

>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=98.90  E-value=5.9e-09  Score=86.57  Aligned_cols=104  Identities=18%  Similarity=0.173  Sum_probs=76.1

Q ss_pred             cEEEccCC-ccCCCCcccccCCCCCcEEeccC-CCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEe
Q 040144           80 VELRLSNC-QLQHFSPLATVNFSSLTMLDLSH-NQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLD  157 (289)
Q Consensus        80 ~~L~l~~~-~l~~~~~~~l~~~~~L~~L~l~~-~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~  157 (289)
                      ..++.+++ .++.+ |. +..+.+|+.|++++ |.++ ...+..+..+++|++|++++|.+.+.. +..|..+++|+.|+
T Consensus        11 ~~v~~~~~n~l~~i-p~-l~~~~~L~~L~l~~~n~l~-~~~~~~~~~l~~L~~L~l~~N~l~~~~-~~~~~~l~~L~~L~   86 (347)
T 2ifg_A           11 SGLRCTRDGALDSL-HH-LPGAENLTELYIENQQHLQ-HLELRDLRGLGELRNLTIVKSGLRFVA-PDAFHFTPRLSRLN   86 (347)
T ss_dssp             SCEECCSSCCCTTT-TT-SCSCSCCSEEECCSCSSCC-EECGGGSCSCCCCSEEECCSSCCCEEC-TTGGGSCSCCCEEE
T ss_pred             CEEEcCCCCCCCcc-CC-CCCCCCeeEEEccCCCCCC-CcChhHhccccCCCEEECCCCccceeC-HHHhcCCcCCCEEe
Confidence            34577776 77765 44 78888899999986 8886 544566788899999999999888544 77888999999999


Q ss_pred             CCCCCcccCCCCccccccCcceeeccccccccCCccc
Q 040144          158 LSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIY  194 (289)
Q Consensus       158 l~~n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~  194 (289)
                      |++|. +....+..+....|+.|++      .+|.+.
T Consensus        87 l~~N~-l~~~~~~~~~~~~L~~l~l------~~N~~~  116 (347)
T 2ifg_A           87 LSFNA-LESLSWKTVQGLSLQELVL------SGNPLH  116 (347)
T ss_dssp             CCSSC-CSCCCSTTTCSCCCCEEEC------CSSCCC
T ss_pred             CCCCc-cceeCHHHcccCCceEEEe------eCCCcc
Confidence            99998 6643333444223777775      666665

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.80  E-value=8.1e-09  Score=85.88  Aligned_cols=37  Identities=19%  Similarity=0.286  Sum_probs=16.6

Q ss_pred             CCCCCEEEccCceeeeeeChhhhc---CCCCccEEeCCCCC
Q 040144          125 LSHLPFLDLGFNNFQGTIDLEALG---NLTSINRLDLSLNT  162 (289)
Q Consensus       125 ~~~L~~L~l~~n~~~~~~~~~~~~---~~~~L~~L~l~~n~  162 (289)
                      +++|+.|++.+|.+.... +..+.   .+++|++|+++.|.
T Consensus       251 ~p~Lr~L~L~~~~i~~~~-~~~la~a~~~~~L~~LdLs~n~  290 (362)
T 2ra8_A          251 FPNLKWLGIVDAEEQNVV-VEMFLESDILPQLETMDISAGV  290 (362)
T ss_dssp             CTTCCEEEEESCTTHHHH-HHHHHHCSSGGGCSEEECCSSC
T ss_pred             CCCcCEEeCCCCCCchHH-HHHHHhCccCCCCCEEECCCCC
Confidence            445555555555443211 11111   24455555555554

>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=98.75  E-value=1.6e-06  Score=72.81  Aligned_cols=53  Identities=9%  Similarity=0.087  Sum_probs=33.7

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEecc
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLR   59 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~   59 (289)
                      +|+++.+.. .++.....+|.+|.+|+++.+..+ +..++... +.++ .|+.+.+.
T Consensus        47 ~i~~v~ip~-~vt~Ig~~aF~~C~~L~~I~lp~~-v~~Ig~~a-F~~c-~l~~i~~~   99 (379)
T 4h09_A           47 RISEVRVNS-GITSIGEANFNSCYNMTKVTVAST-VTSIGDGA-FADT-KLQSYTGM   99 (379)
T ss_dssp             GCSEEEECT-TEEEECTTTTTTCTTCCEEEECTT-CCEECTTT-TTTC-CCCEEEEC
T ss_pred             CCEEEEeCC-CccChHHHHhhCCCCCCEEEeCCc-ceEechhh-hcCC-CCceEECC
Confidence            567777754 355556678999999999998653 34444333 4555 46666554

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.58  E-value=3.5e-08  Score=74.17  Aligned_cols=115  Identities=11%  Similarity=0.076  Sum_probs=65.8

Q ss_pred             cCCCCcccEEeccCc-ccccc--chhhHhhhcCCCccEEEccCCccCCCCc----ccccCCCCCcEEeccCCCCCCcc--
Q 040144           47 LSGISLLEHLDLRYV-NLSIA--FDWLMVANKLLSLVELRLSNCQLQHFSP----LATVNFSSLTMLDLSHNQFDNSF--  117 (289)
Q Consensus        47 ~~~l~~L~~L~l~~~-~~~~~--~~~~~~~~~~~~L~~L~l~~~~l~~~~~----~~l~~~~~L~~L~l~~~~~~~~~--  117 (289)
                      +...+.|++|++++| .+...  ..+...+...++|++|++++|.+.....    ..+...++|++|++++|.+++..  
T Consensus        32 l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~  111 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGIL  111 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHH
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHH
Confidence            344566667777666 55443  2233345556667777777776654322    22334466777777777776322  


Q ss_pred             -hhhHhhcCCCCCEEEc--cCceeeee----eChhhhcCCCCccEEeCCCCC
Q 040144          118 -ILSWVFALSHLPFLDL--GFNNFQGT----IDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       118 -~~~~~~~~~~L~~L~l--~~n~~~~~----~~~~~~~~~~~L~~L~l~~n~  162 (289)
                       +...+...+.|++|++  ++|.+...    + ...+...+.|++|++++|.
T Consensus       112 ~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l-~~~L~~n~~L~~L~L~~n~  162 (185)
T 1io0_A          112 ALVEALQSNTSLIELRIDNQSQPLGNNVEMEI-ANMLEKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             HHHHGGGGCSSCCEEECCCCSSCCCHHHHHHH-HHHHHHCSSCCEEECCCSS
T ss_pred             HHHHHHHhCCCceEEEecCCCCCCCHHHHHHH-HHHHHhCCCcCEEeccCCC
Confidence             2233444566777777  66766532    2 2344455677777777776

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.57  E-value=3.9e-08  Score=73.94  Aligned_cols=117  Identities=13%  Similarity=0.038  Sum_probs=50.9

Q ss_pred             cCCCCCCcEEeCCCc-cccccCC---CcccCCCCcccEEeccCcccccc--chhhHhhhcCCCccEEEccCCccCCCC--
Q 040144           22 LGNLSNLQFLDLSSK-YLLYVDN---FLWLSGISLLEHLDLRYVNLSIA--FDWLMVANKLLSLVELRLSNCQLQHFS--   93 (289)
Q Consensus        22 l~~l~~L~~L~l~~~-~~~~~~~---~~~~~~l~~L~~L~l~~~~~~~~--~~~~~~~~~~~~L~~L~l~~~~l~~~~--   93 (289)
                      +...+.|++|++++| .+...+.   ...+...+.|++|++++|.+...  ..+...+...+.|++|++++|.++...  
T Consensus        32 l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~  111 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGIL  111 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHH
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHH
Confidence            344455555555555 3322111   01123344555555555554432  122223344455555555555554321  


Q ss_pred             --cccccCCCCCcEEec--cCCCCCCcc---hhhHhhcCCCCCEEEccCcee
Q 040144           94 --PLATVNFSSLTMLDL--SHNQFDNSF---ILSWVFALSHLPFLDLGFNNF  138 (289)
Q Consensus        94 --~~~l~~~~~L~~L~l--~~~~~~~~~---~~~~~~~~~~L~~L~l~~n~~  138 (289)
                        ...+...++|++|++  ++|.+++..   +...+...+.|++|++++|.+
T Consensus       112 ~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          112 ALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCC
Confidence              122334445555555  445554211   122233344555555555544

>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=98.44  E-value=4.2e-05  Score=64.01  Aligned_cols=83  Identities=12%  Similarity=0.031  Sum_probs=52.2

Q ss_pred             cccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCcc
Q 040144          196 HLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWI  268 (289)
Q Consensus       196 ~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~  268 (289)
                      ....++.++.+|+.+.+..+ +.......+       .+.+.++.+. .++...|.+|.+|+.+.+..+ ++.....+|.
T Consensus       254 I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~-~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~  330 (379)
T 4h09_A          254 IGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIE-TLEPRVFMDCVKLSSVTLPTA-LKTIQVYAFK  330 (379)
T ss_dssp             ECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCC-EECTTTTTTCTTCCEEECCTT-CCEECTTTTT
T ss_pred             eCccccceeehhcccccccc-ceeccccccccccccccccccccccc-eehhhhhcCCCCCCEEEcCcc-ccEEHHHHhh
Confidence            33455667777777777543 221111111       6677766666 566667888888888888754 5555556778


Q ss_pred             ccccccEEecccc
Q 040144          269 PHFQLVALGLHSC  281 (289)
Q Consensus       269 ~~~~L~~l~l~~n  281 (289)
                      .|++|+.+.+..+
T Consensus       331 ~C~~L~~i~ip~~  343 (379)
T 4h09_A          331 NCKALSTISYPKS  343 (379)
T ss_dssp             TCTTCCCCCCCTT
T ss_pred             CCCCCCEEEECCc
Confidence            8888887777543

>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=98.40  E-value=1.2e-07  Score=69.78  Aligned_cols=89  Identities=18%  Similarity=0.229  Sum_probs=65.9

Q ss_pred             CCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcC----CCccEEEccCCc-cCCCCcccccC
Q 040144           25 LSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKL----LSLVELRLSNCQ-LQHFSPLATVN   99 (289)
Q Consensus        25 l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~----~~L~~L~l~~~~-l~~~~~~~l~~   99 (289)
                      -..|++|++++|.+...+. ..+.++++|++|++++|....+.. ...+..+    ++|++|++++|. +++.....+..
T Consensus        60 ~~~L~~LDLs~~~Itd~GL-~~L~~~~~L~~L~L~~C~~ItD~g-L~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~  137 (176)
T 3e4g_A           60 KYKIQAIDATDSCIMSIGF-DHMEGLQYVEKIRLCKCHYIEDGC-LERLSQLENLQKSMLEMEIISCGNVTDKGIIALHH  137 (176)
T ss_dssp             CCCEEEEEEESCCCCGGGG-GGGTTCSCCCEEEEESCTTCCHHH-HHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGG
T ss_pred             CceEeEEeCcCCCccHHHH-HHhcCCCCCCEEEeCCCCccCHHH-HHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhc
Confidence            3479999999998655543 336789999999999996433321 1244443    579999999985 77765666788


Q ss_pred             CCCCcEEeccCCC-CCC
Q 040144          100 FSSLTMLDLSHNQ-FDN  115 (289)
Q Consensus       100 ~~~L~~L~l~~~~-~~~  115 (289)
                      +++|+.|++++|. +++
T Consensus       138 ~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          138 FRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             CTTCCEEEEESCTTCCC
T ss_pred             CCCCCEEECCCCCCCCc
Confidence            9999999999985 653

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.26  E-value=7.2e-07  Score=65.68  Aligned_cols=83  Identities=8%  Similarity=0.062  Sum_probs=38.7

Q ss_pred             CccEEEccCCccCCCCcccccCCCCCcEEeccCCC-CCCcchhhHhhcC----CCCCEEEccCce-eeeeeChhhhcCCC
Q 040144           78 SLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQ-FDNSFILSWVFAL----SHLPFLDLGFNN-FQGTIDLEALGNLT  151 (289)
Q Consensus        78 ~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~-~~~~~~~~~~~~~----~~L~~L~l~~n~-~~~~~~~~~~~~~~  151 (289)
                      .|++|++++|.++......+..+++|+.|++++|. ++|..+ ..+..+    ++|++|++++|. ++..- ...+..++
T Consensus        62 ~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL-~~L~~~~~~~~~L~~L~Ls~C~~ITD~G-l~~L~~~~  139 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCL-ERLSQLENLQKSMLEMEIISCGNVTDKG-IIALHHFR  139 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHH-HHHHTCHHHHHHCCEEEEESCTTCCHHH-HHHGGGCT
T ss_pred             eEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHH-HHHHhcccccCCCCEEEcCCCCcCCHHH-HHHHhcCC
Confidence            45555555555444433444455555555555552 442222 222222    245555555553 44222 23444555


Q ss_pred             CccEEeCCCCC
Q 040144          152 SINRLDLSLNT  162 (289)
Q Consensus       152 ~L~~L~l~~n~  162 (289)
                      +|++|+++++.
T Consensus       140 ~L~~L~L~~c~  150 (176)
T 3e4g_A          140 NLKYLFLSDLP  150 (176)
T ss_dssp             TCCEEEEESCT
T ss_pred             CCCEEECCCCC
Confidence            55555555554

>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=98.23  E-value=9.6e-07  Score=69.86  Aligned_cols=81  Identities=23%  Similarity=0.272  Sum_probs=41.8

Q ss_pred             CCCCCcEEeccCCCCCCc-chhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCc-------
Q 040144           99 NFSSLTMLDLSHNQFDNS-FILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPR-------  170 (289)
Q Consensus        99 ~~~~L~~L~l~~~~~~~~-~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~-------  170 (289)
                      .+++|+.|++++|.++.- .++..+..+++|+.|++++|.+.+......+..+ +|++|++++|. +.+..|.       
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~~l~~l~~l-~L~~L~L~~Np-l~~~~~~~~~y~~~  245 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGL-KLEELWLDGNS-LCDTFRDQSTYISA  245 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGGGGGGTTS-CCSEEECTTST-TGGGCSSHHHHHHH
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchhhhhcccC-CcceEEccCCc-CccccCcchhHHHH
Confidence            345566666666655410 2233445566666666666666532111222223 66677777666 5544431       


Q ss_pred             ccc-ccCcceee
Q 040144          171 SMA-LCNLKSIN  181 (289)
Q Consensus       171 ~~~-~~~L~~L~  181 (289)
                      .+. +|+|+.|+
T Consensus       246 il~~~P~L~~LD  257 (267)
T 3rw6_A          246 IRERFPKLLRLD  257 (267)
T ss_dssp             HHHHCTTCCEES
T ss_pred             HHHHCcccCeEC
Confidence            234 66666664

>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=98.13  E-value=2.3e-06  Score=67.67  Aligned_cols=84  Identities=26%  Similarity=0.214  Sum_probs=54.2

Q ss_pred             CCCCCCcEEeCCCccccccCCC-cccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCc-------
Q 040144           23 GNLSNLQFLDLSSKYLLYVDNF-LWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSP-------   94 (289)
Q Consensus        23 ~~l~~L~~L~l~~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~-------   94 (289)
                      .++++|++|++++|.+..+... ..+..+++|+.|+|++|.+..... ...+..+ .|++|.+.+|.+....+       
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~~-l~~l~~l-~L~~L~L~~Npl~~~~~~~~~y~~  244 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERE-LDKIKGL-KLEELWLDGNSLCDTFRDQSTYIS  244 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGG-GGGGTTS-CCSEEECTTSTTGGGCSSHHHHHH
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchh-hhhcccC-CcceEEccCCcCccccCcchhHHH
Confidence            4577888888888776654321 113467888888888888776532 2234444 78888888888765332       


Q ss_pred             ccccCCCCCcEEec
Q 040144           95 LATVNFSSLTMLDL  108 (289)
Q Consensus        95 ~~l~~~~~L~~L~l  108 (289)
                      ..+..+++|+.||-
T Consensus       245 ~il~~~P~L~~LDg  258 (267)
T 3rw6_A          245 AIRERFPKLLRLDG  258 (267)
T ss_dssp             HHHHHCTTCCEESS
T ss_pred             HHHHHCcccCeECC
Confidence            23456788887764

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=97.51  E-value=0.00013  Score=54.69  Aligned_cols=114  Identities=11%  Similarity=0.135  Sum_probs=66.2

Q ss_pred             CCCCcccEEeccCc-ccccc--chhhHhhhcCCCccEEEccCCccCCCCcc----cccCCCCCcEEeccCCCCCCcchhh
Q 040144           48 SGISLLEHLDLRYV-NLSIA--FDWLMVANKLLSLVELRLSNCQLQHFSPL----ATVNFSSLTMLDLSHNQFDNSFILS  120 (289)
Q Consensus        48 ~~l~~L~~L~l~~~-~~~~~--~~~~~~~~~~~~L~~L~l~~~~l~~~~~~----~l~~~~~L~~L~l~~~~~~~~~~~~  120 (289)
                      .+-+.|++|+++++ .+...  ..+...+.....|+.|++++|.+.+....    .+..-..|+.|+++.|.+++.....
T Consensus        38 ~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~a  117 (197)
T 1pgv_A           38 EDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLAR  117 (197)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHH
T ss_pred             hcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHH
Confidence            34566777777764 55443  23444566667788888888777654332    2334567778888877776332222


Q ss_pred             ---HhhcCCCCCEEEccCc---eeeee----eChhhhcCCCCccEEeCCCCC
Q 040144          121 ---WVFALSHLPFLDLGFN---NFQGT----IDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       121 ---~~~~~~~L~~L~l~~n---~~~~~----~~~~~~~~~~~L~~L~l~~n~  162 (289)
                         .+..-..|++|+++++   .+...    + .+++..-+.|..+++..+.
T Consensus       118 la~aL~~N~tL~~L~L~n~~~~~ig~~g~~~i-a~aL~~N~tL~~L~l~~~~  168 (197)
T 1pgv_A          118 LLRSTLVTQSIVEFKADNQRQSVLGNQVEMDM-MMAIEENESLLRVGISFAS  168 (197)
T ss_dssp             HHHHTTTTCCCSEEECCCCSSCCCCHHHHHHH-HHHHHHCSSCCEEECCCCC
T ss_pred             HHHHHhhCCceeEEECCCCcCcCcCHHHHHHH-HHHHHhCCCcCeEeccCCC
Confidence               2333346777777654   22211    2 3445555677777776654

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=97.33  E-value=0.00025  Score=53.10  Aligned_cols=118  Identities=11%  Similarity=0.040  Sum_probs=83.2

Q ss_pred             cCCCCCCcEEeCCCc-cccccCC---CcccCCCCcccEEeccCcccccc--chhhHhhhcCCCccEEEccCCccCCCCc-
Q 040144           22 LGNLSNLQFLDLSSK-YLLYVDN---FLWLSGISLLEHLDLRYVNLSIA--FDWLMVANKLLSLVELRLSNCQLQHFSP-   94 (289)
Q Consensus        22 l~~l~~L~~L~l~~~-~~~~~~~---~~~~~~l~~L~~L~l~~~~~~~~--~~~~~~~~~~~~L~~L~l~~~~l~~~~~-   94 (289)
                      +.+-+.|++|+++++ .+.+.+.   ...+..-..|+.|+|++|.+.+.  ..+...+.....|++|++.+|.++..+. 
T Consensus        37 l~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~  116 (197)
T 1pgv_A           37 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLA  116 (197)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHH
T ss_pred             HhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHH
Confidence            455678999999885 5443221   11245677899999999998765  4456677788899999999999986433 


Q ss_pred             ---ccccCCCCCcEEeccCC---CCCCc---chhhHhhcCCCCCEEEccCceee
Q 040144           95 ---LATVNFSSLTMLDLSHN---QFDNS---FILSWVFALSHLPFLDLGFNNFQ  139 (289)
Q Consensus        95 ---~~l~~~~~L~~L~l~~~---~~~~~---~~~~~~~~~~~L~~L~l~~n~~~  139 (289)
                         ..+..-..|+.|+++++   .+.+.   .+...+..-+.|++|++..+.+.
T Consensus       117 ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~~~g  170 (197)
T 1pgv_A          117 RLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFASME  170 (197)
T ss_dssp             HHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCCCHH
T ss_pred             HHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCCCcc
Confidence               34455677999999865   44421   23445566788999999877653

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.89  E-value=0.008  Score=41.80  Aligned_cols=51  Identities=20%  Similarity=0.225  Sum_probs=31.1

Q ss_pred             EEEccCCeee-ecCCCce-----EEEeecceeeeeeccccccccccccEEEecCCeee
Q 040144          209 TFNLVNNSIV-GFIPWSF-----ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT  260 (289)
Q Consensus       209 ~L~l~~n~~~-~~~~~~~-----~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~  260 (289)
                      .++-+++.++ ..+|..+     .|+|++|+++ .++...|..+++|+.|+|.+|.+.
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp~~l~~L~Ls~N~l~-~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFPVDTTELVLTGNNLT-ALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCCTTCSEEECTTSCCS-SCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             EEEeCCCCCccccCCCCCCcCCCEEECCCCcCC-ccChhhhhhccccCEEEecCCCee
Confidence            5666666665 2333322     6777777776 455546666777777777777654

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.23  E-value=0.045  Score=37.94  Aligned_cols=36  Identities=22%  Similarity=0.274  Sum_probs=17.5

Q ss_pred             CccEEEccCCccCCCCcccccCCCCCcEEeccCCCC
Q 040144           78 SLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQF  113 (289)
Q Consensus        78 ~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~  113 (289)
                      ++++|++++|.++.+....|..+++|+.|++.+|.+
T Consensus        32 ~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           32 DTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             TCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             CCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            344555555555444444444445555555554443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	289
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-10
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-04
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.002
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-06
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	2e-05
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	9e-05
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	3e-04
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	4e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.001

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

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]

 Score = 58.1 bits (139), Expect = 3e-10
 Identities = 34/161 (21%), Positives = 69/161 (42%), Gaps = 17/161 (10%)

Query: 1   MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRY 60
           + NL  L+ +  +I  + P  L  L+ L  L L +  +  +     L+ ++ LE  + + 
Sbjct: 240 LTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQL 297

Query: 61  VNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILS 120
                  + +   + L +L  L L    +   SP++  + + L  L  ++N+  +   +S
Sbjct: 298 -------EDISPISNLKNLTYLTLYFNNISDISPVS--SLTKLQRLFFANNKVSD---VS 345

Query: 121 WVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
            +  L+++ +L  G N          L NLT I +L L+  
Sbjct: 346 SLANLTNINWLSAGHNQISDLT---PLANLTRITQLGLNDQ 383

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

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]

 Score = 40.4 bits (93), Expect = 2e-04
 Identities = 47/232 (20%), Positives = 76/232 (32%), Gaps = 54/232 (23%)

Query: 6   YLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSI 65
            L  +  +I  I P     L+NL  L L+   L  +     L+    L  LDL    +S 
Sbjct: 201 SLIATNNQISDITPLG--ILTNLDELSLNGNQLKDIGTLASLTN---LTDLDLANNQISN 255

Query: 66  AFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFAL 125
                   + L  L EL+L   Q+ + SP      + LT L       +    +S +  L
Sbjct: 256 LAPL----SGLTKLTELKLGANQISNISP-----LAGLTALTNLELNENQLEDISPISNL 306

Query: 126 SHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQES 185
            +L +L L FNN         + +LT + RL  + N               +  +     
Sbjct: 307 KNLTYLTLYFNNISDIS---PVSSLTKLQRLFFANN--------------KVSDV----- 344

Query: 186 LDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDN 232
                          L    N+   +  +N I    P +      +L + D 
Sbjct: 345 -------------SSLANLTNINWLSAGHNQISDLTPLANLTRITQLGLNDQ 383

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

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]

 Score = 36.9 bits (84), Expect = 0.002
 Identities = 44/199 (22%), Positives = 73/199 (36%), Gaps = 26/199 (13%)

Query: 67  FDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALS 126
              + V  KL +L  L  +N Q+   +P      ++L  L L+ NQ  +   +  + +L+
Sbjct: 187 VSDISVLAKLTNLESLIATNNQISDITP--LGILTNLDELSLNGNQLKD---IGTLASLT 241

Query: 127 HLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINLQESL 186
           +L  LDL  N       L  L  LT    L L     ++   P            L    
Sbjct: 242 NLTDLDLANNQISNLAPLSGLTKLTE---LKLG-ANQISNISP---------LAGLTALT 288

Query: 187 DMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-----ELHIYDNKLNVTLFEL 241
           ++  +         +   +NL    L  N+I    P S       L   +NK++      
Sbjct: 289 NLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDV---S 345

Query: 242 HFANLIEMSWFRVGGNQLT 260
             ANL  ++W   G NQ++
Sbjct: 346 SLANLTNINWLSAGHNQIS 364

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

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]

 Score = 45.8 bits (107), Expect = 2e-06
 Identities = 47/271 (17%), Positives = 89/271 (32%), Gaps = 28/271 (10%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           +   L+    +I  I      NL NL  L L +  +  +      + +  LE L L    
Sbjct: 32  DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPG-AFAPLVKLERLYLSKNQ 90

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           L    + +    +     ELR+   ++           + + +++L  N   +S I +  
Sbjct: 91  LKELPEKMPKTLQ-----ELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA 145

Query: 123 FA-LSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSIN 181
           F  +  L ++ +   N          G   S+  L L  N  +T     S     LK +N
Sbjct: 146 FQGMKKLSYIRIADTNITTIPQ----GLPPSLTELHLDGN-KITKVDAAS-----LKGLN 195

Query: 182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF------ELHIYDNKL- 234
               L +  +SI       L    +L   +L NN +V              +++++N + 
Sbjct: 196 NLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNIS 255

Query: 235 ----NVTLFELHFANLIEMSWFRVGGNQLTL 261
               N      +       S   +  N +  
Sbjct: 256 AIGSNDFCPPGYNTKKASYSGVSLFSNPVQY 286

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

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]

 Score = 43.2 bits (100), Expect = 2e-05
 Identities = 31/182 (17%), Positives = 56/182 (30%), Gaps = 11/182 (6%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
           +   L+ S+  +       L   + L  L+L    L  +     L        L    ++
Sbjct: 32  DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLP------VLGTLDLS 85

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
            +      ++   L +L  L +S  +L      A      L  L L  N+     +   +
Sbjct: 86  HNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNEL--KTLPPGL 143

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSM-ALCNLKSIN 181
              +         NN    +    L  L +++ L L  N+  T  IP+       L    
Sbjct: 144 LTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYT--IPKGFFGSHLLPFAF 201

Query: 182 LQ 183
           L 
Sbjct: 202 LH 203

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]} Length = 284

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]

 Score = 40.9 bits (94), Expect = 9e-05
 Identities = 44/238 (18%), Positives = 70/238 (29%), Gaps = 16/238 (6%)

Query: 3   NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVN 62
             + +     RI  +         NL  L L S  L  +D   +     L +        
Sbjct: 33  ASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQ 92

Query: 63  LSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWV 122
           L          + L  L  L L  C LQ   P      ++L  L L  N    +      
Sbjct: 93  LRSVDPATF--HGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNAL-QALPDDTF 149

Query: 123 FALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKSINL 182
             L +L  L L  N     +   A   L S++RL L  N            L        
Sbjct: 150 RDLGNLTHLFLHGNRISS-VPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGR------ 202

Query: 183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNN------SIVGFIPWSFELHIYDNKL 234
             +L + ++++    T+ L   R L    L +N             W  +     +++
Sbjct: 203 LMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDCRARPLWAWLQKFRGSSSEV 260

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

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]

 Score = 39.3 bits (90), Expect = 3e-04
 Identities = 48/243 (19%), Positives = 84/243 (34%), Gaps = 19/243 (7%)

Query: 2   GNLRYLNFSKTRICGI--IPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLR 59
             +  L+ S   +     IP  L NL  L FL +     L       ++ ++ L +L + 
Sbjct: 50  YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYIT 109

Query: 60  YVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFIL 119
           + N+S A    +   K  +LV L  S   L    P +  +  +L  +    N+   +   
Sbjct: 110 HTNVSGAIPDFLSQIK--TLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPD 167

Query: 120 SWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMALCNLKS 179
           S+         + +  N   G I         +   L  ++  G    +  S        
Sbjct: 168 SYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIH 227

Query: 180 IN---------------LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWS 224
           +                    LD+R++ IYG L   L Q + L + N+  N++ G IP  
Sbjct: 228 LAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG 287

Query: 225 FEL 227
             L
Sbjct: 288 GNL 290

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

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]

 Score = 37.4 bits (86), Expect = 4e-04
 Identities = 24/106 (22%), Positives = 45/106 (42%), Gaps = 8/106 (7%)

Query: 56  LDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDN 115
           L L + +L++    L    +LL +  L LS+ +L+   P      ++L  L++     + 
Sbjct: 3   LHLAHKDLTV----LCHLEQLLLVTHLDLSHNRLRALPP----ALAALRCLEVLQASDNA 54

Query: 116 SFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN 161
              +  V  L  L  L L  N  Q +  ++ L +   +  L+L  N
Sbjct: 55  LENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGN 100

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 37.6 bits (85), Expect = 0.001
 Identities = 16/79 (20%), Positives = 32/79 (40%), Gaps = 5/79 (6%)

Query: 53  LEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQL--QHFSPLATV--NFSSLTMLDL 108
           ++ LD++   LS A  W  +   L     +RL +C L       +++      +L  L+L
Sbjct: 4   IQSLDIQCEELSDA-RWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNL 62

Query: 109 SHNQFDNSFILSWVFALSH 127
             N+  +  +   +  L  
Sbjct: 63  RSNELGDVGVHCVLQGLQT 81

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	289
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.96
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.94
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.92
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.91
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.9
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.9
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.88
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.87
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.87
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.85
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.77
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.75
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.73
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.71
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.7
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.7
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.68
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.67
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.67
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.66
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.65
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.61
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.59
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.58
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.57
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.57
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.53
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.52
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.5
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.49
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.45
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.43
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.29
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.26
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.12
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.08
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.19
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.17
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	98.0
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.92
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.48
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.45

>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=99.96  E-value=5.4e-28  Score=197.25  Aligned_cols=253  Identities=23%  Similarity=0.234  Sum_probs=173.9

Q ss_pred             CCcEEEccCCcccc--cCCCccCCCCCCcEEeCCC-cccc-ccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCC
Q 040144            3 NLRYLNFSKTRICG--IIPQQLGNLSNLQFLDLSS-KYLL-YVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLS   78 (289)
Q Consensus         3 ~L~~L~l~~~~~~~--~~~~~l~~l~~L~~L~l~~-~~~~-~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~   78 (289)
                      ++++|+|+++.+++  .+|++++++++|++|++++ |.+. .++  ..+.++++|++|++++|.+.....  ..+..+..
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~~~~~--~~~~~~~~  126 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIP--PAIAKLTQLHYLYITHTNVSGAIP--DFLSQIKT  126 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCC--GGGGGCTTCSEEEEEEECCEEECC--GGGGGCTT
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccc--cccccccccchhhhcccccccccc--ccccchhh
Confidence            46777777777665  4667777777777777775 3333 222  126677777777777777766532  14566777


Q ss_pred             ccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCC-CEEEccCceeeeeeChhhhcCCCCccEEe
Q 040144           79 LVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHL-PFLDLGFNNFQGTIDLEALGNLTSINRLD  157 (289)
Q Consensus        79 L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L-~~L~l~~n~~~~~~~~~~~~~~~~L~~L~  157 (289)
                      |+.+++.+|.+....+..+..+++++.+++++|.+. +.+|..+..+..+ +.+++++|++.+.. +..+..+. ...++
T Consensus       127 L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~-~~ip~~~~~l~~l~~~l~~~~n~l~~~~-~~~~~~l~-~~~l~  203 (313)
T d1ogqa_         127 LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRIS-GAIPDSYGSFSKLFTSMTISRNRLTGKI-PPTFANLN-LAFVD  203 (313)
T ss_dssp             CCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCE-EECCGGGGCCCTTCCEEECCSSEEEEEC-CGGGGGCC-CSEEE
T ss_pred             hcccccccccccccCchhhccCcccceeeccccccc-cccccccccccccccccccccccccccc-cccccccc-ccccc
Confidence            777777777776666667777777777777777765 5566666665554 67777777777555 55565554 33577


Q ss_pred             CCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeee
Q 040144          158 LSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNV  236 (289)
Q Consensus       158 l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~  236 (289)
                      +..+. ..+..|..+. ++.++.+++      +++.+.+.++ .+..+++|+.|++++|+++                 |
T Consensus       204 l~~~~-~~~~~~~~~~~~~~l~~l~~------~~~~l~~~~~-~~~~~~~L~~L~Ls~N~l~-----------------g  258 (313)
T d1ogqa_         204 LSRNM-LEGDASVLFGSDKNTQKIHL------AKNSLAFDLG-KVGLSKNLNGLDLRNNRIY-----------------G  258 (313)
T ss_dssp             CCSSE-EEECCGGGCCTTSCCSEEEC------CSSEECCBGG-GCCCCTTCCEEECCSSCCE-----------------E
T ss_pred             ccccc-cccccccccccccccccccc------cccccccccc-ccccccccccccCccCeec-----------------c
Confidence            76666 5555666655 666666664      5666665444 4566666777666666555                 5


Q ss_pred             eeccccccccccccEEEecCCeeeeccCCCccccccccEEeccccc-Ccc-CCCC
Q 040144          237 TLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSCY-IGS-RFPL  289 (289)
Q Consensus       237 ~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~-~~~-~~p~  289 (289)
                      .+|. .++++++|++|++++|++++.+|. ++++++|+.+++++|+ +.| ++|.
T Consensus       259 ~iP~-~l~~L~~L~~L~Ls~N~l~g~iP~-~~~L~~L~~l~l~~N~~l~g~plp~  311 (313)
T d1ogqa_         259 TLPQ-GLTQLKFLHSLNVSFNNLCGEIPQ-GGNLQRFDVSAYANNKCLCGSPLPA  311 (313)
T ss_dssp             CCCG-GGGGCTTCCEEECCSSEEEEECCC-STTGGGSCGGGTCSSSEEESTTSSC
T ss_pred             cCCh-HHhCCCCCCEEECcCCcccccCCC-cccCCCCCHHHhCCCccccCCCCCC
Confidence            6777 899999999999999999998875 5889999999999997 554 3663

>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=99.94  E-value=3.5e-26  Score=186.43  Aligned_cols=227  Identities=19%  Similarity=0.259  Sum_probs=187.8

Q ss_pred             CcccEEeccCccccccchhhHhhhcCCCccEEEccC-CccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCC
Q 040144           51 SLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSN-CQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLP  129 (289)
Q Consensus        51 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~-~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~  129 (289)
                      .+++.|+++++.+.....++..+..+++|++|++++ |.+.+..|..++++++|++|++++|.+. ...+..+..+.+|+
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~-~~~~~~~~~~~~L~  128 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVS-GAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCE-EECCGGGGGCTTCC
T ss_pred             EEEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhcccccc-ccccccccchhhhc
Confidence            468899999988776433445888999999999986 6777667788899999999999999887 55566677888999


Q ss_pred             EEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCc-ceeeccccccccCCcccccccccccCCCCC
Q 040144          130 FLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNL-KSINLQESLDMRSSSIYGHLTDQLGQFRNL  207 (289)
Q Consensus       130 ~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L-~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L  207 (289)
                      .+++++|.+.+.+ |..++.++.++.+++++|. +.+.+|..+. +..+ +.+.+      +.|.+++..+..+..+.. 
T Consensus       129 ~l~l~~N~~~~~~-p~~l~~l~~L~~l~l~~n~-l~~~ip~~~~~l~~l~~~l~~------~~n~l~~~~~~~~~~l~~-  199 (313)
T d1ogqa_         129 TLDFSYNALSGTL-PPSISSLPNLVGITFDGNR-ISGAIPDSYGSFSKLFTSMTI------SRNRLTGKIPPTFANLNL-  199 (313)
T ss_dssp             EEECCSSEEESCC-CGGGGGCTTCCEEECCSSC-CEEECCGGGGCCCTTCCEEEC------CSSEEEEECCGGGGGCCC-
T ss_pred             ccccccccccccC-chhhccCcccceeeccccc-ccccccccccccccccccccc------cccccccccccccccccc-
Confidence            9999999888666 7888999999999999998 7777888777 6554 55554      788888888887777654 


Q ss_pred             cEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEeccc
Q 040144          208 VTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHS  280 (289)
Q Consensus       208 ~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~  280 (289)
                      ..++++.+...+.+|..+       .+++.+|.+.+.++  .++.+++|+.|++++|++++.+|+.++++++|++|++++
T Consensus       200 ~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~--~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~  277 (313)
T d1ogqa_         200 AFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG--KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSF  277 (313)
T ss_dssp             SEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGG--GCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCS
T ss_pred             ccccccccccccccccccccccccccccccccccccccc--ccccccccccccCccCeecccCChHHhCCCCCCEEECcC
Confidence            468898888887766655       78899999886554  478899999999999999999999999999999999999


Q ss_pred             ccCccCCCC
Q 040144          281 CYIGSRFPL  289 (289)
Q Consensus       281 n~~~~~~p~  289 (289)
                      |+++|.+|+
T Consensus       278 N~l~g~iP~  286 (313)
T d1ogqa_         278 NNLCGEIPQ  286 (313)
T ss_dssp             SEEEEECCC
T ss_pred             CcccccCCC
Confidence            999999985

>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=99.92  E-value=2.4e-23  Score=168.81  Aligned_cols=259  Identities=20%  Similarity=0.220  Sum_probs=185.5

Q ss_pred             cEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEc
Q 040144            5 RYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRL   84 (289)
Q Consensus         5 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l   84 (289)
                      +.++-.+..++ .+|..+.  +++++|++++|.+..++... +.++++|++|+++++.+....+  ..+..++.|+++++
T Consensus        13 ~~~~C~~~~L~-~lP~~l~--~~l~~L~Ls~N~i~~l~~~~-f~~l~~L~~L~l~~n~~~~i~~--~~f~~l~~L~~L~l   86 (305)
T d1xkua_          13 RVVQCSDLGLE-KVPKDLP--PDTALLDLQNNKITEIKDGD-FKNLKNLHTLILINNKISKISP--GAFAPLVKLERLYL   86 (305)
T ss_dssp             TEEECTTSCCC-SCCCSCC--TTCCEEECCSSCCCCBCTTT-TTTCTTCCEEECCSSCCCCBCT--TTTTTCTTCCEEEC
T ss_pred             CEEEecCCCCC-ccCCCCC--CCCCEEECcCCcCCCcChhH-hhccccccccccccccccccch--hhhhCCCccCEecc
Confidence            45555555666 4565553  57888888888777666433 6778888888888888777632  25778888888888


Q ss_pred             cCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeee-eChhhhcCCCCccEEeCCCCCc
Q 040144           85 SNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGT-IDLEALGNLTSINRLDLSLNTG  163 (289)
Q Consensus        85 ~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~-~~~~~~~~~~~L~~L~l~~n~~  163 (289)
                      ++|.++.+..   ...+.+..|++..|.+. ......+.....+..++...+..... .....+..+++|+.+++++|. 
T Consensus        87 ~~n~l~~l~~---~~~~~l~~L~~~~n~l~-~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~-  161 (305)
T d1xkua_          87 SKNQLKELPE---KMPKTLQELRVHENEIT-KVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN-  161 (305)
T ss_dssp             CSSCCSBCCS---SCCTTCCEEECCSSCCC-BBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSC-
T ss_pred             cCCccCcCcc---chhhhhhhhhccccchh-hhhhhhhhccccccccccccccccccCCCccccccccccCccccccCC-
Confidence            8888876543   23457788888888776 43344455566777777777654321 114567778888888888887 


Q ss_pred             ccCCCCccccccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeee
Q 040144          164 LTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNV  236 (289)
Q Consensus       164 ~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~  236 (289)
                      +. .+|..+ +++|+.|++      ++|......+.++..++.++.|++++|.+.+..+..+       +|++++|.++ 
T Consensus       162 l~-~l~~~~-~~~L~~L~l------~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~L~-  232 (305)
T d1xkua_         162 IT-TIPQGL-PPSLTELHL------DGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-  232 (305)
T ss_dssp             CC-SCCSSC-CTTCSEEEC------TTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCS-
T ss_pred             cc-ccCccc-CCccCEEEC------CCCcCCCCChhHhhccccccccccccccccccccccccccccceeeeccccccc-
Confidence            44 344332 567777775      7777777777788888888888888888876544433       8888888887 


Q ss_pred             eeccccccccccccEEEecCCeeeeccCCC------ccccccccEEecccccCc
Q 040144          237 TLFELHFANLIEMSWFRVGGNQLTLEVKHD------WIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       237 ~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~------~~~~~~L~~l~l~~n~~~  284 (289)
                      .+|. .+.++++|++|++++|+++......      .....+|+.|++++|.+.
T Consensus       233 ~lp~-~l~~l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~~  285 (305)
T d1xkua_         233 KVPG-GLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ  285 (305)
T ss_dssp             SCCT-TTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSC
T ss_pred             cccc-ccccccCCCEEECCCCccCccChhhccCcchhcccCCCCEEECCCCcCc
Confidence            6887 8999999999999999998643322      345678999999999875

>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=99.91  E-value=1.6e-22  Score=168.89  Aligned_cols=253  Identities=20%  Similarity=0.244  Sum_probs=156.7

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      .+|++|++.++.++. + +.+..+++|++|++++|.+...++   +.++++|++|++++|.+....    .+..+++|+.
T Consensus        44 ~~l~~L~l~~~~I~~-l-~gl~~L~nL~~L~Ls~N~l~~l~~---l~~L~~L~~L~L~~n~i~~i~----~l~~l~~L~~  114 (384)
T d2omza2          44 DQVTTLQADRLGIKS-I-DGVEYLNNLTQINFSNNQLTDITP---LKNLTKLVDILMNNNQIADIT----PLANLTNLTG  114 (384)
T ss_dssp             TTCCEEECCSSCCCC-C-TTGGGCTTCCEEECCSSCCCCCGG---GTTCTTCCEEECCSSCCCCCG----GGTTCTTCCE
T ss_pred             CCCCEEECCCCCCCC-c-cccccCCCCCEEeCcCCcCCCCcc---ccCCccccccccccccccccc----cccccccccc
Confidence            468888888888764 3 347778888888888887766653   677888888888888877643    3567788888


Q ss_pred             EEccCCccCCCCc---------------------------------------------------------------cccc
Q 040144           82 LRLSNCQLQHFSP---------------------------------------------------------------LATV   98 (289)
Q Consensus        82 L~l~~~~l~~~~~---------------------------------------------------------------~~l~   98 (289)
                      +++.++.+.....                                                               ....
T Consensus       115 L~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (384)
T d2omza2         115 LTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLA  194 (384)
T ss_dssp             EECCSSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGG
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccc
Confidence            8887765443100                                                               1123


Q ss_pred             CCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCc
Q 040144           99 NFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNL  177 (289)
Q Consensus        99 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L  177 (289)
                      .+++++.+++++|.++ ...+  ...+++|++|++++|.+. .+  ..+..+++++.+++++|. +.+ .+ .+. +++|
T Consensus       195 ~l~~~~~l~l~~n~i~-~~~~--~~~~~~L~~L~l~~n~l~-~~--~~l~~l~~L~~L~l~~n~-l~~-~~-~~~~~~~L  265 (384)
T d2omza2         195 KLTNLESLIATNNQIS-DITP--LGILTNLDELSLNGNQLK-DI--GTLASLTNLTDLDLANNQ-ISN-LA-PLSGLTKL  265 (384)
T ss_dssp             GCTTCSEEECCSSCCC-CCGG--GGGCTTCCEEECCSSCCC-CC--GGGGGCTTCSEEECCSSC-CCC-CG-GGTTCTTC
T ss_pred             cccccceeeccCCccC-CCCc--ccccCCCCEEECCCCCCC-Cc--chhhcccccchhccccCc-cCC-CC-cccccccC
Confidence            3456667777776665 2222  345667777777777765 23  346667777777777776 543 22 244 6677


Q ss_pred             ceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecC-----CCceEEEeecceeeeeeccccccccccccEE
Q 040144          178 KSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFI-----PWSFELHIYDNKLNVTLFELHFANLIEMSWF  252 (289)
Q Consensus       178 ~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~-----~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l  252 (289)
                      +++++      +++.+.+..+  +..++.++.+.+++|.+.+..     +....+++++|++++ ++.  +..+++|++|
T Consensus       266 ~~L~l------~~~~l~~~~~--~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n~l~~-l~~--l~~l~~L~~L  334 (384)
T d2omza2         266 TELKL------GANQISNISP--LAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISD-ISP--VSSLTKLQRL  334 (384)
T ss_dssp             SEEEC------CSSCCCCCGG--GTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCCSC-CGG--GGGCTTCCEE
T ss_pred             CEeec------cCcccCCCCc--cccccccccccccccccccccccchhcccCeEECCCCCCCC-Ccc--cccCCCCCEE
Confidence            77765      4555543322  445555555555555554321     111166666666653 322  5566677777


Q ss_pred             EecCCeeeeccCCCccccccccEEecccccCcc
Q 040144          253 RVGGNQLTLEVKHDWIPHFQLVALGLHSCYIGS  285 (289)
Q Consensus       253 ~l~~n~~~~~~~~~~~~~~~L~~l~l~~n~~~~  285 (289)
                      ++++|++++ ++ .+..+++|+.|++++|++++
T Consensus       335 ~L~~n~l~~-l~-~l~~l~~L~~L~l~~N~l~~  365 (384)
T d2omza2         335 FFANNKVSD-VS-SLANLTNINWLSAGHNQISD  365 (384)
T ss_dssp             ECCSSCCCC-CG-GGGGCTTCCEEECCSSCCCB
T ss_pred             ECCCCCCCC-Ch-hHcCCCCCCEEECCCCcCCC
Confidence            777776664 22 46666677777777776664

>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=99.90  E-value=3e-22  Score=167.26  Aligned_cols=252  Identities=25%  Similarity=0.348  Sum_probs=194.7

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchh-----------
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDW-----------   69 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~-----------   69 (289)
                      +++|++|++++|++++ ++ .++++++|++|++++|.+..+.+   +.++++|+.++++++.+......           
T Consensus        65 L~nL~~L~Ls~N~l~~-l~-~l~~L~~L~~L~L~~n~i~~i~~---l~~l~~L~~L~~~~~~~~~~~~~~~~~~~~~~~~  139 (384)
T d2omza2          65 LNNLTQINFSNNQLTD-IT-PLKNLTKLVDILMNNNQIADITP---LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLEL  139 (384)
T ss_dssp             CTTCCEEECCSSCCCC-CG-GGTTCTTCCEEECCSSCCCCCGG---GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEEE
T ss_pred             CCCCCEEeCcCCcCCC-Cc-cccCCcccccccccccccccccc---cccccccccccccccccccccccccccccccccc
Confidence            5789999999999986 43 39999999999999998776543   67889999998877654432100           


Q ss_pred             --------------------------------------------------hHhhhcCCCccEEEccCCccCCCCcccccC
Q 040144           70 --------------------------------------------------LMVANKLLSLVELRLSNCQLQHFSPLATVN   99 (289)
Q Consensus        70 --------------------------------------------------~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~   99 (289)
                                                                        ......++.++.+.+.++.+....+  +..
T Consensus       140 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~l~~n~i~~~~~--~~~  217 (384)
T d2omza2         140 SSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITP--LGI  217 (384)
T ss_dssp             EEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGG--GGG
T ss_pred             ccccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccccceeeccCCccCCCCc--ccc
Confidence                                                              0134456788888998888876533  466


Q ss_pred             CCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcc
Q 040144          100 FSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLK  178 (289)
Q Consensus       100 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~  178 (289)
                      +++|+.|++++|.++  .. ..+..+++++.+++++|.+++ +  ..++.+++|++++++++. +.+ .+. +. ++.++
T Consensus       218 ~~~L~~L~l~~n~l~--~~-~~l~~l~~L~~L~l~~n~l~~-~--~~~~~~~~L~~L~l~~~~-l~~-~~~-~~~~~~l~  288 (384)
T d2omza2         218 LTNLDELSLNGNQLK--DI-GTLASLTNLTDLDLANNQISN-L--APLSGLTKLTELKLGANQ-ISN-ISP-LAGLTALT  288 (384)
T ss_dssp             CTTCCEEECCSSCCC--CC-GGGGGCTTCSEEECCSSCCCC-C--GGGTTCTTCSEEECCSSC-CCC-CGG-GTTCTTCS
T ss_pred             cCCCCEEECCCCCCC--Cc-chhhcccccchhccccCccCC-C--CcccccccCCEeeccCcc-cCC-CCc-cccccccc
Confidence            789999999999987  23 356788999999999999874 3  347789999999999988 553 332 34 67777


Q ss_pred             eeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecC-----CCceEEEeecceeeeeeccccccccccccEEE
Q 040144          179 SINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFI-----PWSFELHIYDNKLNVTLFELHFANLIEMSWFR  253 (289)
Q Consensus       179 ~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~-----~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~  253 (289)
                      .+.+      ..|.+.+.  ..+..+++++.|++++|.+++..     |..-.|++++|.++ .++  .+.++++|++|+
T Consensus       289 ~l~~------~~n~l~~~--~~~~~~~~l~~L~ls~n~l~~l~~l~~l~~L~~L~L~~n~l~-~l~--~l~~l~~L~~L~  357 (384)
T d2omza2         289 NLEL------NENQLEDI--SPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVS-DVS--SLANLTNINWLS  357 (384)
T ss_dssp             EEEC------CSSCCSCC--GGGGGCTTCSEEECCSSCCSCCGGGGGCTTCCEEECCSSCCC-CCG--GGGGCTTCCEEE
T ss_pred             cccc------cccccccc--cccchhcccCeEECCCCCCCCCcccccCCCCCEEECCCCCCC-CCh--hHcCCCCCCEEE
Confidence            7765      67777643  34778899999999999988643     22228999999987 455  488999999999


Q ss_pred             ecCCeeeeccCCCccccccccEEecccc
Q 040144          254 VGGNQLTLEVKHDWIPHFQLVALGLHSC  281 (289)
Q Consensus       254 l~~n~~~~~~~~~~~~~~~L~~l~l~~n  281 (289)
                      +++|++++..|  +..+++|+.|++++|
T Consensus       358 l~~N~l~~l~~--l~~l~~L~~L~L~~N  383 (384)
T d2omza2         358 AGHNQISDLTP--LANLTRITQLGLNDQ  383 (384)
T ss_dssp             CCSSCCCBCGG--GTTCTTCSEEECCCE
T ss_pred             CCCCcCCCChh--hccCCCCCEeeCCCC
Confidence            99999997543  889999999999987

>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=99.90  E-value=8.2e-23  Score=163.94  Aligned_cols=204  Identities=25%  Similarity=0.287  Sum_probs=140.8

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCc-cccccchhhHhhhcCCCccE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYV-NLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~-~~~~~~~~~~~~~~~~~L~~   81 (289)
                      .+++|+|++|.++...+.+|.++++|++|+++++.+..+.... +..+..++++....+ .+.....  ..+..+++|++
T Consensus        33 ~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~-~~~~~~~~~l~~~~~~~~~~l~~--~~~~~l~~L~~  109 (284)
T d1ozna_          33 ASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAA-FTGLALLEQLDLSDNAQLRSVDP--ATFHGLGRLHT  109 (284)
T ss_dssp             TCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTT-TTTCTTCCEEECCSCTTCCCCCT--TTTTTCTTCCE
T ss_pred             CCCEEECcCCcCCCCCHHHhhcccccccccccccccccccccc-ccccccccccccccccccccccc--hhhcccccCCE
Confidence            4677778777777655566777777888887777665555433 455666777665433 3333321  25667777888


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      |++++|.+.......+....+|+.+++++|.++ ...+..+..+++|++|++++|.+. .+++.+|.++++|+++++++|
T Consensus       110 L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~-~i~~~~f~~~~~L~~L~l~~N~l~-~l~~~~f~~l~~L~~l~l~~N  187 (284)
T d1ozna_         110 LHLDRCGLQELGPGLFRGLAALQYLYLQDNALQ-ALPDDTFRDLGNLTHLFLHGNRIS-SVPERAFRGLHSLDRLLLHQN  187 (284)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCC-EECTTTTTTCTTCCEEECCSS
T ss_pred             EecCCcccccccccccchhcccchhhhcccccc-ccChhHhccccchhhcccccCccc-ccchhhhccccccchhhhhhc
Confidence            888877776666666667777788888877776 333445666777888888887776 343667777778888888777


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeee
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                      . +.+..|..+. +++|++|++      +.|.+.+..+.+++++++|+.|++++|.+.
T Consensus       188 ~-l~~i~~~~f~~l~~L~~L~l------~~N~i~~~~~~~~~~~~~L~~L~l~~N~l~  238 (284)
T d1ozna_         188 R-VAHVHPHAFRDLGRLMTLYL------FANNLSALPTEALAPLRALQYLRLNDNPWV  238 (284)
T ss_dssp             C-CCEECTTTTTTCTTCCEEEC------CSSCCSCCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             c-ccccChhHhhhhhhcccccc------cccccccccccccccccccCEEEecCCCCC
Confidence            7 6655666777 777777765      777777777777777778888888777766

>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=99.88  E-value=1.1e-20  Score=153.04  Aligned_cols=236  Identities=21%  Similarity=0.151  Sum_probs=185.5

Q ss_pred             CCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEE
Q 040144           27 NLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTML  106 (289)
Q Consensus        27 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L  106 (289)
                      ..+.++-++.....++..  +  .+.+++|++++|.+...++  ..+.++++|++|++.+|.+....+..+..+++|+.|
T Consensus        11 ~~~~~~C~~~~L~~lP~~--l--~~~l~~L~Ls~N~i~~l~~--~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L   84 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKD--L--PPDTALLDLQNNKITEIKD--GDFKNLKNLHTLILINNKISKISPGAFAPLVKLERL   84 (305)
T ss_dssp             ETTEEECTTSCCCSCCCS--C--CTTCCEEECCSSCCCCBCT--TTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEE
T ss_pred             cCCEEEecCCCCCccCCC--C--CCCCCEEECcCCcCCCcCh--hHhhccccccccccccccccccchhhhhCCCccCEe
Confidence            556777776656655532  2  3679999999999988753  257889999999999999998888889999999999


Q ss_pred             eccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCc-ccCCCCcccc-ccCcceeeccc
Q 040144          107 DLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTG-LTGRIPRSMA-LCNLKSINLQE  184 (289)
Q Consensus       107 ~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~-~~~~~~~~~~-~~~L~~L~l~~  184 (289)
                      ++++|+++  .++..  ....+..|+..+|.+.+ +....+........++...+.. .....+..+. +++|+.+++  
T Consensus        85 ~l~~n~l~--~l~~~--~~~~l~~L~~~~n~l~~-l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l--  157 (305)
T d1xkua_          85 YLSKNQLK--ELPEK--MPKTLQELRVHENEITK-VRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRI--  157 (305)
T ss_dssp             ECCSSCCS--BCCSS--CCTTCCEEECCSSCCCB-BCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEEC--
T ss_pred             cccCCccC--cCccc--hhhhhhhhhccccchhh-hhhhhhhccccccccccccccccccCCCccccccccccCcccc--
Confidence            99999986  44533  35679999999998874 4366777888888999888751 1222334455 777887775  


Q ss_pred             cccccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCC
Q 040144          185 SLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGN  257 (289)
Q Consensus       185 ~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n  257 (289)
                          ++|.+.. ++..  .+++|+.|++++|......+..+       .|++++|.+.+..+. ++.++++|++|++++|
T Consensus       158 ----~~n~l~~-l~~~--~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~-~~~~l~~L~~L~L~~N  229 (305)
T d1xkua_         158 ----ADTNITT-IPQG--LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNG-SLANTPHLRELHLNNN  229 (305)
T ss_dssp             ----CSSCCCS-CCSS--CCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTT-TGGGSTTCCEEECCSS
T ss_pred             ----ccCCccc-cCcc--cCCccCEEECCCCcCCCCChhHhhccccccccccccccccccccc-cccccccceeeecccc
Confidence                7777764 3332  36799999999998887655544       899999999854455 8999999999999999


Q ss_pred             eeeeccCCCccccccccEEecccccCc
Q 040144          258 QLTLEVKHDWIPHFQLVALGLHSCYIG  284 (289)
Q Consensus       258 ~~~~~~~~~~~~~~~L~~l~l~~n~~~  284 (289)
                      +++. +|..+..+++|+.|++++|+|+
T Consensus       230 ~L~~-lp~~l~~l~~L~~L~Ls~N~i~  255 (305)
T d1xkua_         230 KLVK-VPGGLADHKYIQVVYLHNNNIS  255 (305)
T ss_dssp             CCSS-CCTTTTTCSSCCEEECCSSCCC
T ss_pred             cccc-cccccccccCCCEEECCCCccC
Confidence            9985 7889999999999999999997

>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=99.87  E-value=9.2e-22  Score=157.75  Aligned_cols=215  Identities=20%  Similarity=0.176  Sum_probs=149.3

Q ss_pred             EEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEecc
Q 040144           30 FLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLS  109 (289)
Q Consensus        30 ~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~  109 (289)
                      .++.+++....++..  +  ...+++|++++|.++..+.  ..+..++.|++++++++.+....+..+.....+..+...
T Consensus        15 ~v~c~~~~L~~iP~~--i--p~~~~~L~Ls~N~i~~i~~--~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~   88 (284)
T d1ozna_          15 TTSCPQQGLQAVPVG--I--PAASQRIFLHGNRISHVPA--ASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLS   88 (284)
T ss_dssp             EEECCSSCCSSCCTT--C--CTTCSEEECTTSCCCEECT--TTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             EEEcCCCCCCccCCC--C--CCCCCEEECcCCcCCCCCH--HHhhccccccccccccccccccccccccccccccccccc
Confidence            345555444444321  2  3467899999998877643  257788899999999998888777777778888888765


Q ss_pred             -CCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeecccccc
Q 040144          110 -HNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLD  187 (289)
Q Consensus       110 -~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~  187 (289)
                       .+.++ ...+..+..+++|++|++++|.+.. +....+....+|+.+++++|. ++...+..++ +++|+.|++     
T Consensus        89 ~~~~~~-~l~~~~~~~l~~L~~L~l~~n~~~~-~~~~~~~~~~~L~~l~l~~N~-l~~i~~~~f~~~~~L~~L~l-----  160 (284)
T d1ozna_          89 DNAQLR-SVDPATFHGLGRLHTLHLDRCGLQE-LGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFL-----  160 (284)
T ss_dssp             SCTTCC-CCCTTTTTTCTTCCEEECTTSCCCC-CCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEEC-----
T ss_pred             cccccc-cccchhhcccccCCEEecCCccccc-ccccccchhcccchhhhcccc-ccccChhHhccccchhhccc-----
Confidence             34454 3445567788899999999988763 335677788889999999988 6655556676 888888876     


Q ss_pred             ccCCcccccccccccCCCCCcEEEccCCeeeecCCCce-------EEEeecceeeeeeccccccccccccEEEecCCeee
Q 040144          188 MRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF-------ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT  260 (289)
Q Consensus       188 l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~-------~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~  260 (289)
                       ++|.+....+.++..+++|+.+++++|.+++..|..+       .|++++|.+.+..+. .++++++|++|++++|++.
T Consensus       161 -~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~-~~~~~~~L~~L~l~~N~l~  238 (284)
T d1ozna_         161 -HGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTE-ALAPLRALQYLRLNDNPWV  238 (284)
T ss_dssp             -CSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHH-HHTTCTTCCEEECCSSCEE
T ss_pred             -ccCcccccchhhhccccccchhhhhhccccccChhHhhhhhhccccccccccccccccc-ccccccccCEEEecCCCCC
Confidence             8888887778888889999999999888875444333       455555555432222 4555555555555555544

>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=99.87  E-value=2.3e-21  Score=153.83  Aligned_cols=200  Identities=23%  Similarity=0.207  Sum_probs=139.1

Q ss_pred             CCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCC
Q 040144           24 NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSL  103 (289)
Q Consensus        24 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L  103 (289)
                      +...+.+.+.+++.+..++..  +  .+.+++|++++|.+...+.  ..+..+++|++|++++|.++.+.  .++.+++|
T Consensus         8 ~~~~~~~v~C~~~~L~~iP~~--l--p~~l~~L~Ls~N~i~~l~~--~~f~~l~~L~~L~L~~N~l~~l~--~~~~l~~L   79 (266)
T d1p9ag_           8 KVASHLEVNCDKRNLTALPPD--L--PKDTTILHLSENLLYTFSL--ATLMPYTRLTQLNLDRAELTKLQ--VDGTLPVL   79 (266)
T ss_dssp             CSTTCCEEECTTSCCSSCCSC--C--CTTCCEEECTTSCCSEEEG--GGGTTCTTCCEEECTTSCCCEEE--CCSCCTTC
T ss_pred             ccCCCeEEEccCCCCCeeCcC--c--CcCCCEEECcCCcCCCcCH--HHhhccccccccccccccccccc--cccccccc
Confidence            445566677777666655422  2  2468888888888777642  25677888888888888877542  34667888


Q ss_pred             cEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeec
Q 040144          104 TMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINL  182 (289)
Q Consensus       104 ~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l  182 (289)
                      +.|++++|.++  ..+..+..+++|+.|+++++.+.+ +.+..+..+.+++++++++|. +....+..+. ++.++.+++
T Consensus        80 ~~L~Ls~N~l~--~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~~l~~l~~L~l~~n~-l~~l~~~~~~~l~~l~~l~l  155 (266)
T d1p9ag_          80 GTLDLSHNQLQ--SLPLLGQTLPALTVLDVSFNRLTS-LPLGALRGLGELQELYLKGNE-LKTLPPGLLTPTPKLEKLSL  155 (266)
T ss_dssp             CEEECCSSCCS--SCCCCTTTCTTCCEEECCSSCCCC-CCSSTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEEC
T ss_pred             ccccccccccc--ccccccccccccccccccccccce-eeccccccccccccccccccc-cceeccccccccccchhccc
Confidence            88888888775  344456677888888888887763 335667777888888888877 5543344444 677777765


Q ss_pred             cccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeee
Q 040144          183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLT  260 (289)
Q Consensus       183 ~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~  260 (289)
                            ++|.+++..+..++.+++|+.|++++|.++                  .+|. .+..+++|+.|+|++|++.
T Consensus       156 ------~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~------------------~lp~-~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         156 ------ANNNLTELPAGLLNGLENLDTLLLQENSLY------------------TIPK-GFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             ------TTSCCSCCCTTTTTTCTTCCEEECCSSCCC------------------CCCT-TTTTTCCCSEEECCSCCBC
T ss_pred             ------ccccccccCccccccccccceeecccCCCc------------------ccCh-hHCCCCCCCEEEecCCCCC
Confidence                  777777777777777788888888777776                  4555 5566778888888888765

>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=99.85  E-value=3.8e-20  Score=146.75  Aligned_cols=197  Identities=27%  Similarity=0.278  Sum_probs=162.2

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      .+.+++.+++.++. +|..+.  +++++|++++|.+..++... +.++++|++|++++|.+...+    .+..+++|++|
T Consensus        11 ~~~~v~C~~~~L~~-iP~~lp--~~l~~L~Ls~N~i~~l~~~~-f~~l~~L~~L~L~~N~l~~l~----~~~~l~~L~~L   82 (266)
T d1p9ag_          11 SHLEVNCDKRNLTA-LPPDLP--KDTTILHLSENLLYTFSLAT-LMPYTRLTQLNLDRAELTKLQ----VDGTLPVLGTL   82 (266)
T ss_dssp             TCCEEECTTSCCSS-CCSCCC--TTCCEEECTTSCCSEEEGGG-GTTCTTCCEEECTTSCCCEEE----CCSCCTTCCEE
T ss_pred             CCeEEEccCCCCCe-eCcCcC--cCCCEEECcCCcCCCcCHHH-hhccccccccccccccccccc----ccccccccccc
Confidence            45567888888884 676553  58999999999887766443 788999999999999988764    34678999999


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ++++|.+... +..+..+++|+.|+++++.+. ......+..+.++++|++.+|.+. .+++..+..+++++.+++++|.
T Consensus        83 ~Ls~N~l~~~-~~~~~~l~~L~~L~l~~~~~~-~~~~~~~~~l~~l~~L~l~~n~l~-~l~~~~~~~l~~l~~l~l~~N~  159 (266)
T d1p9ag_          83 DLSHNQLQSL-PLLGQTLPALTVLDVSFNRLT-SLPLGALRGLGELQELYLKGNELK-TLPPGLLTPTPKLEKLSLANNN  159 (266)
T ss_dssp             ECCSSCCSSC-CCCTTTCTTCCEEECCSSCCC-CCCSSTTTTCTTCCEEECTTSCCC-CCCTTTTTTCTTCCEEECTTSC
T ss_pred             cccccccccc-ccccccccccccccccccccc-eeeccccccccccccccccccccc-eeccccccccccchhccccccc
Confidence            9999998875 456788999999999999886 444555677889999999999988 5546778889999999999999


Q ss_pred             cccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeee
Q 040144          163 GLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       163 ~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                       +....+..+. +++|++|++      ++|.++ .+|..+..+++|+.|++++|.+.
T Consensus       160 -l~~~~~~~~~~l~~L~~L~L------s~N~L~-~lp~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         160 -LTELPAGLLNGLENLDTLLL------QENSLY-TIPKGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             -CSCCCTTTTTTCTTCCEEEC------CSSCCC-CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             -ccccCccccccccccceeec------ccCCCc-ccChhHCCCCCCCEEEecCCCCC
Confidence             7766666777 999999987      899998 67777778999999999999876

>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=99.77  E-value=6.7e-18  Score=130.46  Aligned_cols=189  Identities=20%  Similarity=0.253  Sum_probs=125.1

Q ss_pred             cCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCC
Q 040144           47 LSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALS  126 (289)
Q Consensus        47 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~  126 (289)
                      .+.+..|+.|++.+|.+....    .+.++++|++|++++|.+....  .+..+++++.+++++|.++  .++ .+..++
T Consensus        37 ~~~l~~L~~L~l~~~~i~~l~----~l~~l~~L~~L~ls~n~i~~~~--~l~~l~~l~~l~~~~n~~~--~i~-~l~~l~  107 (227)
T d1h6ua2          37 QADLDGITTLSAFGTGVTTIE----GVQYLNNLIGLELKDNQITDLA--PLKNLTKITELELSGNPLK--NVS-AIAGLQ  107 (227)
T ss_dssp             HHHHHTCCEEECTTSCCCCCT----TGGGCTTCCEEECCSSCCCCCG--GGTTCCSCCEEECCSCCCS--CCG-GGTTCT
T ss_pred             HHHcCCcCEEECCCCCCCcch----hHhcCCCCcEeecCCceeeccc--ccccccccccccccccccc--ccc-cccccc
Confidence            345667777777777666542    4566777777777777766542  3667777777777777665  222 355677


Q ss_pred             CCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCC
Q 040144          127 HLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFR  205 (289)
Q Consensus       127 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~  205 (289)
                      +|+.++++++...+   ...+...+.+..+.++.+. +..  ...+. +++|+.|++      ++|.+....  .+++++
T Consensus       108 ~L~~l~l~~~~~~~---~~~~~~~~~~~~l~~~~~~-~~~--~~~~~~~~~L~~L~l------~~n~~~~~~--~l~~l~  173 (227)
T d1h6ua2         108 SIKTLDLTSTQITD---VTPLAGLSNLQVLYLDLNQ-ITN--ISPLAGLTNLQYLSI------GNAQVSDLT--PLANLS  173 (227)
T ss_dssp             TCCEEECTTSCCCC---CGGGTTCTTCCEEECCSSC-CCC--CGGGGGCTTCCEEEC------CSSCCCCCG--GGTTCT
T ss_pred             cccccccccccccc---cchhccccchhhhhchhhh-hch--hhhhccccccccccc------cccccccch--hhcccc
Confidence            77777777776552   2335566677777776665 332  12234 666777765      566655332  267788


Q ss_pred             CCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEeccc
Q 040144          206 NLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHS  280 (289)
Q Consensus       206 ~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~  280 (289)
                      +|+.|++++|++.                  .++.  ++++++|++|++++|++++. + .+..+++|+.|++++
T Consensus       174 ~L~~L~Ls~n~l~------------------~l~~--l~~l~~L~~L~Ls~N~lt~i-~-~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         174 KLTTLKADDNKIS------------------DISP--LASLPNLIEVHLKNNQISDV-S-PLANTSNLFIVTLTN  226 (227)
T ss_dssp             TCCEEECCSSCCC------------------CCGG--GGGCTTCCEEECTTSCCCBC-G-GGTTCTTCCEEEEEE
T ss_pred             cceecccCCCccC------------------CChh--hcCCCCCCEEECcCCcCCCC-c-ccccCCCCCEEEeeC
Confidence            8888888887766                  3333  67888999999999988864 3 377888899988863

>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=99.75  E-value=3e-17  Score=126.72  Aligned_cols=184  Identities=24%  Similarity=0.314  Sum_probs=125.2

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      .+|++|++.+|.++. + +.+.++++|++|++++|.+....+   +.+++++++++++++.+....    .+..+++|+.
T Consensus        41 ~~L~~L~l~~~~i~~-l-~~l~~l~~L~~L~ls~n~i~~~~~---l~~l~~l~~l~~~~n~~~~i~----~l~~l~~L~~  111 (227)
T d1h6ua2          41 DGITTLSAFGTGVTT-I-EGVQYLNNLIGLELKDNQITDLAP---LKNLTKITELELSGNPLKNVS----AIAGLQSIKT  111 (227)
T ss_dssp             HTCCEEECTTSCCCC-C-TTGGGCTTCCEEECCSSCCCCCGG---GTTCCSCCEEECCSCCCSCCG----GGTTCTTCCE
T ss_pred             CCcCEEECCCCCCCc-c-hhHhcCCCCcEeecCCceeecccc---ccccccccccccccccccccc----cccccccccc
Confidence            367788888887764 3 347778888888888876655433   567778888888877766543    4567778888


Q ss_pred             EEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCC
Q 040144           82 LRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLN  161 (289)
Q Consensus        82 L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n  161 (289)
                      +.+.++.....  ..+...+.+..+.++.+.+. .  ...+..+++|++|++++|.+.+ .  ..++++++|++|++++|
T Consensus       112 l~l~~~~~~~~--~~~~~~~~~~~l~~~~~~~~-~--~~~~~~~~~L~~L~l~~n~~~~-~--~~l~~l~~L~~L~Ls~n  183 (227)
T d1h6ua2         112 LDLTSTQITDV--TPLAGLSNLQVLYLDLNQIT-N--ISPLAGLTNLQYLSIGNAQVSD-L--TPLANLSKLTTLKADDN  183 (227)
T ss_dssp             EECTTSCCCCC--GGGTTCTTCCEEECCSSCCC-C--CGGGGGCTTCCEEECCSSCCCC-C--GGGTTCTTCCEEECCSS
T ss_pred             ccccccccccc--chhccccchhhhhchhhhhc-h--hhhhcccccccccccccccccc-c--hhhcccccceecccCCC
Confidence            88877765543  34556677777887777664 2  2234567778888888877652 2  34677788888888887


Q ss_pred             CcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEcc
Q 040144          162 TGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLV  213 (289)
Q Consensus       162 ~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~  213 (289)
                      . +.+ ++ .++ +++|++|++      ++|.+++..+  ++++++|+.|+++
T Consensus       184 ~-l~~-l~-~l~~l~~L~~L~L------s~N~lt~i~~--l~~l~~L~~L~ls  225 (227)
T d1h6ua2         184 K-ISD-IS-PLASLPNLIEVHL------KNNQISDVSP--LANTSNLFIVTLT  225 (227)
T ss_dssp             C-CCC-CG-GGGGCTTCCEEEC------TTSCCCBCGG--GTTCTTCCEEEEE
T ss_pred             c-cCC-Ch-hhcCCCCCCEEEC------cCCcCCCCcc--cccCCCCCEEEee
Confidence            7 553 33 355 777777775      7777775433  6778888888876

>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=99.73  E-value=1.8e-17  Score=129.33  Aligned_cols=197  Identities=18%  Similarity=0.116  Sum_probs=108.8

Q ss_pred             CccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccC-ceeeeeeChhhhcCCCCccEE
Q 040144           78 SLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGF-NNFQGTIDLEALGNLTSINRL  156 (289)
Q Consensus        78 ~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~-n~~~~~~~~~~~~~~~~L~~L  156 (289)
                      ++++|++++|.++.+....|.++++|++|++++|.+.....+..+..+++++++.+.. +++. ..++..+.++++|+++
T Consensus        30 ~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~-~~~~~~~~~l~~L~~l  108 (242)
T d1xwdc1          30 NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLL-YINPEAFQNLPNLQYL  108 (242)
T ss_dssp             CCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCC-EECTTSEECCTTCCEE
T ss_pred             CCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccccccc-cccccccccccccccc
Confidence            4556666666555544445555666666666665554111122344455566655543 2333 2224555666666666


Q ss_pred             eCCCCCcccCCCCccccccCcceeeccccccccCCcccccccccccCCC-CCcEEEccCCeeeecCCCce-------EEE
Q 040144          157 DLSLNTGLTGRIPRSMALCNLKSINLQESLDMRSSSIYGHLTDQLGQFR-NLVTFNLVNNSIVGFIPWSF-------ELH  228 (289)
Q Consensus       157 ~l~~n~~~~~~~~~~~~~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~-~L~~L~l~~n~~~~~~~~~~-------~L~  228 (289)
                      +++++. +.. .+....+..++.+..   ....++.+....+..+..++ .++.+++++|.++...+..+       .++
T Consensus       109 ~l~~~~-l~~-~~~~~~~~~l~~l~~---~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~~~~~~l~~~~~  183 (242)
T d1xwdc1         109 LISNTG-IKH-LPDVHKIHSLQKVLL---DIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNL  183 (242)
T ss_dssp             EEESCC-CCS-CCCCTTTCBSSCEEE---EEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTTTTTCCEEEEEC
T ss_pred             ccchhh-hcc-ccccccccccccccc---ccccccccccccccccccccccceeeecccccccccccccccchhhhcccc
Confidence            666655 332 111111223332221   11233344434444444443 56667776666654322221       234


Q ss_pred             eecceeeeeeccccccccccccEEEecCCeeeeccCCCccccccccEEecccc
Q 040144          229 IYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHDWIPHFQLVALGLHSC  281 (289)
Q Consensus       229 l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l~~n  281 (289)
                      +.+|+++ +++...|.++++|++|++++|+++...+..+..+++|+.+++++.
T Consensus       184 l~~n~l~-~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~~~l  235 (242)
T d1xwdc1         184 SDNNNLE-ELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYNL  235 (242)
T ss_dssp             TTCTTCC-CCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSEESS
T ss_pred             ccccccc-cccHHHhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCcCCCC
Confidence            5556666 677657889999999999999999755567888888888887664

>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=99.71  E-value=5.5e-17  Score=126.45  Aligned_cols=221  Identities=19%  Similarity=0.158  Sum_probs=153.9

Q ss_pred             cEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEc
Q 040144            5 RYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRL   84 (289)
Q Consensus         5 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l   84 (289)
                      +.++..+..++ .+|..+.  +++++|++++|.+..++... +.++++|++|++++|.+....+ ...+..++.++++.+
T Consensus        11 ~~i~c~~~~l~-~iP~~l~--~~l~~L~Ls~n~i~~l~~~~-f~~l~~L~~L~ls~n~~~~~i~-~~~f~~l~~l~~l~~   85 (242)
T d1xwdc1          11 RVFLCQESKVT-EIPSDLP--RNAIELRFVLTKLRVIQKGA-FSGFGDLEKIEISQNDVLEVIE-ADVFSNLPKLHEIRI   85 (242)
T ss_dssp             SEEEEESCSCS-SCCSCSC--SCCSEEEEESCCCCEECTTT-TTTCTTCCEEEEESCTTCCEEC-SSSEESCTTCCEEEE
T ss_pred             CEEEEeCCCCC-CcCCCCC--CCCCEEECcCCcCCccChhH-hhccchhhhhhhccccccceee-ccccccccccccccc
Confidence            46677777776 4665443  58999999999877666543 7889999999999998765422 125678889999987


Q ss_pred             cC-CccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCC-CCccEEeCCCCC
Q 040144           85 SN-CQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNL-TSINRLDLSLNT  162 (289)
Q Consensus        85 ~~-~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~-~~L~~L~l~~n~  162 (289)
                      .. +.+....+..+..+++|+.+++.++.+...........+..+..+...++.+. .++...+.++ ..++.+++++|.
T Consensus        86 ~~~n~l~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~-~i~~~~~~~~~~~l~~L~l~~n~  164 (242)
T d1xwdc1          86 EKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIH-TIERNSFVGLSFESVILWLNKNG  164 (242)
T ss_dssp             ECCTTCCEECTTSEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCC-EECTTSSTTSBSSCEEEECCSSC
T ss_pred             cccccccccccccccccccccccccchhhhcccccccccccccccccccccccccc-cccccccccccccceeeeccccc
Confidence            65 56666667778899999999999998862222223334555655566666665 4435556555 478899999988


Q ss_pred             cccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccc
Q 040144          163 GLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFEL  241 (289)
Q Consensus       163 ~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~  241 (289)
                       +. .++.... .++++++..     +++|.++...+..|.++++|+.|++++|+++                  .+|..
T Consensus       165 -l~-~i~~~~~~~~~l~~~~~-----l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~l~------------------~l~~~  219 (242)
T d1xwdc1         165 -IQ-EIHNCAFNGTQLDELNL-----SDNNNLEELPNDVFHGASGPVILDISRTRIH------------------SLPSY  219 (242)
T ss_dssp             -CC-EECTTTTTTCCEEEEEC-----TTCTTCCCCCTTTTTTSCCCSEEECTTSCCC------------------CCCSS
T ss_pred             -cc-ccccccccchhhhcccc-----ccccccccccHHHhcCCCCCCEEECCCCcCC------------------ccCHH
Confidence             55 3443333 555555432     4777888666677899999999999999887                  44443


Q ss_pred             cccccccccEEEecC
Q 040144          242 HFANLIEMSWFRVGG  256 (289)
Q Consensus       242 ~~~~~~~L~~l~l~~  256 (289)
                      .+.++++|+.+++.+
T Consensus       220 ~~~~l~~L~~l~~~~  234 (242)
T d1xwdc1         220 GLENLKKLRARSTYN  234 (242)
T ss_dssp             SCTTCCEEESSSEES
T ss_pred             HHcCCcccccCcCCC
Confidence            566777777666543

>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=99.70  E-value=3.4e-16  Score=118.14  Aligned_cols=162  Identities=24%  Similarity=0.352  Sum_probs=122.6

Q ss_pred             CCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCC
Q 040144           23 GNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSS  102 (289)
Q Consensus        23 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~  102 (289)
                      ..++++++|+++++.+.....   +..+++|++|++++|.+....    .+..+++|++|++++|.+....  .+..+++
T Consensus        37 ~~l~~l~~L~l~~~~i~~l~~---l~~l~nL~~L~Ls~N~l~~~~----~l~~l~~L~~L~l~~n~~~~~~--~l~~l~~  107 (199)
T d2omxa2          37 TDLDQVTTLQADRLGIKSIDG---VEYLNNLTQINFSNNQLTDIT----PLKNLTKLVDILMNNNQIADIT--PLANLTN  107 (199)
T ss_dssp             HHHTTCCEEECTTSCCCCCTT---GGGCTTCCEEECCSSCCCCCG----GGTTCTTCCEEECCSSCCCCCG--GGTTCTT
T ss_pred             HHhcCCCEEECCCCCCCCccc---cccCCCcCcCccccccccCcc----cccCCccccccccccccccccc--ccccccc
Confidence            457788899998887766543   667889999999998877653    4678888999999988876653  4778889


Q ss_pred             CcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceee
Q 040144          103 LTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSIN  181 (289)
Q Consensus       103 L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~  181 (289)
                      |+.++++++... .  ...+..+++|+.+++++|.+. .+  ..+..+++++++++.+|. +++ ++ .+. +++|+.|+
T Consensus       108 L~~L~l~~~~~~-~--~~~~~~l~~L~~L~l~~n~l~-~~--~~l~~~~~L~~L~l~~n~-l~~-l~-~l~~l~~L~~L~  178 (199)
T d2omxa2         108 LTGLTLFNNQIT-D--IDPLKNLTNLNRLELSSNTIS-DI--SALSGLTSLQQLNFSSNQ-VTD-LK-PLANLTTLERLD  178 (199)
T ss_dssp             CSEEECCSSCCC-C--CGGGTTCTTCSEEECCSSCCC-CC--GGGTTCTTCSEEECCSSC-CCC-CG-GGTTCTTCCEEE
T ss_pred             cccccccccccc-c--ccccchhhhhHHhhhhhhhhc-cc--cccccccccccccccccc-ccC-Cc-cccCCCCCCEEE
Confidence            999999888775 2  234667888999999998876 33  357788899999999887 553 33 355 88888887


Q ss_pred             ccccccccCCcccccccccccCCCCCcEE
Q 040144          182 LQESLDMRSSSIYGHLTDQLGQFRNLVTF  210 (289)
Q Consensus       182 l~~~l~l~~~~~~~~~~~~l~~~~~L~~L  210 (289)
                      +      ++|.+++. + .++.+++|++|
T Consensus       179 l------s~N~i~~i-~-~l~~L~~L~~L  199 (199)
T d2omxa2         179 I------SSNKVSDI-S-VLAKLTNLESL  199 (199)
T ss_dssp             C------CSSCCCCC-G-GGGGCTTCSEE
T ss_pred             C------CCCCCCCC-c-cccCCCCCCcC
Confidence            6      78887753 3 47788888875

>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=99.70  E-value=2.9e-16  Score=119.57  Aligned_cols=165  Identities=22%  Similarity=0.277  Sum_probs=129.2

Q ss_pred             CCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCC
Q 040144           24 NLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSL  103 (289)
Q Consensus        24 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L  103 (289)
                      .+.+|++|++++|.+.....   +..+++|++|++++|.+...+    .+..+++|++|++++|.++..  ..+..+++|
T Consensus        44 ~L~~L~~L~l~~~~i~~l~~---l~~l~~L~~L~L~~n~i~~l~----~~~~l~~L~~L~l~~n~i~~l--~~l~~l~~L  114 (210)
T d1h6ta2          44 ELNSIDQIIANNSDIKSVQG---IQYLPNVTKLFLNGNKLTDIK----PLANLKNLGWLFLDENKVKDL--SSLKDLKKL  114 (210)
T ss_dssp             HHHTCCEEECTTSCCCCCTT---GGGCTTCCEEECCSSCCCCCG----GGTTCTTCCEEECCSSCCCCG--GGGTTCTTC
T ss_pred             HhcCccEEECcCCCCCCchh---HhhCCCCCEEeCCCccccCcc----ccccCcccccccccccccccc--ccccccccc
Confidence            46788999999887766543   677899999999999887754    356788999999999988765  357788999


Q ss_pred             cEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeec
Q 040144          104 TMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINL  182 (289)
Q Consensus       104 ~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l  182 (289)
                      +.|++.+|.+.  . ...+..++.++.+++++|.+.+   ...+..+++|+++++++|. +.+ ++ .+. +++|++|++
T Consensus       115 ~~L~l~~~~~~--~-~~~l~~l~~l~~l~~~~n~l~~---~~~~~~l~~L~~l~l~~n~-l~~-i~-~l~~l~~L~~L~L  185 (210)
T d1h6ta2         115 KSLSLEHNGIS--D-INGLVHLPQLESLYLGNNKITD---ITVLSRLTKLDTLSLEDNQ-ISD-IV-PLAGLTKLQNLYL  185 (210)
T ss_dssp             CEEECTTSCCC--C-CGGGGGCTTCCEEECCSSCCCC---CGGGGGCTTCSEEECCSSC-CCC-CG-GGTTCTTCCEEEC
T ss_pred             ccccccccccc--c-cccccccccccccccccccccc---ccccccccccccccccccc-ccc-cc-cccCCCCCCEEEC
Confidence            99999988875  2 2346778899999999998863   3456778899999999998 653 33 356 888988886


Q ss_pred             cccccccCCcccccccccccCCCCCcEEEccC
Q 040144          183 QESLDMRSSSIYGHLTDQLGQFRNLVTFNLVN  214 (289)
Q Consensus       183 ~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~  214 (289)
                            ++|.++. ++ .++.+++|+.|++++
T Consensus       186 ------s~N~i~~-l~-~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         186 ------SKNHISD-LR-ALAGLKNLDVLELFS  209 (210)
T ss_dssp             ------CSSCCCB-CG-GGTTCTTCSEEEEEE
T ss_pred             ------CCCCCCC-Ch-hhcCCCCCCEEEccC
Confidence                  7888874 44 588999999999874

>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=99.68  E-value=6.3e-16  Score=117.62  Aligned_cols=146  Identities=21%  Similarity=0.259  Sum_probs=77.1

Q ss_pred             CCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCC
Q 040144           50 ISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLP  129 (289)
Q Consensus        50 l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~  129 (289)
                      +..|++|+++++.+....    ++..+++|++|++++|.++...  .++.+++|+.|++++|.++  .++ .+..+++|+
T Consensus        45 L~~L~~L~l~~~~i~~l~----~l~~l~~L~~L~L~~n~i~~l~--~~~~l~~L~~L~l~~n~i~--~l~-~l~~l~~L~  115 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQ----GIQYLPNVTKLFLNGNKLTDIK--PLANLKNLGWLFLDENKVK--DLS-SLKDLKKLK  115 (210)
T ss_dssp             HHTCCEEECTTSCCCCCT----TGGGCTTCCEEECCSSCCCCCG--GGTTCTTCCEEECCSSCCC--CGG-GGTTCTTCC
T ss_pred             hcCccEEECcCCCCCCch----hHhhCCCCCEEeCCCccccCcc--ccccCcccccccccccccc--ccc-ccccccccc
Confidence            445566666665554432    3445566666666666555432  2445566666666666554  222 344556666


Q ss_pred             EEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCc
Q 040144          130 FLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLV  208 (289)
Q Consensus       130 ~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~  208 (289)
                      .+++.+|.+. .+  ..+..++.++.+++++|. +.+  +..+. +++|+.+++      ++|.+++..+  ++.+++|+
T Consensus       116 ~L~l~~~~~~-~~--~~l~~l~~l~~l~~~~n~-l~~--~~~~~~l~~L~~l~l------~~n~l~~i~~--l~~l~~L~  181 (210)
T d1h6ta2         116 SLSLEHNGIS-DI--NGLVHLPQLESLYLGNNK-ITD--ITVLSRLTKLDTLSL------EDNQISDIVP--LAGLTKLQ  181 (210)
T ss_dssp             EEECTTSCCC-CC--GGGGGCTTCCEEECCSSC-CCC--CGGGGGCTTCSEEEC------CSSCCCCCGG--GTTCTTCC
T ss_pred             cccccccccc-cc--cccccccccccccccccc-ccc--ccccccccccccccc------cccccccccc--ccCCCCCC
Confidence            6666666554 22  235555566666666555 331  22233 555555554      5555553222  55566666


Q ss_pred             EEEccCCeee
Q 040144          209 TFNLVNNSIV  218 (289)
Q Consensus       209 ~L~l~~n~~~  218 (289)
                      .|++++|.++
T Consensus       182 ~L~Ls~N~i~  191 (210)
T d1h6ta2         182 NLYLSKNHIS  191 (210)
T ss_dssp             EEECCSSCCC
T ss_pred             EEECCCCCCC
Confidence            6666666554

>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=99.67  E-value=9.1e-16  Score=115.74  Aligned_cols=148  Identities=25%  Similarity=0.337  Sum_probs=95.9

Q ss_pred             CCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCC
Q 040144           49 GISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHL  128 (289)
Q Consensus        49 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L  128 (289)
                      .+.++++|+++++.+....    .+..+++|++|++++|.++...  .+..+++|+.|++++|.+.  .++ .+..++.|
T Consensus        38 ~l~~l~~L~l~~~~i~~l~----~l~~l~nL~~L~Ls~N~l~~~~--~l~~l~~L~~L~l~~n~~~--~~~-~l~~l~~L  108 (199)
T d2omxa2          38 DLDQVTTLQADRLGIKSID----GVEYLNNLTQINFSNNQLTDIT--PLKNLTKLVDILMNNNQIA--DIT-PLANLTNL  108 (199)
T ss_dssp             HHTTCCEEECTTSCCCCCT----TGGGCTTCCEEECCSSCCCCCG--GGTTCTTCCEEECCSSCCC--CCG-GGTTCTTC
T ss_pred             HhcCCCEEECCCCCCCCcc----ccccCCCcCcCccccccccCcc--cccCCcccccccccccccc--ccc-cccccccc
Confidence            4567777777777766542    4566777777777777776643  3667777777777777664  222 35667777


Q ss_pred             CEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCC
Q 040144          129 PFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNL  207 (289)
Q Consensus       129 ~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L  207 (289)
                      ++++++++.... .  ..+..+++|+.+++++|. +. ..+ .+. +++|+.|++      .+|.+++..  .++++++|
T Consensus       109 ~~L~l~~~~~~~-~--~~~~~l~~L~~L~l~~n~-l~-~~~-~l~~~~~L~~L~l------~~n~l~~l~--~l~~l~~L  174 (199)
T d2omxa2         109 TGLTLFNNQITD-I--DPLKNLTNLNRLELSSNT-IS-DIS-ALSGLTSLQQLNF------SSNQVTDLK--PLANLTTL  174 (199)
T ss_dssp             SEEECCSSCCCC-C--GGGTTCTTCSEEECCSSC-CC-CCG-GGTTCTTCSEEEC------CSSCCCCCG--GGTTCTTC
T ss_pred             cccccccccccc-c--cccchhhhhHHhhhhhhh-hc-ccc-ccccccccccccc------ccccccCCc--cccCCCCC
Confidence            777777776652 2  346667777777777776 43 222 344 667777665      666666432  26677777


Q ss_pred             cEEEccCCeeee
Q 040144          208 VTFNLVNNSIVG  219 (289)
Q Consensus       208 ~~L~l~~n~~~~  219 (289)
                      +.|++++|++++
T Consensus       175 ~~L~ls~N~i~~  186 (199)
T d2omxa2         175 ERLDISSNKVSD  186 (199)
T ss_dssp             CEEECCSSCCCC
T ss_pred             CEEECCCCCCCC
Confidence            777777777663

>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=99.67  E-value=3.6e-17  Score=130.45  Aligned_cols=184  Identities=18%  Similarity=0.154  Sum_probs=105.4

Q ss_pred             CCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCC-CCCCcchhhHhhcCCC
Q 040144           49 GISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHN-QFDNSFILSWVFALSH  127 (289)
Q Consensus        49 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~-~~~~~~~~~~~~~~~~  127 (289)
                      ...+|++|+++++.+.... +...+.++++|++|.+.+|.+.......++.+++|+.|+++++ .+++..+......+++
T Consensus        44 ~~~~L~~LdLs~~~i~~~~-l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~  122 (284)
T d2astb2          44 SPFRVQHMDLSNSVIEVST-LHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSR  122 (284)
T ss_dssp             CCBCCCEEECTTCEECHHH-HHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTT
T ss_pred             cCCCCCEEECCCCccCHHH-HHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHh
Confidence            4557777777777655431 1224567777888887777766554555666777777887774 4553333444456777


Q ss_pred             CCEEEccCce-eeeeeChhhhc-CCCCccEEeCCCCCc-ccCC-CCcccc-ccCcceeeccccccccCC-cccccccccc
Q 040144          128 LPFLDLGFNN-FQGTIDLEALG-NLTSINRLDLSLNTG-LTGR-IPRSMA-LCNLKSINLQESLDMRSS-SIYGHLTDQL  201 (289)
Q Consensus       128 L~~L~l~~n~-~~~~~~~~~~~-~~~~L~~L~l~~n~~-~~~~-~~~~~~-~~~L~~L~l~~~l~l~~~-~~~~~~~~~l  201 (289)
                      |++|++++|. ++.......+. ..+.|+.++++++.. +.+. +..... +++|++|++      ++| .+++.....+
T Consensus       123 L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L------~~~~~itd~~~~~l  196 (284)
T d2astb2         123 LDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDL------SDSVMLKNDCFQEF  196 (284)
T ss_dssp             CCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEEC------TTCTTCCGGGGGGG
T ss_pred             ccccccccccccccccchhhhcccccccchhhhccccccccccccccccccccccccccc------ccccCCCchhhhhh
Confidence            7888777763 33111022232 245677777776430 1211 112223 677777776      444 3454555566


Q ss_pred             cCCCCCcEEEccCC-eeeecCCCceEEEeecceeeeeeccccccccccccEEEecCC
Q 040144          202 GQFRNLVTFNLVNN-SIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGN  257 (289)
Q Consensus       202 ~~~~~L~~L~l~~n-~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n  257 (289)
                      +.+++|++|++++| .+++.                 ... .++++++|+.|++.++
T Consensus       197 ~~~~~L~~L~L~~C~~i~~~-----------------~l~-~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         197 FQLNYLQHLSLSRCYDIIPE-----------------TLL-ELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             GGCTTCCEEECTTCTTCCGG-----------------GGG-GGGGCTTCCEEECTTS
T ss_pred             cccCcCCEEECCCCCCCChH-----------------HHH-HHhcCCCCCEEeeeCC
Confidence            67777777777775 34422                 112 3455666666666665

>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=99.66  E-value=1.1e-14  Score=119.34  Aligned_cols=243  Identities=22%  Similarity=0.190  Sum_probs=151.1

Q ss_pred             CCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEE
Q 040144            3 NLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVEL   82 (289)
Q Consensus         3 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L   82 (289)
                      ++++|+|+++.++ .+|+.   .++|++|++++|.+..++.     .+.+|++|+++++.+.....+      .+.|++|
T Consensus        39 ~l~~LdLs~~~L~-~lp~~---~~~L~~L~Ls~N~l~~lp~-----~~~~L~~L~l~~n~l~~l~~l------p~~L~~L  103 (353)
T d1jl5a_          39 QAHELELNNLGLS-SLPEL---PPHLESLVASCNSLTELPE-----LPQSLKSLLVDNNNLKALSDL------PPLLEYL  103 (353)
T ss_dssp             TCSEEECTTSCCS-CCCSC---CTTCSEEECCSSCCSSCCC-----CCTTCCEEECCSSCCSCCCSC------CTTCCEE
T ss_pred             CCCEEEeCCCCCC-CCCCC---CCCCCEEECCCCCCccccc-----chhhhhhhhhhhcccchhhhh------ccccccc
Confidence            5889999999987 46653   5689999999988776642     256899999999987765431      1469999


Q ss_pred             EccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144           83 RLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus        83 ~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      ++++|.+....  .++.+++|+.|+++++.+.  ..+.   ....+..+.+..+....   ...+..++.++.+.++++.
T Consensus       104 ~L~~n~l~~lp--~~~~l~~L~~L~l~~~~~~--~~~~---~~~~l~~l~~~~~~~~~---~~~l~~l~~l~~L~l~~n~  173 (353)
T d1jl5a_         104 GVSNNQLEKLP--ELQNSSFLKIIDVDNNSLK--KLPD---LPPSLEFIAAGNNQLEE---LPELQNLPFLTAIYADNNS  173 (353)
T ss_dssp             ECCSSCCSSCC--CCTTCTTCCEEECCSSCCS--CCCC---CCTTCCEEECCSSCCSS---CCCCTTCTTCCEEECCSSC
T ss_pred             ccccccccccc--chhhhccceeecccccccc--cccc---ccccccchhhccccccc---cccccccccceeccccccc
Confidence            99999988763  3567899999999888764  2221   23455566655544331   2334455666666666554


Q ss_pred             cccC-------------------CCCcccc-ccCcceeeccccccccCCcccccccccc-----------------cCCC
Q 040144          163 GLTG-------------------RIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQL-----------------GQFR  205 (289)
Q Consensus       163 ~~~~-------------------~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l-----------------~~~~  205 (289)
                       ...                   ..+. .. ++.|+.+.+      ++|..... +...                 ...+
T Consensus       174 -~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~l~~L~~l~l------~~n~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~  244 (353)
T d1jl5a_         174 -LKKLPDLPLSLESIVAGNNILEELPE-LQNLPFLTTIYA------DNNLLKTL-PDLPPSLEALNVRDNYLTDLPELPQ  244 (353)
T ss_dssp             -CSSCCCCCTTCCEEECCSSCCSSCCC-CTTCTTCCEEEC------CSSCCSSC-CSCCTTCCEEECCSSCCSCCCCCCT
T ss_pred             -cccccccccccccccccccccccccc-cccccccccccc------cccccccc-ccccccccccccccccccccccccc
Confidence             221                   1121 22 566666665      33333211 1100                 0112


Q ss_pred             CCcEEEccCCee--------------------eec---CCCceEEEeecceeeeeeccccccccccccEEEecCCeeeec
Q 040144          206 NLVTFNLVNNSI--------------------VGF---IPWSFELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLE  262 (289)
Q Consensus       206 ~L~~L~l~~n~~--------------------~~~---~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  262 (289)
                      .+...++..+.+                    .+.   .|...+|++++|.++ .+|.    .+++|++|++++|+++. 
T Consensus       245 ~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N~l~-~lp~----~~~~L~~L~L~~N~L~~-  318 (353)
T d1jl5a_         245 SLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLI-ELPA----LPPRLERLIASFNHLAE-  318 (353)
T ss_dssp             TCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSSCCS-CCCC----CCTTCCEEECCSSCCSC-
T ss_pred             cccccccccccccccccccchhcccccccCccccccccCCCCCEEECCCCccC-cccc----ccCCCCEEECCCCcCCc-
Confidence            233333332222                    110   122228899988887 6765    35788899999999884 


Q ss_pred             cCCCccccccccEEecccccCccCCCC
Q 040144          263 VKHDWIPHFQLVALGLHSCYIGSRFPL  289 (289)
Q Consensus       263 ~~~~~~~~~~L~~l~l~~n~~~~~~p~  289 (289)
                      +|..   +++|+.|++++|+++ .+|+
T Consensus       319 l~~~---~~~L~~L~L~~N~L~-~lp~  341 (353)
T d1jl5a_         319 VPEL---PQNLKQLHVEYNPLR-EFPD  341 (353)
T ss_dssp             CCCC---CTTCCEEECCSSCCS-SCCC
T ss_pred             cccc---cCCCCEEECcCCcCC-CCCc
Confidence            5643   457899999999986 6663

>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=99.65  E-value=2e-16  Score=126.15  Aligned_cols=220  Identities=21%  Similarity=0.150  Sum_probs=149.3

Q ss_pred             CCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCc-cCCCCcc-cccCC
Q 040144           23 GNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQ-LQHFSPL-ATVNF  100 (289)
Q Consensus        23 ~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-l~~~~~~-~l~~~  100 (289)
                      ....+|++|++++|.+........+..+++|++|+++++.+...  ....+..+++|++|++++|. ++..... ....+
T Consensus        43 ~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~--~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~  120 (284)
T d2astb2          43 FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDP--IVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSC  120 (284)
T ss_dssp             CCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHH--HHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHC
T ss_pred             ccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcH--HHHHHhcCCCCcCccccccccccccccchhhHHH
Confidence            34568999999998765443333367899999999999986653  22367788999999999973 4432211 23468


Q ss_pred             CCCcEEeccCC-CCCCcchhhHhhc-CCCCCEEEccCce--eeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-cc
Q 040144          101 SSLTMLDLSHN-QFDNSFILSWVFA-LSHLPFLDLGFNN--FQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LC  175 (289)
Q Consensus       101 ~~L~~L~l~~~-~~~~~~~~~~~~~-~~~L~~L~l~~n~--~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~  175 (289)
                      ++|++|++++| .+++......+.. .+.|+.|+++++.  ++..........+++|++|++++|..+++.....+. ++
T Consensus       121 ~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~  200 (284)
T d2astb2         121 SRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLN  200 (284)
T ss_dssp             TTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCT
T ss_pred             HhccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccC
Confidence            99999999986 4553333444444 4789999998763  332211334457899999999987636666666777 89


Q ss_pred             CcceeeccccccccCC-cccccccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeeccccccccccccEEEe
Q 040144          176 NLKSINLQESLDMRSS-SIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFELHFANLIEMSWFRV  254 (289)
Q Consensus       176 ~L~~L~l~~~l~l~~~-~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l  254 (289)
                      +|++|++      ++| .+++.....++.+++|+.|+++++ +.+.                .+.. ....+++|+   +
T Consensus       201 ~L~~L~L------~~C~~i~~~~l~~L~~~~~L~~L~l~~~-~~d~----------------~l~~-l~~~lp~L~---i  253 (284)
T d2astb2         201 YLQHLSL------SRCYDIIPETLLELGEIPTLKTLQVFGI-VPDG----------------TLQL-LKEALPHLQ---I  253 (284)
T ss_dssp             TCCEEEC------TTCTTCCGGGGGGGGGCTTCCEEECTTS-SCTT----------------CHHH-HHHHSTTSE---E
T ss_pred             cCCEEEC------CCCCCCChHHHHHHhcCCCCCEEeeeCC-CCHH----------------HHHH-HHHhCcccc---c
Confidence            9999987      554 556556667889999999999886 3311                1222 223455554   5


Q ss_pred             cCCeeeeccCCCccccc
Q 040144          255 GGNQLTLEVKHDWIPHF  271 (289)
Q Consensus       255 ~~n~~~~~~~~~~~~~~  271 (289)
                      ..+++++..+..++...
T Consensus       254 ~~~~ls~~~~~~~~~~~  270 (284)
T d2astb2         254 NCSHFTTIARPTIGNKK  270 (284)
T ss_dssp             SCCCSCCTTCSSCSSTT
T ss_pred             cCccCCCCCCCccCccc
Confidence            67778776666665543

>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=99.61  E-value=3.4e-14  Score=116.27  Aligned_cols=241  Identities=20%  Similarity=0.145  Sum_probs=136.7

Q ss_pred             CCCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCcc
Q 040144            1 MGNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLV   80 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~   80 (289)
                      .++|++|++++|+++ .+|..   ..+|++|++++|....+..   +  .+.|++|++++|.+...+.    ...+++|+
T Consensus        57 ~~~L~~L~Ls~N~l~-~lp~~---~~~L~~L~l~~n~l~~l~~---l--p~~L~~L~L~~n~l~~lp~----~~~l~~L~  123 (353)
T d1jl5a_          57 PPHLESLVASCNSLT-ELPEL---PQSLKSLLVDNNNLKALSD---L--PPLLEYLGVSNNQLEKLPE----LQNSSFLK  123 (353)
T ss_dssp             CTTCSEEECCSSCCS-SCCCC---CTTCCEEECCSSCCSCCCS---C--CTTCCEEECCSSCCSSCCC----CTTCTTCC
T ss_pred             CCCCCEEECCCCCCc-ccccc---hhhhhhhhhhhcccchhhh---h--ccccccccccccccccccc----hhhhccce
Confidence            368999999999998 56754   4588999999987665542   1  2469999999998877653    46788999


Q ss_pred             EEEccCCccCCCCcc------------------cccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeee
Q 040144           81 ELRLSNCQLQHFSPL------------------ATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTI  142 (289)
Q Consensus        81 ~L~l~~~~l~~~~~~------------------~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~  142 (289)
                      ++++.++.+......                  .+..++.++.+++..+...  ..+.   .....+.+...++.+. .+
T Consensus       124 ~L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n~~~--~~~~---~~~~~~~l~~~~~~~~-~~  197 (353)
T d1jl5a_         124 IIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLK--KLPD---LPLSLESIVAGNNILE-EL  197 (353)
T ss_dssp             EEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCS--SCCC---CCTTCCEEECCSSCCS-SC
T ss_pred             eeccccccccccccccccccchhhccccccccccccccccceeccccccccc--cccc---cccccccccccccccc-cc
Confidence            999998876543211                  1223344455555444332  0000   0001111111111111 11


Q ss_pred             ChhhhcCCCCccEEeCCCCCcccCCCCcccc------------------ccCcceeeccc--------------cccccC
Q 040144          143 DLEALGNLTSINRLDLSLNTGLTGRIPRSMA------------------LCNLKSINLQE--------------SLDMRS  190 (289)
Q Consensus       143 ~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~------------------~~~L~~L~l~~--------------~l~l~~  190 (289)
                        ..+..++.++.+++++|. .. ..+....                  ...+....+..              ...+..
T Consensus       198 --~~~~~l~~L~~l~l~~n~-~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~  273 (353)
T d1jl5a_         198 --PELQNLPFLTTIYADNNL-LK-TLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASS  273 (353)
T ss_dssp             --CCCTTCTTCCEEECCSSC-CS-SCCSCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSEESCCCTTCCEEECCS
T ss_pred             --cccccccccccccccccc-cc-ccccccccccccccccccccccccccccccccccccccccccccccchhccccccc
Confidence              123344555666655554 22 1111110                  11111111100              011111


Q ss_pred             CcccccccccccCCCCCcEEEccCCeeeecCCCce----EEEeecceeeeeeccccccccccccEEEecCCeeeeccCCC
Q 040144          191 SSIYGHLTDQLGQFRNLVTFNLVNNSIVGFIPWSF----ELHIYDNKLNVTLFELHFANLIEMSWFRVGGNQLTLEVKHD  266 (289)
Q Consensus       191 ~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~----~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~  266 (289)
                      +    .+......+++|++|++++|++. .+|..+    .|++++|+++ ++|.    .+++|++|++++|+++. +|+.
T Consensus       274 ~----~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~~L~~L~L~~N~L~-~l~~----~~~~L~~L~L~~N~L~~-lp~~  342 (353)
T d1jl5a_         274 N----EIRSLCDLPPSLEELNVSNNKLI-ELPALPPRLERLIASFNHLA-EVPE----LPQNLKQLHVEYNPLRE-FPDI  342 (353)
T ss_dssp             S----CCSEECCCCTTCCEEECCSSCCS-CCCCCCTTCCEEECCSSCCS-CCCC----CCTTCCEEECCSSCCSS-CCCC
T ss_pred             C----ccccccccCCCCCEEECCCCccC-ccccccCCCCEEECCCCcCC-cccc----ccCCCCEEECcCCcCCC-CCcc
Confidence            1    12222334679999999999987 444444    8999999998 6776    35689999999999884 6664


Q ss_pred             ccccccccEEec
Q 040144          267 WIPHFQLVALGL  278 (289)
Q Consensus       267 ~~~~~~L~~l~l  278 (289)
                      .   .+|+.|.+
T Consensus       343 ~---~~L~~L~~  351 (353)
T d1jl5a_         343 P---ESVEDLRM  351 (353)
T ss_dssp             C---TTCCEEEC
T ss_pred             c---cccCeeEC
Confidence            3   34555554

>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=99.59  E-value=2.9e-15  Score=112.27  Aligned_cols=128  Identities=21%  Similarity=0.223  Sum_probs=78.7

Q ss_pred             cEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCC
Q 040144           80 VELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLS  159 (289)
Q Consensus        80 ~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~  159 (289)
                      ++++.++++++.++. .+  .+++++|++++|.++.......+..+++|++|++++|.+.... +..+..+++|++|+++
T Consensus        11 ~~v~Cs~~~L~~iP~-~l--p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~-~~~~~~~~~L~~L~Ls   86 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPR-DI--PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIE-PNAFEGASHIQELQLG   86 (192)
T ss_dssp             TEEECTTSCCSSCCS-CC--CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBC-TTTTTTCTTCCEEECC
T ss_pred             CEEEEeCCCcCccCC-CC--CCCCCEEEeCCCCCcccccccccCCCceEeeeecccccccccc-ccccccccccceeeec
Confidence            345555555554422 22  2456666666666641122334556666666776666665332 5566666667777777


Q ss_pred             CCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCCCcEEEccCCeee
Q 040144          160 LNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       160 ~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                      +|. +....+..|. +++|+.|++      ++|.++...+.+|..+++|+++++++|.+.
T Consensus        87 ~N~-l~~l~~~~F~~l~~L~~L~L------~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~  139 (192)
T d1w8aa_          87 ENK-IKEISNKMFLGLHQLKTLNL------YDNQISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             SCC-CCEECSSSSTTCTTCCEEEC------CSSCCCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             ccc-ccccCHHHHhCCCccccccc------CCccccccCHHHhcCCcccccccccccccc
Confidence            666 5544444555 666666665      666777667777888888888888888776

>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=99.58  E-value=2.9e-17  Score=139.51  Aligned_cols=89  Identities=22%  Similarity=0.136  Sum_probs=61.9

Q ss_pred             CCCCcEEEccCCccccc----CCCccCCCCCCcEEeCCCccccccCCCc---cc-CCCCcccEEeccCcccccc--chhh
Q 040144            1 MGNLRYLNFSKTRICGI----IPQQLGNLSNLQFLDLSSKYLLYVDNFL---WL-SGISLLEHLDLRYVNLSIA--FDWL   70 (289)
Q Consensus         1 ~~~L~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~-~~l~~L~~L~l~~~~~~~~--~~~~   70 (289)
                      +++++.|+|.+|.++..    ++..+..+++|++|++++|.+.+.+...   .+ ....+|++|++++|.+...  ..+.
T Consensus        26 l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~it~~~~~~l~  105 (460)
T d1z7xw1          26 LQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLS  105 (460)
T ss_dssp             HTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHH
T ss_pred             CCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCCCCEEECCCCCcccccccccc
Confidence            46788999999987742    3455678889999999988764322111   12 2245799999999987654  2233


Q ss_pred             HhhhcCCCccEEEccCCcc
Q 040144           71 MVANKLLSLVELRLSNCQL   89 (289)
Q Consensus        71 ~~~~~~~~L~~L~l~~~~l   89 (289)
                      ..+..+++|++|++.+|.+
T Consensus       106 ~~l~~~~~L~~L~L~~N~i  124 (460)
T d1z7xw1         106 STLRTLPTLQELHLSDNLL  124 (460)
T ss_dssp             HHTTSCTTCCEEECCSSBC
T ss_pred             chhhccccccccccccccc
Confidence            4567788999999988865

>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=99.57  E-value=9.4e-16  Score=125.66  Aligned_cols=192  Identities=15%  Similarity=0.059  Sum_probs=98.6

Q ss_pred             CccCCCCCCcEEeCCCccccccCC---CcccCCCCcccEEeccCcccccc--------chhhHhhhcCCCccEEEccCCc
Q 040144           20 QQLGNLSNLQFLDLSSKYLLYVDN---FLWLSGISLLEHLDLRYVNLSIA--------FDWLMVANKLLSLVELRLSNCQ   88 (289)
Q Consensus        20 ~~l~~l~~L~~L~l~~~~~~~~~~---~~~~~~l~~L~~L~l~~~~~~~~--------~~~~~~~~~~~~L~~L~l~~~~   88 (289)
                      .++.+...+++|++++|.+...+.   ...+...+.|+.++++++.....        ..+...+..+++|++|++.+|.
T Consensus        25 ~~L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~  104 (344)
T d2ca6a1          25 AVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNA  104 (344)
T ss_dssp             HHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCC
T ss_pred             HHHhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccc
Confidence            334455666666666665433211   11134556666666665532211        1122234455667777777666


Q ss_pred             cCCCCcc----cccCCCCCcEEeccCCCCCCcchh---h---------HhhcCCCCCEEEccCceeeee----eChhhhc
Q 040144           89 LQHFSPL----ATVNFSSLTMLDLSHNQFDNSFIL---S---------WVFALSHLPFLDLGFNNFQGT----IDLEALG  148 (289)
Q Consensus        89 l~~~~~~----~l~~~~~L~~L~l~~~~~~~~~~~---~---------~~~~~~~L~~L~l~~n~~~~~----~~~~~~~  148 (289)
                      ++.....    .+...++|+.|++++|.+.+....   .         .....+.++.+.+++|.+...    + ...+.
T Consensus       105 i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l-~~~l~  183 (344)
T d2ca6a1         105 FGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEW-AKTFQ  183 (344)
T ss_dssp             CCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHH-HHHHH
T ss_pred             cccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccccccccc-cchhh
Confidence            6553222    223456677777766655311000   0         012345666777766665421    1 23344


Q ss_pred             CCCCccEEeCCCCCcccCC-----CCcccc-ccCcceeeccccccccCCccccc----ccccccCCCCCcEEEccCCeee
Q 040144          149 NLTSINRLDLSLNTGLTGR-----IPRSMA-LCNLKSINLQESLDMRSSSIYGH----LTDQLGQFRNLVTFNLVNNSIV  218 (289)
Q Consensus       149 ~~~~L~~L~l~~n~~~~~~-----~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~----~~~~l~~~~~L~~L~l~~n~~~  218 (289)
                      ..+.++++++++|. +...     +...+. ++.|+.|++      ++|.++..    +...+..+++|++|++++|.++
T Consensus       184 ~~~~L~~L~L~~n~-i~~~g~~~~l~~~l~~~~~L~~L~L------s~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~  256 (344)
T d2ca6a1         184 SHRLLHTVKMVQNG-IRPEGIEHLLLEGLAYCQELKVLDL------QDNTFTHLGSSALAIALKSWPNLRELGLNDCLLS  256 (344)
T ss_dssp             HCTTCCEEECCSSC-CCHHHHHHHHHTTGGGCTTCCEEEC------CSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCC
T ss_pred             hhhhhccccccccc-ccccccccchhhhhcchhhhccccc------ccccccccccccccccccccccchhhhhhcCccC
Confidence            55667777777766 4321     122233 556666654      56665432    3344566777777777777766


Q ss_pred             e
Q 040144          219 G  219 (289)
Q Consensus       219 ~  219 (289)
                      +
T Consensus       257 ~  257 (344)
T d2ca6a1         257 A  257 (344)
T ss_dssp             H
T ss_pred             c
Confidence            4

>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=99.57  E-value=3.2e-15  Score=112.06  Aligned_cols=107  Identities=22%  Similarity=0.220  Sum_probs=88.8

Q ss_pred             CcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceee
Q 040144          103 LTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSIN  181 (289)
Q Consensus       103 L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~  181 (289)
                      .+.++.+++.++  .+|..+  .+++++|++++|.+++..+...|..+++|+.|++++|. +....+..+. +++|++|+
T Consensus        10 ~~~v~Cs~~~L~--~iP~~l--p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~-i~~~~~~~~~~~~~L~~L~   84 (192)
T d1w8aa_          10 GTTVDCTGRGLK--EIPRDI--PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQ-LTGIEPNAFEGASHIQELQ   84 (192)
T ss_dssp             TTEEECTTSCCS--SCCSCC--CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSC-CCCBCTTTTTTCTTCCEEE
T ss_pred             CCEEEEeCCCcC--ccCCCC--CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccc-cccccccccccccccceee
Confidence            357888888885  566544  36899999999999755546778899999999999998 7766677777 89999888


Q ss_pred             ccccccccCCcccccccccccCCCCCcEEEccCCeeeec
Q 040144          182 LQESLDMRSSSIYGHLTDQLGQFRNLVTFNLVNNSIVGF  220 (289)
Q Consensus       182 l~~~l~l~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~  220 (289)
                      +      ++|.+....+.+|.++++|++|+|++|.+++.
T Consensus        85 L------s~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i  117 (192)
T d1w8aa_          85 L------GENKIKEISNKMFLGLHQLKTLNLYDNQISCV  117 (192)
T ss_dssp             C------CSCCCCEECSSSSTTCTTCCEEECCSSCCCEE
T ss_pred             e------ccccccccCHHHHhCCCcccccccCCcccccc
Confidence            6      89999988888999999999999999999843

>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=99.53  E-value=1.3e-16  Score=135.52  Aligned_cols=113  Identities=20%  Similarity=0.133  Sum_probs=80.8

Q ss_pred             CCCcEEEccCCcccccC-CCccCCCCCCcEEeCCCccccccCC---CcccCCCCcccEEeccCcccccc--chhhHhhh-
Q 040144            2 GNLRYLNFSKTRICGII-PQQLGNLSNLQFLDLSSKYLLYVDN---FLWLSGISLLEHLDLRYVNLSIA--FDWLMVAN-   74 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~-~~~l~~l~~L~~L~l~~~~~~~~~~---~~~~~~l~~L~~L~l~~~~~~~~--~~~~~~~~-   74 (289)
                      ++|++|+++++++++.. ...+..+++++.|++.+|.+...+.   ...+..++.|++|++++|.+...  ..+...+. 
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~   81 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhc
Confidence            36899999999997532 3335567899999999997654321   11246789999999999988653  22222332 


Q ss_pred             cCCCccEEEccCCccCCCC----cccccCCCCCcEEeccCCCCC
Q 040144           75 KLLSLVELRLSNCQLQHFS----PLATVNFSSLTMLDLSHNQFD  114 (289)
Q Consensus        75 ~~~~L~~L~l~~~~l~~~~----~~~l~~~~~L~~L~l~~~~~~  114 (289)
                      ....|++|++++|.++...    +..+..+++|++|++++|.++
T Consensus        82 ~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~  125 (460)
T d1z7xw1          82 PSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLG  125 (460)
T ss_dssp             TTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             CCCCCCEEECCCCCccccccccccchhhccccccccccccccch
Confidence            2357999999999987643    234567899999999998764

>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=99.52  E-value=2e-14  Score=104.23  Aligned_cols=112  Identities=18%  Similarity=0.099  Sum_probs=57.4

Q ss_pred             cCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCC
Q 040144           22 LGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFS  101 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~  101 (289)
                      +.++..+++|++++|.+..++..  +..+++|++|++++|.+....    .+..+++|++|++++|.+....+..+..++
T Consensus        14 ~~n~~~lr~L~L~~n~I~~i~~~--~~~l~~L~~L~Ls~N~i~~l~----~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~   87 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIPVIENL--GATLDQFDAIDFSDNEIRKLD----GFPLLRRLKTLLVNNNRICRIGEGLDQALP   87 (162)
T ss_dssp             EECTTSCEEEECTTSCCCSCCCG--GGGTTCCSEEECCSSCCCEEC----CCCCCSSCCEEECCSSCCCEECSCHHHHCT
T ss_pred             ccCcCcCcEEECCCCCCCccCcc--ccccccCCEEECCCCCCCccC----CcccCcchhhhhcccccccCCCcccccccc
Confidence            44555666666666655554321  244556666666666555432    344555566666666555554433344455


Q ss_pred             CCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceee
Q 040144          102 SLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQ  139 (289)
Q Consensus       102 ~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  139 (289)
                      +|+.|++++|.+++-.....+..+++|+++++.+|.+.
T Consensus        88 ~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~  125 (162)
T d1a9na_          88 DLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVT  125 (162)
T ss_dssp             TCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGG
T ss_pred             ccccceeccccccccccccccccccccchhhcCCCccc
Confidence            55555555555541111123444555555555555543

>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=99.50  E-value=6.6e-15  Score=120.52  Aligned_cols=232  Identities=16%  Similarity=0.117  Sum_probs=160.2

Q ss_pred             cCCCCcccEEeccCcccccc--chhhHhhhcCCCccEEEccCCccCCCC----------cccccCCCCCcEEeccCCCCC
Q 040144           47 LSGISLLEHLDLRYVNLSIA--FDWLMVANKLLSLVELRLSNCQLQHFS----------PLATVNFSSLTMLDLSHNQFD  114 (289)
Q Consensus        47 ~~~l~~L~~L~l~~~~~~~~--~~~~~~~~~~~~L~~L~l~~~~l~~~~----------~~~l~~~~~L~~L~l~~~~~~  114 (289)
                      +.....++.|++++|.+...  ..+...+...+.|+.+.+.++......          ...+..+++|+.|++++|.++
T Consensus        27 L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~  106 (344)
T d2ca6a1          27 LLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFG  106 (344)
T ss_dssp             HHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCC
T ss_pred             HhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccccc
Confidence            45678899999999987554  233445677899999999987654321          122456789999999999887


Q ss_pred             Ccc---hhhHhhcCCCCCEEEccCceeeeeeC---hhh---------hcCCCCccEEeCCCCCcccCCC----Ccccc-c
Q 040144          115 NSF---ILSWVFALSHLPFLDLGFNNFQGTID---LEA---------LGNLTSINRLDLSLNTGLTGRI----PRSMA-L  174 (289)
Q Consensus       115 ~~~---~~~~~~~~~~L~~L~l~~n~~~~~~~---~~~---------~~~~~~L~~L~l~~n~~~~~~~----~~~~~-~  174 (289)
                      +..   +...+...++|++|++++|.+.....   ..+         ....+.++.+.+++|. +....    ...+. .
T Consensus       107 ~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~-i~~~~~~~l~~~l~~~  185 (344)
T d2ca6a1         107 PTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNR-LENGSMKEWAKTFQSH  185 (344)
T ss_dssp             TTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSC-CTGGGHHHHHHHHHHC
T ss_pred             cccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeeccccc-ccccccccccchhhhh
Confidence            332   23345567899999999998742110   011         1346789999999987 54332    22344 6


Q ss_pred             cCcceeeccccccccCCccccc-----ccccccCCCCCcEEEccCCeeeecC-----------CCceEEEeecceeeeee
Q 040144          175 CNLKSINLQESLDMRSSSIYGH-----LTDQLGQFRNLVTFNLVNNSIVGFI-----------PWSFELHIYDNKLNVTL  238 (289)
Q Consensus       175 ~~L~~L~l~~~l~l~~~~~~~~-----~~~~l~~~~~L~~L~l~~n~~~~~~-----------~~~~~L~l~~n~~~~~~  238 (289)
                      +.|+++++      +.|.+...     +...+..+++|+.|++++|.++...           +....|++++|.+++.-
T Consensus       186 ~~L~~L~L------~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g  259 (344)
T d2ca6a1         186 RLLHTVKM------VQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARG  259 (344)
T ss_dssp             TTCCEEEC------CSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHH
T ss_pred             hhhccccc------ccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCccCchh
Confidence            77888876      77877642     3455778999999999999986431           22228999999987432


Q ss_pred             ccc---ccc--ccccccEEEecCCeeeeccCC----Ccc-ccccccEEecccccCcc
Q 040144          239 FEL---HFA--NLIEMSWFRVGGNQLTLEVKH----DWI-PHFQLVALGLHSCYIGS  285 (289)
Q Consensus       239 ~~~---~~~--~~~~L~~l~l~~n~~~~~~~~----~~~-~~~~L~~l~l~~n~~~~  285 (289)
                      ...   .+.  ..+.|++|++++|.+++....    .+. ++++|+.|++++|++..
T Consensus       260 ~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~~~  316 (344)
T d2ca6a1         260 AAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSE  316 (344)
T ss_dssp             HHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCT
T ss_pred             hHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCcCCC
Confidence            220   222  246799999999999865333    332 56789999999999863

>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=99.49  E-value=7.3e-14  Score=101.23  Aligned_cols=126  Identities=21%  Similarity=0.201  Sum_probs=102.0

Q ss_pred             CCCcEEEccCCcccccCCCccCCCCCCcEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccE
Q 040144            2 GNLRYLNFSKTRICGIIPQQLGNLSNLQFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVE   81 (289)
Q Consensus         2 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~   81 (289)
                      .++++|+|++|.|+. ++..+..+++|+.|++++|.+..++.   +..+++|++|++++|.+...+.  ..+..+++|++
T Consensus        18 ~~lr~L~L~~n~I~~-i~~~~~~l~~L~~L~Ls~N~i~~l~~---~~~l~~L~~L~ls~N~i~~l~~--~~~~~l~~L~~   91 (162)
T d1a9na_          18 VRDRELDLRGYKIPV-IENLGATLDQFDAIDFSDNEIRKLDG---FPLLRRLKTLLVNNNRICRIGE--GLDQALPDLTE   91 (162)
T ss_dssp             TSCEEEECTTSCCCS-CCCGGGGTTCCSEEECCSSCCCEECC---CCCCSSCCEEECCSSCCCEECS--CHHHHCTTCCE
T ss_pred             CcCcEEECCCCCCCc-cCccccccccCCEEECCCCCCCccCC---cccCcchhhhhcccccccCCCc--ccccccccccc
Confidence            478999999999985 56666889999999999998877643   6789999999999999988743  14567999999


Q ss_pred             EEccCCccCCCCc-ccccCCCCCcEEeccCCCCCCcc--hhhHhhcCCCCCEEEc
Q 040144           82 LRLSNCQLQHFSP-LATVNFSSLTMLDLSHNQFDNSF--ILSWVFALSHLPFLDL  133 (289)
Q Consensus        82 L~l~~~~l~~~~~-~~l~~~~~L~~L~l~~~~~~~~~--~~~~~~~~~~L~~L~l  133 (289)
                      |++++|.+..... ..+..+++|+.+++++|.++...  -...+..+++|+.||.
T Consensus        92 L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          92 LILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             ceeccccccccccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeCC
Confidence            9999999987633 46788999999999999885211  1235677899998873

>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=99.45  E-value=5e-13  Score=92.16  Aligned_cols=17  Identities=41%  Similarity=0.436  Sum_probs=7.1

Q ss_pred             cCCCCCCcEEeCCCccc
Q 040144           22 LGNLSNLQFLDLSSKYL   38 (289)
Q Consensus        22 l~~l~~L~~L~l~~~~~   38 (289)
                      +.++++|++|++++|.+
T Consensus        16 l~~l~~L~~L~ls~N~l   32 (124)
T d1dcea3          16 LEQLLLVTHLDLSHNRL   32 (124)
T ss_dssp             GGGGTTCCEEECCSSCC
T ss_pred             cccCCCCCEEECCCCcc
Confidence            34444444444444433

>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=99.43  E-value=7.3e-13  Score=91.32  Aligned_cols=120  Identities=24%  Similarity=0.246  Sum_probs=95.6

Q ss_pred             cEEeCCCccccccCCCcccCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEec
Q 040144           29 QFLDLSSKYLLYVDNFLWLSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDL  108 (289)
Q Consensus        29 ~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l  108 (289)
                      |.|++++|.+...+.   +..++.|++|++++|.+...+.   .+..+++|++|++++|.++..  +.+..+++|+.+++
T Consensus         1 R~L~Ls~n~l~~l~~---l~~l~~L~~L~ls~N~l~~lp~---~~~~l~~L~~L~l~~N~i~~l--~~~~~l~~L~~L~l   72 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH---LEQLLLVTHLDLSHNRLRALPP---ALAALRCLEVLQASDNALENV--DGVANLPRLQELLL   72 (124)
T ss_dssp             SEEECTTSCCSSCCC---GGGGTTCCEEECCSSCCCCCCG---GGGGCTTCCEEECCSSCCCCC--GGGTTCSSCCEEEC
T ss_pred             CEEEcCCCCCCCCcc---cccCCCCCEEECCCCccCcchh---hhhhhhccccccccccccccc--CccccccccCeEEC
Confidence            578999988876653   6789999999999999988765   678899999999999999876  35889999999999


Q ss_pred             cCCCCCCcchhhHhhcCCCCCEEEccCceeeee--eChhhhcCCCCccEE
Q 040144          109 SHNQFDNSFILSWVFALSHLPFLDLGFNNFQGT--IDLEALGNLTSINRL  156 (289)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~--~~~~~~~~~~~L~~L  156 (289)
                      ++|.++.......++.+++|+.+++++|.+.+.  ........+++++.+
T Consensus        73 ~~N~i~~~~~~~~l~~~~~L~~L~l~~N~i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          73 CNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             CSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEE
T ss_pred             CCCccCCCCCchhhcCCCCCCEEECCCCcCCcCccHHHHHHHHCcCcceE
Confidence            999997333334577899999999999988632  213344556777665

>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=99.29  E-value=3.4e-14  Score=106.61  Aligned_cols=108  Identities=22%  Similarity=0.181  Sum_probs=66.9

Q ss_pred             cCCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCC
Q 040144           47 LSGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALS  126 (289)
Q Consensus        47 ~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~  126 (289)
                      +..+++|++|++++|.+....    .+..+++|++|++++|.+..+. .....+++|+.|++++|.++  .+ ..+..++
T Consensus        44 l~~L~~L~~L~Ls~n~I~~i~----~l~~l~~L~~L~Ls~N~i~~i~-~~~~~~~~L~~L~l~~N~i~--~l-~~~~~l~  115 (198)
T d1m9la_          44 LSTLKACKHLALSTNNIEKIS----SLSGMENLRILSLGRNLIKKIE-NLDAVADTLEELWISYNQIA--SL-SGIEKLV  115 (198)
T ss_dssp             HHHTTTCCEEECSEEEESCCC----CHHHHTTCCEEECCEEEECSCS-SHHHHHHHCCEEECSEEECC--CH-HHHHHHH
T ss_pred             HhcccccceeECcccCCCCcc----cccCCccccChhhccccccccc-cccccccccccccccccccc--cc-ccccccc
Confidence            455667777777777666542    3556667777777777766542 22233456777777777765  22 2355667


Q ss_pred             CCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCC
Q 040144          127 HLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       127 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                      +|+.|++++|.++.......+..+++|+.|++++|+
T Consensus       116 ~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~  151 (198)
T d1m9la_         116 NLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             HSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSH
T ss_pred             cccccccccchhccccccccccCCCccceeecCCCc
Confidence            777777777776521111356677777777777776

>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=99.26  E-value=3.1e-13  Score=101.30  Aligned_cols=130  Identities=22%  Similarity=0.199  Sum_probs=85.2

Q ss_pred             chhhHhhcCCCCCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccc
Q 040144          117 FILSWVFALSHLPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYG  195 (289)
Q Consensus       117 ~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~  195 (289)
                      .++..+..+++|++|++++|++. .+ + .+..+++|+.|++++|. +. .+|.... ++.|+.|++      ++|.++.
T Consensus        39 ~l~~sl~~L~~L~~L~Ls~n~I~-~i-~-~l~~l~~L~~L~Ls~N~-i~-~i~~~~~~~~~L~~L~l------~~N~i~~  107 (198)
T d1m9la_          39 KMDATLSTLKACKHLALSTNNIE-KI-S-SLSGMENLRILSLGRNL-IK-KIENLDAVADTLEELWI------SYNQIAS  107 (198)
T ss_dssp             CCHHHHHHTTTCCEEECSEEEES-CC-C-CHHHHTTCCEEECCEEE-EC-SCSSHHHHHHHCCEEEC------SEEECCC
T ss_pred             hhhhHHhcccccceeECcccCCC-Cc-c-cccCCccccChhhcccc-cc-ccccccccccccccccc------ccccccc
Confidence            34556677777888888877776 44 2 46677778888887776 44 4454444 566777765      6666664


Q ss_pred             cccccccCCCCCcEEEccCCeeeecCCCceEEEeecceeeeeecc-ccccccccccEEEecCCeeeeccCCC--------
Q 040144          196 HLTDQLGQFRNLVTFNLVNNSIVGFIPWSFELHIYDNKLNVTLFE-LHFANLIEMSWFRVGGNQLTLEVKHD--------  266 (289)
Q Consensus       196 ~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~L~l~~n~~~~~~~~-~~~~~~~~L~~l~l~~n~~~~~~~~~--------  266 (289)
                      . + .+..+++|+.|++++|.++                  .++. ..+.++++|+.|++++|++....+..        
T Consensus       108 l-~-~~~~l~~L~~L~L~~N~i~------------------~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~  167 (198)
T d1m9la_         108 L-S-GIEKLVNLRVLYMSNNKIT------------------NWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRI  167 (198)
T ss_dssp             H-H-HHHHHHHSSEEEESEEECC------------------CHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHH
T ss_pred             c-c-cccccccccccccccchhc------------------cccccccccCCCccceeecCCCccccCcccccchhhHHH
Confidence            2 2 3566777888877777666                  2321 25677888888888888876544432        


Q ss_pred             --ccccccccEEe
Q 040144          267 --WIPHFQLVALG  277 (289)
Q Consensus       267 --~~~~~~L~~l~  277 (289)
                        +..+++|+.||
T Consensus       168 ~vi~~lp~L~~LD  180 (198)
T d1m9la_         168 EVVKRLPNLKKLD  180 (198)
T ss_dssp             HHHHHCSSCCEES
T ss_pred             HHHHHCCCcCEeC
Confidence              44667787776

>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=99.12  E-value=2.4e-10  Score=81.79  Aligned_cols=83  Identities=17%  Similarity=0.102  Sum_probs=40.2

Q ss_pred             CCEEEccCceeeeeeChhhhcCCCCccEEeCCCCCcccCCCCcccc-ccCcceeeccccccccCCcccccccccccCCCC
Q 040144          128 LPFLDLGFNNFQGTIDLEALGNLTSINRLDLSLNTGLTGRIPRSMA-LCNLKSINLQESLDMRSSSIYGHLTDQLGQFRN  206 (289)
Q Consensus       128 L~~L~l~~n~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~L~~L~l~~~l~l~~~~~~~~~~~~l~~~~~  206 (289)
                      .+.++..++.+. .. +..+..++++++|+++++..++...+..|. +++|+.|++      ++|.+....+.+|..+++
T Consensus        10 ~~~l~c~~~~~~-~~-p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~L------s~N~l~~i~~~~f~~l~~   81 (156)
T d2ifga3          10 SSGLRCTRDGAL-DS-LHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTI------VKSGLRFVAPDAFHFTPR   81 (156)
T ss_dssp             SSCEECCSSCCC-TT-TTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEEC------CSSCCCEECTTGGGSCSC
T ss_pred             CCeEEecCCCCc-cC-cccccCccccCeeecCCCccccccCchhhccccccCccee------eccccCCccccccccccc
Confidence            344455554444 23 444555555666665544212222223344 555555544      555555544555555555


Q ss_pred             CcEEEccCCeee
Q 040144          207 LVTFNLVNNSIV  218 (289)
Q Consensus       207 L~~L~l~~n~~~  218 (289)
                      |+.|++++|+++
T Consensus        82 L~~L~Ls~N~l~   93 (156)
T d2ifga3          82 LSRLNLSFNALE   93 (156)
T ss_dssp             CCEEECCSSCCS
T ss_pred             ccceeccCCCCc
Confidence            555555555554

>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=99.08  E-value=3.5e-10  Score=80.89  Aligned_cols=64  Identities=23%  Similarity=0.123  Sum_probs=29.6

Q ss_pred             hhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCcee
Q 040144           73 ANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNF  138 (289)
Q Consensus        73 ~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~  138 (289)
                      +..+++|+.|++++|.++.+.+..|..+++|+.|++++|.++  .++.......++++|++++|.+
T Consensus        52 f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~--~l~~~~~~~~~l~~L~L~~Np~  115 (156)
T d2ifga3          52 LRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALE--SLSWKTVQGLSLQELVLSGNPL  115 (156)
T ss_dssp             SCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCS--CCCSTTTCSCCCCEEECCSSCC
T ss_pred             hccccccCcceeeccccCCcccccccccccccceeccCCCCc--ccChhhhccccccccccCCCcc
Confidence            444455555555555554444444445555555555555543  2222222223455555555544

>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=98.19  E-value=1.2e-07  Score=67.72  Aligned_cols=66  Identities=24%  Similarity=0.200  Sum_probs=36.9

Q ss_pred             hhcCCCccEEEccCCccCCCCc--ccccCCCCCcEEeccCCCCCCcchhhHhhcCCCCCEEEccCceee
Q 040144           73 ANKLLSLVELRLSNCQLQHFSP--LATVNFSSLTMLDLSHNQFDNSFILSWVFALSHLPFLDLGFNNFQ  139 (289)
Q Consensus        73 ~~~~~~L~~L~l~~~~l~~~~~--~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  139 (289)
                      ...+++|++|++++|.++.+.+  ..+..+++|+.|++++|.+++-... .......++++++.+|.+.
T Consensus        61 ~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l-~~l~~~~L~~L~L~~Npl~  128 (162)
T d1koha1          61 EENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSEREL-DKIKGLKLEELWLDGNSLS  128 (162)
T ss_dssp             HHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGH-HHHTTCCCSSCCCTTSTTS
T ss_pred             HHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhh-hhhhccccceeecCCCCcC
Confidence            3456777777777777766432  2334566666667766666521111 1122345666666666554

>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=98.17  E-value=3.5e-08  Score=70.67  Aligned_cols=85  Identities=26%  Similarity=0.183  Sum_probs=63.7

Q ss_pred             CCCCcccEEeccCccccccchhhHhhhcCCCccEEEccCCccCCCCcccccCCCCCcEEeccCCCCCCcc------hhhH
Q 040144           48 SGISLLEHLDLRYVNLSIAFDWLMVANKLLSLVELRLSNCQLQHFSPLATVNFSSLTMLDLSHNQFDNSF------ILSW  121 (289)
Q Consensus        48 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~L~~L~l~~~~~~~~~------~~~~  121 (289)
                      ..++.|++|++++|.+.....+...+..+++|+.|++++|.+.............++.+++.+|.+....      ....
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i  141 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAI  141 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHH
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHHH
Confidence            4688999999999999887544456788999999999999998865433344567899999999886211      1223


Q ss_pred             hhcCCCCCEEE
Q 040144          122 VFALSHLPFLD  132 (289)
Q Consensus       122 ~~~~~~L~~L~  132 (289)
                      +..+++|+.||
T Consensus       142 ~~~~P~L~~LD  152 (162)
T d1koha1         142 RERFPKLLRLD  152 (162)
T ss_dssp             HTTSTTCCEET
T ss_pred             HHHCCCCCEEC
Confidence            55678888876

>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=98.00  E-value=5.9e-06  Score=59.02  Aligned_cols=41  Identities=17%  Similarity=0.113  Sum_probs=16.6

Q ss_pred             CCcccEEeccCcccccc--chhhHhhhcCCCccEEEccCCccC
Q 040144           50 ISLLEHLDLRYVNLSIA--FDWLMVANKLLSLVELRLSNCQLQ   90 (289)
Q Consensus        50 l~~L~~L~l~~~~~~~~--~~~~~~~~~~~~L~~L~l~~~~l~   90 (289)
                      .+.|++|++++|.+...  ..+...+...+.|++|++++|.++
T Consensus        43 n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~   85 (167)
T d1pgva_          43 SKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLT   85 (167)
T ss_dssp             CSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCC
T ss_pred             CCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcc
Confidence            34444444444444332  122223333444444444444443

>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=97.92  E-value=7.2e-06  Score=58.53  Aligned_cols=113  Identities=12%  Similarity=0.121  Sum_probs=69.3

Q ss_pred             CCCcccEEeccCc-ccccc--chhhHhhhcCCCccEEEccCCccCCCCc----ccccCCCCCcEEeccCCCCCCcchhh-
Q 040144           49 GISLLEHLDLRYV-NLSIA--FDWLMVANKLLSLVELRLSNCQLQHFSP----LATVNFSSLTMLDLSHNQFDNSFILS-  120 (289)
Q Consensus        49 ~l~~L~~L~l~~~-~~~~~--~~~~~~~~~~~~L~~L~l~~~~l~~~~~----~~l~~~~~L~~L~l~~~~~~~~~~~~-  120 (289)
                      +.+.|++|+++++ .+...  ..+...+...+.|++|++++|.+.....    ..+...+.|+.|++++|.+++..... 
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHH
Confidence            4567777777764 34332  2344456677888888888887764322    23345677888888888887332222 


Q ss_pred             --HhhcCCCCCEEEccCceeee-------eeChhhhcCCCCccEEeCCCCC
Q 040144          121 --WVFALSHLPFLDLGFNNFQG-------TIDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       121 --~~~~~~~L~~L~l~~n~~~~-------~~~~~~~~~~~~L~~L~l~~n~  162 (289)
                        .+...+.|++|++.+|....       .+ ..++...+.|+.++++.+.
T Consensus        93 ~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l-~~~L~~n~sL~~l~l~~~~  142 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQRQSVLGNQVEMDM-MMAIEENESLLRVGISFAS  142 (167)
T ss_dssp             HHHTTTTCCCSEEECCCCSSCCCCHHHHHHH-HHHHHHCSSCCEEECCCCC
T ss_pred             HHHHHhCCcCCEEECCCCcCCCccHHHHHHH-HHHHHhCCCccEeeCcCCC
Confidence              33445678888887764321       12 3445556778888776543

>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=97.48  E-value=4.5e-05  Score=54.17  Aligned_cols=42  Identities=7%  Similarity=0.020  Sum_probs=17.9

Q ss_pred             CCCcccEEeccCcccccc--chhhHhhhcCCCccEEEccCCccC
Q 040144           49 GISLLEHLDLRYVNLSIA--FDWLMVANKLLSLVELRLSNCQLQ   90 (289)
Q Consensus        49 ~l~~L~~L~l~~~~~~~~--~~~~~~~~~~~~L~~L~l~~~~l~   90 (289)
                      ..++|++|++++|.+...  ..+...+...+.++.+++.+|.++
T Consensus        44 ~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~   87 (166)
T d1io0a_          44 TNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFIS   87 (166)
T ss_dssp             TCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCC
T ss_pred             cCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhcccccc
Confidence            344455555555544332  112223334444555554444443

>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=97.45  E-value=5.3e-05  Score=53.77  Aligned_cols=113  Identities=13%  Similarity=0.092  Sum_probs=67.9

Q ss_pred             CCCcccEEeccCc-ccccc--chhhHhhhcCCCccEEEccCCccCCCCc----ccccCCCCCcEEeccCCCCCCcchh--
Q 040144           49 GISLLEHLDLRYV-NLSIA--FDWLMVANKLLSLVELRLSNCQLQHFSP----LATVNFSSLTMLDLSHNQFDNSFIL--  119 (289)
Q Consensus        49 ~l~~L~~L~l~~~-~~~~~--~~~~~~~~~~~~L~~L~l~~~~l~~~~~----~~l~~~~~L~~L~l~~~~~~~~~~~--  119 (289)
                      +.+.|++|+++++ .+...  ..+...+...++|++|++++|.++....    ..+...+.++.++++++.+++....  
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l   94 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILAL   94 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHH
Confidence            4567777777763 34332  2344456677888888888887765322    2334567788888888877632222  


Q ss_pred             -hHhhcCCCCCEEEcc--Cceeeee----eChhhhcCCCCccEEeCCCCC
Q 040144          120 -SWVFALSHLPFLDLG--FNNFQGT----IDLEALGNLTSINRLDLSLNT  162 (289)
Q Consensus       120 -~~~~~~~~L~~L~l~--~n~~~~~----~~~~~~~~~~~L~~L~l~~n~  162 (289)
                       ..+...++++.+++.  +|.+...    + ...+...+.|+.|++..+.
T Consensus        95 ~~~l~~~~~L~~l~L~l~~n~i~~~~~~~L-a~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          95 VEALQSNTSLIELRIDNQSQPLGNNVEMEI-ANMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHGGGGCSSCCEEECCCCSSCCCHHHHHHH-HHHHHHCSSCCEEECCCSS
T ss_pred             HHHHHhCccccEEeeccCCCcCcHHHHHHH-HHHHHhCCCcCEEeCcCCC
Confidence             234455677766554  4445321    2 3445567778888876654